ISOLATED POLYNUCLEOTIDES AND POLYPEPTIDES, AND METHODS OF USING SAME FOR INCREASING NITROGEN USE EFFICIENCY OF PLANTS

FIELD AND BACKGROUND OF THE INVENTION

The present invention, in some embodiments thereof, relates to novel polynucleotides and polypeptides which can increase nitrogen use efficiency, fertilizer use efficiency, yield (e.g., seed/grain yield, oil yield), growth rate, vigor, biomass, oil content, fiber yield, fiber quality and/or length, abiotic stress tolerance and/or water use efficiency of a plant.

A common approach to promote plant growth has been, and continues to be, the use of natural as well as synthetic nutrients (fertilizers). Thus, fertilizers are the fuel behind the "green revolution", directly responsible for the exceptional increase in crop yields during the last 40 years, and are considered the number one overhead expense in agriculture. For example, inorganic nitrogenous fertilizers such as ammonium nitrate, potassium nitrate, or urea, typically accounts for 40 % of the costs associated with crops such as corn and wheat.

Of the three macronutrients provided as main fertilizers [Nitrogen (N), Phosphate (P) and Potassium (K)], nitrogen is often the rate-limiting element in plant growth and all field crops have a fundamental dependence on inorganic nitrogenous fertilizer. Nitrogen is responsible for biosynthesis of amino and nucleic acids, prosthetic groups, plant hormones, plant chemical defenses, etc. and usually needs to be replenished every year, particularly for cereals, which comprise more than half of the cultivated areas worldwide. Thus, nitrogen is translocated to the shoot, where it is stored in the leaves and stalk during the rapid step of plant development and up until flowering. In corn for example, plants accumulate the bulk of their organic nitrogen during the period of grain germination, and until flowering. Once fertilization of the plant has occurred, grains begin to form and become the main sink of plant nitrogen. The stored nitrogen can be then redistributed from the leaves and stalk that served as storage compartments until grain formation.

Since fertilizer is rapidly depleted from most soil types, it must be supplied to growing crops two or three times during the growing season. In addition, the low nitrogen use efficiency (NUE) of the main crops (e.g., in the range of only 30-70 %) negatively affects the input expenses for the farmer, due to the excess fertilizer applied.

Moreover, the over and inefficient use of fertilizers are major factors responsible for environmental problems such as eu trophic ation of groundwater, lakes, rivers and seas, nitrate pollution in drinking water which can cause methemoglobinemia, phosphate pollution, atmospheric pollution and the like. However, in spite of the negative impact of fertilizers on the environment, and the limits on fertilizer use, which have been legislated in several countries, the use of fertilizers is expected to increase in order to support food and fiber production for rapid population growth on limited land resources.

For example, it has been estimated that by 2050, more than 150 million tons of nitrogenous fertilizer will be used worldwide annually.

Increased use efficiency of nitrogen by plants should enable crops to be cultivated with lower fertilizer input, or alternatively to be cultivated on soils of poorer quality and would therefore have significant economic impact in both developed and developing agricultural systems.

Genetic improvement of fertilizer use efficiency (FUE) in plants can be generated either via traditional breeding or via genetic engineering.

Attempts to generate plants with increased FUE have been described in U.S. Pat.

Appl. Publication No. 20020046419 (U.S. Patent No. 7,262,055 to Choo, et al.); U.S.

Pat. Appl. No. 20050108791 to Edgerton et al.; U.S. Pat. Appl. No. 20060179511 to Chomet et al.; Good, A, et al. 2007 (Engineering nitrogen use efficiency with alanine aminotransferase. Canadian Journal of Botany 85: 252-262); and Good AG et al. 2004

(Trends Plant Sci. 9:597-605).

Yanagisawa et al. (Proc. Natl. Acad. Sci. U.S.A. 2004 101:7833-8) describe

Dofl transgenic plants which exhibit improved growth under low-nitrogen conditions.

U.S. Pat. No. 6,084,153 to Good et al. discloses the use of a stress responsive promoter to control the expression of Alanine Amine Transferase (AlaAT) and transgenic canola plants with improved drought and nitrogen deficiency tolerance when compared to control plants.

Yield is affected by various factors, such as, the number and size of the plant organs, plant architecture (for example, the number of branches), grains set length, number of filled grains, vigor (e.g. seedling), growth rate, root development, utilization of water, nutrients (e.g., nitrogen) and fertilizers, and stress tolerance. Crops such as, corn, rice, wheat, canola and soybean account for over half of total human caloric intake, whether through direct consumption of the seeds themselves or through consumption of meat products raised on processed seeds or forage. Seeds are also a source of sugars, proteins and oils and metabolites used in industrial processes. The ability to increase plant yield, whether through increase dry matter accumulation rate, modifying cellulose or lignin composition, increase stalk strength, enlarge meristem size, change of plant branching pattern, erectness of leaves, increase in fertilization efficiency, enhanced seed dry matter accumulation rate, modification of seed development, enhanced seed filling or by increasing the content of oil, starch or protein in the seeds would have many applications in agricultural and non-agricultural uses such as in the biotechnological production of pharmaceuticals, antibodies or vaccines.

Vegetable or seed oils are the major source of energy and nutrition in human and animal diet. They are also used for the production of industrial products, such as paints, inks and lubricants. In addition, plant oils represent renewable sources of long-chain hydrocarbons which can be used as fuel. Since the currently used fossil fuels are finite resources and are gradually being depleted, fast growing biomass crops may be used as alternative fuels or for energy feedstocks and may reduce the dependence on fossil energy supplies. However, the major bottleneck for increasing consumption of plant oils as bio-fuel is the oil price, which is still higher than fossil fuel. In addition, the production rate of plant oil is limited by the availability of agricultural land and water. Thus, increasing plant oil yields from the same growing area can effectively overcome the shortage in production space and can decrease vegetable oil prices at the same time.

Studies aiming at increasing plant oil yields focus on the identification of genes involved in oil metabolism as well as in genes capable of increasing plant and seed yields in transgenic plants. Genes known to be involved in increasing plant oil yields include those participating in fatty acid synthesis or sequestering such as desaturase [e.g., DELTA6, DELTA12 or acyl-ACP (Ssi2; Arabidopsis Information Resource (TAIR; arabidopsis (dot) org/), TAIR No. AT2G43710)], OleosinA (TAIR No. AT3G01570) or FAD3 (TAIR No. AT2G29980), and various transcription factors and activators such as Lecl [TAIR No. AT1G21970, Lotan et al. 1998. Cell. 26;93(7): 1195- 205], Lec2 [TAIR No. AT1G28300, Santos Mendoza et al. 2005, FEBS Lett. 579(21):4666-70], Fus3 (TAIR No. AT3G26790), ABB [TAIR No. AT3G24650, Lara et al. 2003. J Biol Chem. 278(23): 21003-11] and Wril [TAIR No. AT3G54320, Cernac and Benning, 2004. Plant J. 40(4): 575-85].

Genetic engineering efforts aiming at increasing oil content in plants (e.g., in seeds) include upregulating endoplasmic reticulum (FAD3) and plastidal (FAD7) fatty acid desaturases in potato (Zabrouskov V., et al., 2002; Physiol Plant. 116: 172-185); over-expressing the GmDof4 and GmDofl l transcription factors (Wang HW et al., 2007; Plant J. 52:716-29); over-expressing a yeast glycerol-3-phosphate dehydrogenase under the control of a seed-specific promoter (Vigeolas H, et al. 2007, Plant Biotechnol J. 5:431-41; U.S. Pat. Appl. No. 20060168684); using Arabidopsis FAE1 and yeast SLCl-1 genes for improvements in erucic acid and oil content in rapeseed (Katavic V, et al., 2000, Biochem Soc Trans. 28:935-7).

Various patent applications disclose genes and proteins which can increase oil content in plants. These include for example, U.S. Pat. Appl. No. 20080076179 (lipid metabolism protein); U.S. Pat. Appl. No. 20060206961 (the Yprl40w polypeptide); U.S. Pat. Appl. No. 20060174373 [triacylglycerols synthesis enhancing protein (TEP)]; U.S. Pat. Appl. Nos. 20070169219, 20070006345, 20070006346 and 20060195943 (disclose transgenic plants with improved nitrogen use efficiency which can be used for the conversion into fuel or chemical feedstocks); WO2008/122980 (polynucleotides for increasing oil content, growth rate, biomass, yield and/or vigor of a plant).

Abiotic stress (ABS; also referred to as "environmental stress") conditions such as salinity, drought, flood, suboptimal temperature and toxic chemical pollution, cause substantial damage to agricultural plants. Most plants have evolved strategies to protect themselves against these conditions. However, if the severity and duration of the stress conditions are too great, the effects on plant development, growth and yield of most crop plants are profound. Furthermore, most of the crop plants are highly susceptible to abiotic stress and thus necessitate optimal growth conditions for commercial crop yields. Continuous exposure to stress causes major alterations in the plant metabolism which ultimately leads to cell death and consequently yield losses.

Drought is a gradual phenomenon, which involves periods of abnormally dry weather that persists long enough to produce serious hydrologic imbalances such as crop damage, water supply shortage and increased susceptibility to various diseases. In severe cases, drought can last many years and results in devastating effects on agriculture and water supplies. Furthermore, drought is associated with increase susceptibility to various diseases.

For most crop plants, the land regions of the world are too arid. In addition, overuse of available water results in increased loss of agriculturally-usable land (desertification), and increase of salt accumulation in soils adds to the loss of available water in soils.

Salinity, high salt levels, affects one in five hectares of irrigated land. None of the top five food crops, i.e., wheat, corn, rice, potatoes, and soybean, can tolerate excessive salt. Detrimental effects of salt on plants result from both water deficit, which leads to osmotic stress (similar to drought stress), and the effect of excess sodium ions on critical biochemical processes. As with freezing and drought, high salt causes water deficit; and the presence of high salt makes it difficult for plant roots to extract water from their environment. Soil salinity is thus one of the more important variables that determine whether a plant may thrive. In many parts of the world, sizable land areas are uncultivable due to naturally high soil salinity. Thus, salination of soils that are used for agricultural production is a significant and increasing problem in regions that rely heavily on agriculture, and is worsen by over-utilization, over-fertilization and water shortage, typically caused by climatic change and the demands of increasing population. Salt tolerance is of particular importance early in a plant's lifecycle, since evaporation from the soil surface causes upward water movement, and salt accumulates in the upper soil layer where the seeds are placed. On the other hand, germination normally takes place at a salt concentration which is higher than the mean salt level in the whole soil profile.

Salt and drought stress signal transduction consist of ionic and osmotic homeostasis signaling pathways. The ionic aspect of salt stress is signaled via the SOS pathway where a calcium-responsive SOS3-SOS2 protein kinase complex controls the expression and activity of ion transporters such as SOS 1. The osmotic component of salt stress involves complex plant reactions that overlap with drought and/or cold stress responses.

Suboptimal temperatures affect plant growth and development through the whole plant life cycle. Thus, low temperatures reduce germination rate and high temperatures result in leaf necrosis. In addition, mature plants that are exposed to excess of heat may experience heat shock, which may arise in various organs, including leaves and particularly fruit, when transpiration is insufficient to overcome heat stress. Heat also damages cellular structures, including organelles and cytoskeleton, and impairs membrane function. Heat shock may produce a decrease in overall protein synthesis, accompanied by expression of heat shock proteins, e.g., chaperones, which are involved in refolding proteins denatured by heat. High-temperature damage to pollen almost always occurs in conjunction with drought stress, and rarely occurs under well-watered conditions. Combined stress can alter plant metabolism in novel ways. Excessive chilling conditions, e.g., low, but above freezing, temperatures affect crops of tropical origins, such as soybean, rice, maize, and cotton. Typical chilling damage includes wilting, necrosis, chlorosis or leakage of ions from cell membranes. The underlying mechanisms of chilling sensitivity are not completely understood yet, but probably involve the level of membrane saturation and other physiological deficiencies. Excessive light conditions, which occur under clear atmospheric conditions subsequent to cold late summer/autumn nights, can lead to photoinhibition of photosynthesis (disruption of photosynthesis). In addition, chilling may lead to yield losses and lower product quality through the delayed ripening of maize.

Common aspects of drought, cold and salt stress response [Reviewed in Xiong and Zhu (2002) Plant Cell Environ. 25: 131-139] include: (a) transient changes in the cytoplasmic calcium levels early in the signaling event; (b) signal transduction via mitogen-activated and/or calcium dependent protein kinases (CDPKs) and protein phosphatases; (c) increases in abscisic acid levels in response to stress triggering a subset of responses; (d) inositol phosphates as signal molecules (at least for a subset of the stress responsive transcriptional changes; (e) activation of phospholipases which in turn generates a diverse array of second messenger molecules, some of which might regulate the activity of stress responsive kinases; (f) induction of late embryo genesis abundant (LEA) type genes including the CRT/DRE responsive COR/RD genes; (g) increased levels of antioxidants and compatible osmolytes such as proline and soluble sugars; and (h) accumulation of reactive oxygen species such as superoxide, hydrogen peroxide, and hydroxyl radicals. Abscisic acid biosynthesis is regulated by osmotic stress at multiple steps. Both ABA-dependent and -independent osmotic stress signaling first modify constitutively expressed transcription factors, leading to the expression of early response transcriptional activators, which then activate downstream stress tolerance effector genes.

Several genes which increase tolerance to cold or salt stress can also improve drought stress protection, these include for example, the transcription factor AtCBF/DREB l, OsCDPK7 (Saijo et al. 2000, Plant J. 23: 319-327) or AVP1 (a vacuolar pyrophosphatase-proton pump, Gaxiola et al. 2001, Proc. Natl. Acad. Sci. USA 98: 11444-11449).

Studies have shown that plant adaptations to adverse environmental conditions are complex genetic traits with polygenic nature. Conventional means for crop and horticultural improvements utilize selective breeding techniques to identify plants having desirable characteristics. However, selective breeding is tedious, time consuming and has an unpredictable outcome. Furthermore, limited germplasm resources for yield improvement and incompatibility in crosses between distantly related plant species represent significant problems encountered in conventional breeding. Advances in genetic engineering have allowed mankind to modify the germplasm of plants by expression of genes-of-interest in plants. Such a technology has the capacity to generate crops or plants with improved economic, agronomic or horticultural traits.

Genetic engineering efforts, aimed at conferring abiotic stress tolerance to transgenic crops, have been described in various publications [Apse and Blumwald (Curr Opin Biotechnol. 13: 146-150, 2002), Quesada et al. (Plant Physiol. 130:951-963, 2002), Holmstrom et al. (Nature 379: 683-684, 1996), Xu et al. (Plant Physiol 110: 249- 257, 1996), Pilon-Smits and Ebskamp (Plant Physiol 107: 125-130, 1995) and Tarczynski et al. (Science 259: 508-510, 1993)].

Various patents and patent applications disclose genes and proteins which can be used for increasing tolerance of plants to abiotic stresses. These include for example, U.S. Pat. Nos. 5,296,462 and 5,356,816 (for increasing tolerance to cold stress); U.S. Pat. No. 6,670,528 (for increasing ABST); U.S. Pat. No. 6,720,477 (for increasing ABST); U.S. Application Ser. Nos. 09/938842 and 10/342224 (for increasing ABST); U.S. Application Ser. No. 10/231035 (for increasing ABST); WO2004/104162 (for increasing ABST and biomass); WO2007/020638 (for increasing ABST, biomass, vigor and/or yield); WO2007/049275 (for increasing ABST, biomass, vigor and/or yield); WO2010/076756 (for increasing ABST, biomass and/or yield);. WO2009/083958 (for increasing water use efficiency, fertilizer use efficiency, biotic/abiotic stress tolerance, yield and/or biomass); WO2010/020941 (for increasing nitrogen use efficiency, abiotic stress tolerance, yield and/or biomass); WO2009/141824 (for increasing plant utility); WO2010/049897 (for increasing plant yield).

Nutrient deficiencies cause adaptations of the root architecture, particularly notably for example is the root proliferation within nutrient rich patches to increase nutrient uptake. Nutrient deficiencies cause also the activation of plant metabolic pathways which maximize the absorption, assimilation and distribution processes such as by activating architectural changes. Engineering the expression of the triggered genes may cause the plant to exhibit the architectural changes and enhanced metabolism also under other conditions.

In addition, it is widely known that the plants usually respond to water deficiency by creating a deeper root system that allows access to moisture located in deeper soil layers. Triggering this effect will allow the plants to access nutrients and water located in deeper soil horizons particularly those readily dissolved in water like nitrates.

Cotton and cotton by-products provide raw materials that are used to produce a wealth of consumer-based products in addition to textiles including cotton foodstuffs, livestock feed, fertilizer and paper. The production, marketing, consumption and trade of cotton-based products generate an excess of $100 billion annually in the U.S. alone, making cotton the number one value-added crop.

Even though 90 % of cotton's value as a crop resides in the fiber (lint), yield and fiber quality has declined due to general erosion in genetic diversity of cotton varieties, and an increased vulnerability of the crop to environmental conditions.

There are many varieties of cotton plant, from which cotton fibers with a range of characteristics can be obtained and used for various applications. Cotton fibers may be characterized according to a variety of properties, some of which are considered highly desirable within the textile industry for the production of increasingly high quality products and optimal exploitation of modem spinning technologies. Commercially desirable properties include length, length uniformity, fineness, maturity ratio, decreased fuzz fiber production, micronaire, bundle strength, and single fiber strength. Much effort has been put into the improvement of the characteristics of cotton fibers mainly focusing on fiber length and fiber fineness. In particular, there is a great demand for cotton fibers of specific lengths.

A cotton fiber is composed of a single cell that has differentiated from an epidermal cell of the seed coat, developing through four stages, i.e., initiation, elongation, secondary cell wall thickening and maturation stages. More specifically, the elongation of a cotton fiber commences in the epidermal cell of the ovule immediately following flowering, after which the cotton fiber rapidly elongates for approximately 21 days. Fiber elongation is then terminated, and a secondary cell wall is formed and grown through maturation to become a mature cotton fiber.

Several candidate genes which are associated with the elongation, formation, quality and yield of cotton fibers were disclosed in various patent applications such as U.S. Pat. No. 5,880,100 and U.S. patent applications Ser. Nos. 08/580,545, 08/867,484 and 09/262,653 (describing genes involved in cotton fiber elongation stage); WO0245485 (improving fiber quality by modulating sucrose synthase); U.S. Pat. No. 6,472,588 and WO0117333 (increasing fiber quality by transformation with a DNA encoding sucrose phosphate synthase); WO9508914 (using a fiber- specific promoter and a coding sequence encoding cotton peroxidase); W09626639 (using an ovary specific promoter sequence to express plant growth modifying hormones in cotton ovule tissue, for altering fiber quality characteristics such as fiber dimension and strength); U.S. Pat. No. 5,981,834, U.S. Pat. No. 5,597,718, U.S. Pat. No. 5,620,882, U.S. Pat. No. 5,521,708 and U.S. Pat. No. 5,495,070 (coding sequences to alter the fiber characteristics of transgenic fiber producing plants); U.S. patent applications U.S. 2002049999 and U.S. 2003074697 (expressing a gene coding for endoxyloglucan transferase, catalase or peroxidase for improving cotton fiber characteristics); WO 01/40250 (improving cotton fiber quality by modulating transcription factor gene expression); WO 96/40924 (a cotton fiber transcriptional initiation regulatory region associated which is expressed in cotton fiber); EP0834566 (a gene which controls the fiber formation mechanism in cotton plant); WO2005/121364 (improving cotton fiber quality by modulating gene expression); WO2008/075364 (improving fiber quality, yield/biomass/vigor and/or abiotic stress tolerance of plants). WO publication No. 2004/104162 discloses methods of increasing abiotic stress tolerance and/or biomass in plants and plants generated thereby.

WO publication No. 2004/111183 discloses nucleotide sequences for regulating gene expression in plant trichomes and constructs and methods utilizing same.

WO publication No. 2004/081173 discloses novel plant derived regulatory sequences and constructs and methods of using such sequences for directing expression of exogenous polynucleotide sequences in plants.

WO publication No. 2005/121364 discloses polynucleotides and polypeptides involved in plant fiber development and methods of using same for improving fiber quality, yield and/or biomass of a fiber producing plant.

WO publication No. 2007/049275 discloses isolated polypeptides, polynucleotides encoding same, transgenic plants expressing same and methods of using same for increasing fertilizer use efficiency, plant abiotic stress tolerance and biomass.

WO publication No. 2007/020638 discloses methods of increasing abiotic stress tolerance and/or biomass in plants and plants generated thereby.

WO publication No. 2008/122980 discloses genes constructs and methods for increasing oil content, growth rate and biomass of plants.

WO publication No. 2008/075364 discloses polynucleotides involved in plant fiber development and methods of using same.

WO publication No. 2009/083958 discloses methods of increasing water use efficiency, fertilizer use efficiency, biotic/abiotic stress tolerance, yield and biomass in plant and plants generated thereby.

WO publication No. 2009/141824 discloses isolated polynucleotides and methods using same for increasing plant utility.

WO publication No. 2009/013750 discloses genes, constructs and methods of increasing abiotic stress tolerance, biomass and/or yield in plants generated thereby.

WO publication No. 2010/020941 discloses methods of increasing nitrogen use efficiency, abiotic stress tolerance, yield and biomass in plants and plants generated thereby. WO publication No. 2010/076756 discloses isolated polynucleotides for increasing abiotic stress tolerance, yield, biomass, growth rate, vigor, oil content, fiber yield, fiber quality, and/or nitrogen use efficiency of a plant.

WO2010/100595 publication discloses isolated polynucleotides and polypeptides, and methods of using same for increasing plant yield and/or agricultural characteristics.

WO publication No. 2010/049897 discloses isolated polynucleotides and polypeptides and methods of using same for increasing plant yield, biomass, growth rate, vigor, oil content, abiotic stress tolerance of plants and nitrogen use efficiency.

WO2010/143138 publication discloses isolated polynucleotides and polypeptides, and methods of using same for increasing nitrogen use efficiency, fertilizer use efficiency, yield, growth rate, vigor, biomass, oil content, abiotic stress tolerance and/or water use efficiency.

WO publication No. 2011/080674 discloses isolated polynucleotides and polypeptides and methods of using same for increasing plant yield, biomass, growth rate, vigor, oil content, abiotic stress tolerance of plants and nitrogen use efficiency.

WO2011/015985 publication discloses polynucleotides and polypeptides for increasing desirable plant qualities.

WO2011/135527 publication discloses isolated polynucleotides and polypeptides for increasing plant yield and/or agricultural characteristics.

WO2012/028993 publication discloses isolated polynucleotides and polypeptides, and methods of using same for increasing nitrogen use efficiency, yield, growth rate, vigor, biomass, oil content, and/or abiotic stress tolerance.

WO2012/085862 publication discloses isolated polynucleotides and polypeptides, and methods of using same for improving plant properties.

WO2012/150598 publication discloses isolated polynucleotides and polypeptides and methods of using same for increasing plant yield, biomass, growth rate, vigor, oil content, abiotic stress tolerance of plants and nitrogen use efficiency.

WO2013/027223 publication discloses isolated polynucleotides and polypeptides, and methods of using same for increasing plant yield and/or agricultural characteristics. WO2013/080203 publication discloses isolated polynucleotides and polypeptides, and methods of using same for increasing nitrogen use efficiency, yield, growth rate, vigor, biomass, oil content, and/or abiotic stress tolerance.

WO2013/098819 publication discloses isolated polynucleotides and polypeptides, and methods of using same for increasing yield of plants.

WO2013/128448 publication discloses isolated polynucleotides and polypeptides and methods of using same for increasing plant yield, biomass, growth rate, vigor, oil content, abiotic stress tolerance of plants and nitrogen use efficiency. SUMMARY OF THE INVENTION

According to an aspect of some embodiments of the present invention there is provided a method of increasing nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant, comprising expressing within the plant an exogenous polynucleotide comprising a nucleic acid sequence encoding a polypeptide at least 80 % identical to SEQ ID NO: 202-219, 221-292, 295-327, 4064- 4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225- 5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, 6792-6892 or 6893, thereby increasing the nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of the plant.

According to an aspect of some embodiments of the present invention there is provided a method of increasing nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant, comprising expressing within the plant an exogenous polynucleotide comprising a nucleic acid sequence encoding a polypeptide selected from the group consisting of SEQ ID NOs: 202-327 and 4064- 6893, thereby increasing the nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of the plant.

According to an aspect of some embodiments of the present invention there is provided a method of producing a crop comprising growing a crop plant transformed with an exogenous polynucleotide comprising a nucleic acid sequence encoding a polypeptide at least 80 % homologous (e.g., identical) to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295-327, 4064- 4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225- 5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, and 6792- 6893, wherein the crop plant is derived from plants selected for increased nitrogen use efficiency, increased yield, increased growth rate, increased biomass, increased vigor, increased oil content, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased abiotic stress tolerance as compared to a wild type plant of the same species which is grown under the same growth conditions, and the crop plant having the increased nitrogen use efficiency, increased yield, increased growth rate, increased biomass, increased vigor, increased oil content, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased abiotic stress tolerance, thereby producing the crop.

According to an aspect of some embodiments of the present invention there is provided a method of increasing nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant, comprising expressing within the plant an exogenous polynucleotide comprising a nucleic acid sequence at least 80 % identical to SEQ ID NO: 1-91, 94-201, 328-2317, 2320-2321, 2323, 2326-3835, 3838- 3840, 3842-3843, 3848, 3850-3852, 3854, 3856-3953, 3955-4061 or 4062, thereby increasing the nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of the plant.

According to an aspect of some embodiments of the present invention there is provided a method of increasing nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant, comprising expressing within the plant an exogenous polynucleotide comprising the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 1-201 and 328-4062, thereby increasing the nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of the plant.

According to an aspect of some embodiments of the present invention there is provided a method of producing a crop comprising growing a crop plant transformed with an exogenous polynucleotide which comprises a nucleic acid sequence which is at least 80 % identical to the nucleic acid sequence selected from the group consisting of SEQ ID NOs: l-91, 94-201, 328-2317, 2320-2321, 2323, 2326-3835, 3838-3840, 3842- 3843, 3848, 3850-3852, 3854, 3856-3953, and 3955-4062, wherein the crop plant is derived from plants selected for increased nitrogen use efficiency, increased yield, increased growth rate, increased biomass, increased vigor, increased oil content, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased abiotic stress tolerance as compared to a wild type plant of the same species which is grown under the same growth conditions, and the crop plant having the increased nitrogen use efficiency, increased yield, increased growth rate, increased biomass, increased vigor, increased oil content, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased abiotic stress tolerance, thereby producing the crop.

According to an aspect of some embodiments of the present invention there is provided an isolated polynucleotide comprising a nucleic acid sequence encoding a polypeptide which comprises an amino acid sequence at least 80 % homologous to the amino acid sequence set forth in SEQ ID NO:202-219, 221-292, 295-327 and 4064- 4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225- 5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, 6792-6892, or 6893, wherein the amino acid sequence is capable of increasing nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant.

According to an aspect of some embodiments of the present invention there is provided an isolated polynucleotide comprising a nucleic acid sequence encoding a polypeptide which comprises the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893. According to an aspect of some embodiments of the present invention there is provided an isolated polynucleotide comprising a nucleic acid sequence at least 80 % identical to SEQ ID NO: 1-91, 94-201, 328-2317, 2320-2321, 2323, 2326-3835, 3838- 3840, 3842-3843, 3848, 3850-3852, 3854, 3856-3953, 3955-4061 or 4062, wherein the nucleic acid sequence is capable of increasing nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant.

According to an aspect of some embodiments of the present invention there is provided an isolated polynucleotide comprising the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 1-201 and 328-4062.

According to an aspect of some embodiments of the present invention there is provided a nucleic acid construct comprising the isolated polynucleotide of some embodiments of the invention, and a promoter for directing transcription of the nucleic acid sequence in a host cell.

According to an aspect of some embodiments of the present invention there is provided an isolated polypeptide comprising an amino acid sequence at least 80% homologous to SEQ ID NO: 202-219, 221-292, 295-327 and 4064-4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, 6792-6892, or 6893, wherein the amino acid sequence is capable of increasing nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant.

According to an aspect of some embodiments of the present invention there is provided an isolated polypeptide comprising the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893.

According to an aspect of some embodiments of the present invention there is provided a plant cell exogenously expressing the polynucleotide of some embodiments of the invention, or the nucleic acid construct of some embodiments of the invention.

According to an aspect of some embodiments of the present invention there is provided a plant cell exogenously expressing the polypeptide of some embodiments of the invention. According to an aspect of some embodiments of the present invention there is provided a transgenic plant comprising the nucleic acid construct of some embodiments of the invention or the plant cell of some embodiments of the invention.

According to an aspect of some embodiments of the present invention there is provided a method of growing a crop, the method comprising seeding seeds and/or planting plantlets of a plant transformed with the isolated polynucleotide of some embodiments of the invention, or with the nucleic acid construct of some embodiments of the invention, wherein the plant is derived from plants selected for at least one trait selected from the group consisting of: increased nitrogen use efficiency, increased abiotic stress tolerance, increased biomass, increased growth rate, increased vigor, increased yield and increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and increased oil content as compared to a non- transformed plant, thereby growing the crop.

According to an aspect of some embodiments of the present invention there is provided a method of selecting a transformed plant having increased nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance as compared to a wild type plant of the same species which is grown under the same growth conditions, the method comprising:

(a) providing plants transformed with an exogenous polynucleotide encoding a polypeptide comprising an amino acid sequence at least 80% homologous to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295-327 and 4064-4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708- 6785, and 6792-6893,

(b) selecting from the plants a plant having increased nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance,

thereby selecting the plant having increased nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance as compared to the wild type plant of the same species which is grown under the same growth conditions. According to an aspect of some embodiments of the present invention there is provided a method of selecting a transformed plant having increased nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance as compared to a wild type plant of the same species which is grown under the same growth conditions, the method comprising:

(a) providing plants transformed with an exogenous polynucleotide encoding a polypeptide comprising an amino acid sequence at least 80% identical to the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 1-91, 94-201, 328- 2317, 2320-2321, 2323, 2326-3835, 3838-3840, 3842-3843, 3848, 3850-3852, 3854, 3856-3953, and 3955-4062,

(b) selecting from the plants a plant having increased nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance,

thereby selecting the plant having increased nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance as compared to the wild type plant of the same species which is grown under the same growth conditions.

According to some embodiments of the invention, the nucleic acid sequence encodes an amino acid sequence selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893.

According to some embodiments of the invention, the nucleic acid sequence is selected from the group consisting of SEQ ID NOs: 1-201 and 328-4062.

According to some embodiments of the invention, the polynucleotide consists of the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 1-201 and 328-4062.

According to some embodiments of the invention, the nucleic acid sequence encodes the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893.

According to some embodiments of the invention, the plant cell forms part of a plant. According to some embodiments of the invention, the method further comprising growing the plant expressing the exogenous polynucleotide under the abiotic stress.

According to some embodiments of the invention, the abiotic stress is selected from the group consisting of salinity, drought, osmotic stress, water deprivation, flood, etiolation, low temperature, high temperature, heavy metal toxicity, anaerobiosis, nutrient deficiency, nitrogen deficiency, nutrient excess, atmospheric pollution and UV irradiation.

According to some embodiments of the invention, the yield comprises seed yield or oil yield.

According to some embodiments of the invention, the method further comprising growing the plant expressing the exogenous polynucleotide under nitrogen- limiting conditions.

According to some embodiments of the invention, the promoter is heterologous to the isolated polynucleotide and/or to the host cell.

According to some embodiments of the invention, the isolated polynucleotide is heterologous to the plant cell.

According to some embodiments of the invention, the non-transformed plant is a wild type plant of identical genetic background.

According to some embodiments of the invention, the non-transformed plant is a wild type plant of the same species.

According to some embodiments of the invention, the non-transformed plant is grown under identical growth conditions.

According to some embodiments of the invention, the method further comprising selecting a plant having an increased nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance as compared to the wild type plant of the same species which is grown under the same growth conditions. Unless otherwise defined, all technical and/or scientific terms used herein have the same meaning as commonly understood by one of ordinary skill in the art to which the invention pertains. Although methods and materials similar or equivalent to those described herein can be used in the practice or testing of embodiments of the invention, exemplary methods and/or materials are described below. In case of conflict, the patent specification, including definitions, will control. In addition, the materials, methods, and examples are illustrative only and are not intended to be necessarily limiting.

BRIEF DESCRIPTION OF THE DRAWINGS

Some embodiments of the invention are herein described, by way of example only, with reference to the accompanying drawings. With specific reference now to the drawings in detail, it is stressed that the particulars shown are by way of example and for purposes of illustrative discussion of embodiments of the invention. In this regard, the description taken with the drawings makes apparent to those skilled in the art how embodiments of the invention may be practiced.

In the drawings:

FIG. 1 is a schematic illustration of the modified pGI binary plasmid containing the new At6669 promoter (SEQ ID NO: 6918) and the GUSintron (pQYN_6669) used for expressing the isolated polynucleotide sequences of the invention. RB - T-DNA right border; LB - T-DNA left border; MCS - Multiple cloning site; RE - any restriction enzyme; NOS pro = nopaline synthase promoter; NPT-II = neomycin phosphotransferase gene; NOS ter = nopaline synthase terminator; Poly-A signal (polyadenylation signal); GUSintron - the GUS reporter gene (coding sequence and intron). The isolated polynucleotide sequences of the invention were cloned into the vector while replacing the GUSintron reporter gene.

FIG. 2 is a schematic illustration of the modified pGI binary plasmid containing the new At6669 promoter (SEQ ID NO: 6918) (pQFN or pQFNc) used for expressing the isolated polynucleotide sequences of the invention. RB - T-DNA right border; LB - T-DNA left border; MCS - Multiple cloning site; RE - any restriction enzyme; NOS pro = nopaline synthase promoter; NPT-II = neomycin phosphotransferase gene; NOS ter = nopaline synthase terminator; Poly-A signal (polyadenylation signal); The isolated polynucleotide sequences of the invention were cloned into the MCS of the vector.

FIGs. 3A-F are images depicting visualization of root development of transgenic plants exogenously expressing the polynucleotide of some embodiments of the invention when grown in transparent agar plates under normal (Figures 3A-B), osmotic stress (15 % PEG; Figures 3C-D) or nitrogen-limiting (Figures 3E-F) conditions. The different transgenes were grown in transparent agar plates for 17 days (7 days nursery and 10 days after transplanting). The plates were photographed every 3-4 days starting at day 1 after transplanting. Figure 3A - An image of a photograph of plants taken following 10 after transplanting days on agar plates when grown under normal (standard) conditions. Figure 3B - An image of root analysis of the plants shown in Figure 3A in which the lengths of the roots measured are represented by arrows. Figure 3C - An image of a photograph of plants taken following 10 days after transplanting on agar plates, grown under high osmotic (PEG 15 %) conditions. Figure 3D - An image of root analysis of the plants shown in Figure 3C in which the lengths of the roots measured are represented by arrows. Figure 3E - An image of a photograph of plants taken following 10 days after transplanting on agar plates, grown under low nitrogen conditions. Figure 3F - An image of root analysis of the plants shown in Figure 3E in which the lengths of the roots measured are represented by arrows.

FIG. 4 is a schematic illustration of the modified pGI binary plasmid containing the Root Promoter (pQNa_RP; SEQ ID NO: 6927) used for expressing the isolated polynucleotide sequences of the invention. RB - T-DNA right border; LB - T-DNA left border; NOS pro = nopaline synthase promoter; NPT-II = neomycin phosphotransferase gene; NOS ter = nopaline synthase terminator; Poly- A signal (polyadenylation signal); The isolated polynucleotide sequences according to some embodiments of the invention were cloned into the MCS (Multiple cloning site) of the vector.

FIG. 5 is a schematic illustration of the pQYN plasmid.

FIG. 6 is a schematic illustration of the pQFN plasmid.

FIG. 7 is a schematic illustration of the pQFYN plasmid.

FIG. 8 is a schematic illustration of pQXNc plasmid, which is a modified pGI binary plasmid used for expressing the isolated polynucleotide sequences of some embodiments of the invention. RB - T-DNA right border; LB - T-DNA left border; NOS pro = nopaline synthase promoter; NPT-II = neomycin phosphotransferase gene; NOS ter = nopaline synthase terminator; RE = any restriction enzyme; Poly-A signal (polyadenylation signal); 35S - the 35S promoter (pqfnc; SEQ ID NO: 6914). The isolated polynucleotide sequences of some embodiments of the invention were cloned into the MCS (Multiple cloning site) of the vector. FIGs. 9A-B are schematic illustrations of the pEBbVNi tDNA (Figure 9 A) and the pEBbNi tDNA (Figure 9B) plasmids used in the Brachypodium experiments. pEBbVNi tDNA (Figure 9A) was used for expression of the isolated polynucleotide sequences of some embodiments of the invention in Brachypodium. pEBbNi tDNA (Figure 9B) was used for transformation into Brachypodium as a negative control. "RB" = right border; "2LBregion" = 2 repeats of left border; "35S" = 35S promoter (SEQ ID NO:6930); "NOS ter" = nopaline synthase terminator; "Bar ORF" - BAR open reading frame (GenBank Accession No. JQ293091.1; SEQ ID NO:7121); The isolated polynucleotide sequences of some embodiments of the invention were cloned into the Multiple cloning site of the vector using one or more of the indicated restriction enzyme sites.

DESCRIPTION OF SPECIFIC EMBODIMENTS OF THE INVENTION

The present invention, in some embodiments thereof, relates to novel polynucleotides and polypeptides, nucleic acid constructs comprising same, host cells (e.g., plant cells) expressing same, transgenic plants exogenously expressing same and, more particularly, but not exclusively, to methods of using same for increasing nitrogen use efficiency, fertilizer use efficiency, yield, growth rate, vigor, biomass, oil content, fiber yield, fiber quality, fiber length, photo synthetic capacity, abiotic stress tolerance and/or water use efficiency of a plant such as a wheat plant.

Before explaining at least one embodiment of the invention in detail, it is to be understood that the invention is not necessarily limited in its application to the details set forth in the following description or exemplified by the Examples. The invention is capable of other embodiments or of being practiced or carried out in various ways.

The present inventors have identified novel polypeptides and polynucleotides which can be used to generate nucleic acid constructs, transgenic plants and to increase nitrogen use efficiency, fertilizer use efficiency, yield, growth rate, vigor, biomass, oil content, fiber yield, fiber quality, fiber length, abiotic stress tolerance and/or water use efficiency of a plant, such as a wheat plant.

Thus, as shown in the Examples section which follows, the present inventors have utilized bioinformatics tools to identify polynucleotides which enhance yield (e.g., seed yield, oil yield, oil content), growth rate, biomass, vigor, fiber yield, fiber quality, fiber length, photosynthetic capacity, nitrogen use efficiency, fertilizer use efficiency and/or abiotic stress tolerance of a plant. Genes which affect the trait-of-interest were identified (SEQ ID NOs: 202-327 for polypeptides; and SEQ ID NOs: 1-201 for polynucleotides) based on expression profiles of genes of several Arabidopsis, Barley, Sorghum, Maize, Brachypodium, Foxtail Millet and Wheat ecotypes and accessions in various tissues and growth conditions, homology with genes known to affect the trait- of-interest and using digital expression profile in specific tissues and conditions (Tables 1 and 3-74, Examples 1 and 3-13 of the Examples section which follows). Homologous (e.g., orthologous) polypeptides and polynucleotides having the same function were also identified (SEQ ID NOs: 4064-6893 for polypeptides, and SEQ ID NOs: 328-4062 for polynucleotides; Table 2, Example 2 of the Examples section which follows). The polynucleotides of some embodiments of the invention were cloned into binary vectors (Example 14, Table 75), and were further transformed into Arabidopsis and Brachypodium plants (Examples 15-17). Transgenic plants over-expressing the identified polynucleotides were found to exhibit increased biomass, growth rate, yield under normal conditions and under nitrogen limiting conditions, thus demonstrating increased nitrogen use efficiency of a plant (Tables 76-105; Examples 18-22 of the Examples section which follows), and increased tolerance to abiotic stress conditions (e.g., nutrient deficiency) as compared to control plants grown under the same growth conditions. Altogether, these results suggest the use of the novel polynucleotides and polypeptides of the invention [e.g., SEQ ID NOs: 202-327 and 4064-6893 (polypeptides) and SEQ ID NOs: 1-201 and 328-4062 (polynucleotides)] for increasing nitrogen use efficiency, fertilizer use efficiency, water use efficiency, abiotic stress tolerance, yield (e.g., oil yield, seed yield and oil content), growth rate, biomass, vigor, fiber yield, fiber quality, fiber length, and/or photosynthetic capacity of a plant.

Thus, according to an aspect of some embodiments of the invention, there is provided method of increasing fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant, comprising expressing within the plant an exogenous polynucleotide comprising a nucleic acid sequence encoding a polypeptide at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, or more say 100 % homologous to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295-327, 4064-4175, 4177-4210, 4212- 4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, and 6792-6893, thereby increasing the fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of the plant.

As used herein the phrase "plant yield" refers to the amount (e.g., as determined by weight or size) or quantity (numbers) of tissues or organs produced per plant or per growing season. Hence increased yield could affect the economic benefit one can obtain from the plant in a certain growing area and/or growing time.

It should be noted that a plant yield can be affected by various parameters including, but not limited to, plant biomass; plant vigor; growth rate; seed yield; seed or grain quantity; seed or grain quality; oil yield; content of oil, starch and/or protein in harvested organs (e.g., seeds or vegetative parts of the plant); number of flowers (florets) per panicle (expressed as a ratio of number of filled seeds over number of primary panicles); harvest index; number of plants grown per area; number and size of harvested organs per plant and per area; number of plants per growing area (density); number of harvested organs in field; total leaf area; carbon assimilation and carbon partitioning (the distribution/allocation of carbon within the plant); resistance to shade; number of harvestable organs (e.g. seeds), seeds per pod, weight per seed; and modified architecture [such as increase stalk diameter, thickness or improvement of physical properties (e.g. elasticity)].

As used herein the phrase "seed yield" refers to the number or weight of the seeds per plant, seeds per pod, or per growing area or to the weight of a single seed, or to the oil extracted per seed. Hence seed yield can be affected by seed dimensions (e.g., length, width, perimeter, area and/or volume), number of (filled) seeds and seed filling rate and by seed oil content. Hence increase seed yield per plant could affect the economic benefit one can obtain from the plant in a certain growing area and/or growing time; and increase seed yield per growing area could be achieved by increasing seed yield per plant, and/or by increasing number of plants grown on the same given area.

The term "seed" (also referred to as "grain" or "kernel") as used herein refers to a small embryonic plant enclosed in a covering called the seed coat (usually with some stored food), the product of the ripened ovule of gymnosperm and angiosperm plants which occurs after fertilization and some growth within the mother plant.

The phrase "oil content" as used herein refers to the amount of lipids in a given plant organ, either the seeds (seed oil content) or the vegetative portion of the plant (vegetative oil content) and is typically expressed as percentage of dry weight (10 % humidity of seeds) or wet weight (for vegetative portion).

It should be noted that oil content is affected by intrinsic oil production of a tissue (e.g., seed, vegetative portion), as well as the mass or size of the oil-producing tissue per plant or per growth period.

In one embodiment, increase in oil content of the plant can be achieved by increasing the size/mass of a plant's tissue(s) which comprise oil per growth period. Thus, increased oil content of a plant can be achieved by increasing the yield, growth rate, biomass and vigor of the plant.

As used herein the phrase "plant biomass" refers to the amount (e.g., measured in grams of air-dry tissue) of a tissue produced from the plant in a growing season, which could also determine or affect the plant yield or the yield per growing area. An increase in plant biomass can be in the whole plant or in parts thereof such as aboveground (harvestable) parts, vegetative biomass, roots and seeds.

As used herein the phrase "growth rate" refers to the increase in plant organ/tissue size per time (can be measured in cm per day or cm/day).

As used herein the phrase "photosynthetic capacity" (also known as "A _max ") is a measure of the maximum rate at which leaves are able to fix carbon during photosynthesis. It is typically measured as the amount of carbon dioxide that is fixed per square meter per second, for example as μιηοΐ m ^" sec ^" . Plants are able to increase their photosynthetic capacity by several modes of action, such as by increasing the total leaves area (e.g., by increase of leaves area, increase in the number of leaves, and increase in plant's vigor, e.g., the ability of the plant to grow new leaves along time course) as well as by increasing the ability of the plant to efficiently execute carbon fixation in the leaves. Hence, the increase in total leaves area can be used as a reliable measurement parameter for photosynthetic capacity increment.

As used herein the phrase "plant vigor" refers to the amount (measured by weight) of tissue produced by the plant in a given time. Hence increased vigor could determine or affect the plant yield or the yield per growing time or growing area. In addition, early vigor (seed and/or seedling) results in improved field stand.

Improving early vigor is an important objective of modern rice breeding programs in both temperate and tropical rice cultivars. Long roots are important for proper soil anchorage in water-seeded rice. Where rice is sown directly into flooded fields, and where plants must emerge rapidly through water, longer shoots are associated with vigour. Where drill-seeding is practiced, longer mesocotyls and coleoptiles are important for good seedling emergence. The ability to engineer early vigor into plants would be of great importance in agriculture. For example, poor early vigor has been a limitation to the introduction of maize (Zea mays L.) hybrids based on Corn Belt germplasm in the European Atlantic.

It should be noted that a plant yield can be determined under stress (e.g., abiotic stress, nitrogen-limiting conditions) and/or non-stress (normal) conditions.

As used herein, the phrase "non-stress conditions" refers to the growth conditions (e.g., water, temperature, light-dark cycles, humidity, salt concentration, fertilizer concentration in soil, nutrient supply such as nitrogen, phosphorous and/or potassium), that do not significantly go beyond the everyday climatic and other abiotic conditions that plants may encounter, and which allow optimal growth, metabolism, reproduction and/or viability of a plant at any stage in its life cycle (e.g., in a crop plant from seed to a mature plant and back to seed again). Persons skilled in the art are aware of normal soil conditions and climatic conditions for a given plant in a given geographic location. It should be noted that while the non-stress conditions may include some mild variations from the optimal conditions (which vary from one type/species of a plant to another), such variations do not cause the plant to cease growing without the capacity to resume growth.

The phrase "abiotic stress" as used herein refers to any adverse effect on metabolism, growth, reproduction and/or viability of a plant. Accordingly, abiotic stress can be induced by suboptimal environmental growth conditions such as, for example, salinity, osmotic stress, water deprivation, drought, flooding, freezing, low or high temperature, heavy metal toxicity, anaerobiosis, nutrient deficiency (e.g., nitrogen deficiency or limited nitrogen), atmospheric pollution or UV irradiation. The implications of abiotic stress are discussed in the Background section.

The phrase "abiotic stress tolerance" as used herein refers to the ability of a plant to endure an abiotic stress without suffering a substantial alteration in metabolism, growth, productivity and/or viability.

Plants are subject to a range of environmental challenges. Several of these, including salt stress, general osmotic stress, drought stress and freezing stress, have the ability to impact whole plant and cellular water availability. Not surprisingly, then, plant responses to this collection of stresses are related. Zhu (2002) Ann. Rev. Plant Biol. 53: 247-273 et al. note that "most studies on water stress signaling have focused on salt stress primarily because plant responses to salt and drought are closely related and the mechanisms overlap". Many examples of similar responses and pathways to this set of stresses have been documented. For example, the CBF transcription factors have been shown to condition resistance to salt, freezing and drought (Kasuga et al. (1999) Nature Biotech. 17: 287-291). The Arabidopsis rd29B gene is induced in response to both salt and dehydration stress, a process that is mediated largely through an ABA signal transduction process (Uno et al. (2000) Proc. Natl. Acad. Sci. USA 97: 11632-11637), resulting in altered activity of transcription factors that bind to an upstream element within the rd29B promoter. In Mesembryanthemum crystallinum (ice plant), Patharker and Cushman have shown that a calcium-dependent protein kinase (McCDPKl) is induced by exposure to both drought and salt stresses (Patharker and Cushman (2000) Plant J. 24: 679-691). The stress-induced kinase was also shown to phosphorylate a transcription factor, presumably altering its activity, although transcript levels of the target transcription factor are not altered in response to salt or drought stress. Similarly, Saijo et al. demonstrated that a rice salt/drought-induced calmodulin-dependent protein kinase (OsCDPK7) conferred increased salt and drought tolerance to rice when overexpressed (Saijo et al. (2000) Plant J. 23: 319-327).

Exposure to dehydration invokes similar survival strategies in plants as does freezing stress (see, for example, Yelenosky (1989) Plant Physiol 89: 444-451) and drought stress induces freezing tolerance (see, for example, Siminovitch et al. (1982) Plant Physiol 69: 250-255; and Guy et al. (1992) Planta 188: 265-270). In addition to the induction of cold-acclimation proteins, strategies that allow plants to survive in low water conditions may include, for example, reduced surface area, or surface oil or wax production. In another example increased solute content of the plant prevents evaporation and water loss due to heat, drought, salinity, osmoticum, and the like therefore providing a better plant tolerance to the above stresses.

It will be appreciated that some pathways involved in resistance to one stress (as described above), will also be involved in resistance to other stresses, regulated by the same or homologous genes. Of course, the overall resistance pathways are related, not identical, and therefore not all genes controlling resistance to one stress will control resistance to the other stresses. Nonetheless, if a gene conditions resistance to one of these stresses, it would be apparent to one skilled in the art to test for resistance to these related stresses. Methods of assessing stress resistance are further provided in the Examples section which follows.

As used herein the phrase "water use efficiency (WUE)" refers to the level of organic matter produced per unit of water consumed by the plant, i.e., the dry weight of a plant in relation to the plant's water use, e.g., the biomass produced per unit transpiration.

As used herein the phrase "fertilizer use efficiency" refers to the metabolic process(es) which lead to an increase in the plant's yield, biomass, vigor, and growth rate per fertilizer unit applied. The metabolic process can be the uptake, spread, absorbent, accumulation, relocation (within the plant) and use of one or more of the minerals and organic moieties absorbed by the plant, such as nitrogen, phosphates and/or potassium.

As used herein the phrase "fertilizer-limiting conditions" refers to growth conditions which include a level (e.g., concentration) of a fertilizer applied which is below the level needed for normal plant metabolism, growth, reproduction and/or viability.

As used herein the phrase "nitrogen use efficiency (NUE)" refers to the metabolic process(es) which lead to an increase in the plant's yield, biomass, vigor, and growth rate per nitrogen unit applied. The metabolic process can be the uptake, spread, absorbent, accumulation, relocation (within the plant) and use of nitrogen absorbed by the plant.

As used herein the phrase "nitrogen-limiting conditions" refers to growth conditions which include a level (e.g., concentration) of nitrogen (e.g., ammonium or nitrate) applied which is below the level needed for normal plant metabolism, growth, reproduction and/or viability.

Improved plant NUE and FUE is translated in the field into either harvesting similar quantities of yield, while implementing less fertilizers, or increased yields gained by implementing the same levels of fertilizers. Thus, improved NUE or FUE has a direct effect on plant yield in the field. Thus, the polynucleotides and polypeptides of some embodiments of the invention positively affect plant yield, seed yield, and plant biomass. In addition, the benefit of improved plant NUE will certainly improve crop quality and biochemical constituents of the seed such as protein yield and oil yield.

It should be noted that improved ABST will confer plants with improved vigor also under non-stress conditions, resulting in crops having improved biomass and/or yield e.g., elongated fibers for the cotton industry, higher oil content.

The term "fiber" is usually inclusive of thick-walled conducting cells such as vessels and tracheids and to fibrillar aggregates of many individual fiber cells. Hence, the term "fiber" refers to (a) thick-walled conducting and non-conducting cells of the xylem; (b) fibers of extraxylary origin, including those from phloem, bark, ground tissue, and epidermis; and (c) fibers from stems, leaves, roots, seeds, and flowers or inflorescences (such as those of Sorghum vulgare used in the manufacture of brushes and brooms).

Example of fiber producing plants, include, but are not limited to, agricultural crops such as cotton, silk cotton tree (Kapok, Ceiba pentandra), desert willow, creosote bush, winterfat, balsa, kenaf, roselle, jute, sisal abaca, flax, corn, sugar cane, hemp, ramie, kapok, coir, bamboo, Spanish moss and Agave spp. (e.g. sisal).

As used herein the phrase "fiber quality" refers to at least one fiber parameter which is agriculturally desired, or required in the fiber industry (further described hereinbelow). Examples of such parameters, include but are not limited to, fiber length, fiber strength, fiber fitness, fiber weight per unit length, maturity ratio and uniformity (further described hereinbelow). Cotton fiber (lint) quality is typically measured according to fiber length, strength and fineness. Accordingly, the lint quality is considered higher when the fiber is longer, stronger and finer.

As used herein the phrase "fiber yield" refers to the amount or quantity of fibers produced from the fiber producing plant.

As used herein the term "increasing" refers to at least about 2 %, at least about 3 %, at least about 4 %, at least about 5 %, at least about 10 %, at least about 15 %, at least about 20 %, at least about 30 %, at least about 40 %, at least about 50 %, at least about 60 %, at least about 70 %, at least about 80 %, increase in fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant as compared to a native plant or a wild type plant [i.e., a plant not modified with the biomolecules (polynucleotide or polypeptides) of the invention, e.g., a non-transformed plant of the same species which is grown under the same (e.g., identical) growth conditions] .

The phrase "expressing within the plant an exogenous polynucleotide" as used herein refers to upregulating the expression level of an exogenous polynucleotide within the plant by introducing the exogenous polynucleotide into a plant cell or plant and expressing by recombinant means, as further described herein below.

As used herein "expressing" refers to expression at the mRNA and optionally polypeptide level.

As used herein, the phrase "exogenous polynucleotide" refers to a heterologous nucleic acid sequence which may not be naturally expressed within the plant (e.g., a nucleic acid sequence from a different species) or which overexpression in the plant is desired. The exogenous polynucleotide may be introduced into the plant in a stable or transient manner, so as to produce a ribonucleic acid (RNA) molecule and/or a polypeptide molecule. It should be noted that the exogenous polynucleotide may comprise a nucleic acid sequence which is identical or partially homologous to an endogenous nucleic acid sequence of the plant.

The term "endogenous" as used herein refers to any polynucleotide or polypeptide which is present and/or naturally expressed within a plant or a cell thereof. According to some embodiments of the invention, the exogenous polynucleotide of the invention comprises a nucleic acid sequence encoding a polypeptide having an amino acid sequence at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, or more say 100 % homologous to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295-327, 4064-4175, 4177-4210, 4212- 4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, and 6792-6893.

Homologous sequences include both orthologous and paralogous sequences. The term "paralogous" relates to gene-duplications within the genome of a species leading to paralogous genes. The term "orthologous" relates to homologous genes in different organisms due to ancestral relationship. Thus, orthologs are evolutionary counterparts derived from a single ancestral gene in the last common ancestor of given two species ( oonin EV and Galperin MY (Sequence - Evolution - Function: Computational Approaches in Comparative Genomics. Boston: Kluwer Academic; 2003. Chapter 2, Evolutionary Concept in Genetics and Genomics. Available from: ncbi (dot) nlm (dot) nih (dot) gov/books/NBK20255) and therefore have great likelihood of having the same function.

One option to identify orthologues in monocot plant species is by performing a reciprocal blast search. This may be done by a first blast involving blasting the sequence-of-interest against any sequence database, such as the publicly available NCBI database which may be found at: ncbi (dot) nlm (dot) nih (dot) gov. If orthologues in rice were sought, the sequence-of-interest would be blasted against, for example, the 28,469 full-length cDNA clones from Oryza sativa Nipponbare available at NCBI. The blast results may be filtered. The full-length sequences of either the filtered results or the non-filtered results are then blasted back (second blast) against the sequences of the organism from which the sequence-of-interest is derived. The results of the first and second blasts are then compared. An orthologue is identified when the sequence resulting in the highest score (best hit) in the first blast identifies in the second blast the query sequence (the original sequence-of-interest) as the best hit. Using the same rational a paralogue (homolog to a gene in the same organism) is found. In case of large sequence families, the ClustalW program may be used [ebi (dot) ac (dot) uk/Tools/clustalw2/index (dot) html], followed by a neighbor-joining tree (wikipedia (dot) org/wiki/Neighbor-joining) which helps visualizing the clustering.

Homology (e.g., percent homology, sequence identity + sequence similarity) can be determined using any homology comparison software computing a pairwise sequence alignment.

As used herein, "sequence identity" or "identity" in the context of two nucleic acid or polypeptide sequences includes reference to the residues in the two sequences which are the same when aligned. When percentage of sequence identity is used in reference to proteins it is recognized that residue positions which are not identical often differ by conservative amino acid substitutions, where amino acid residues are substituted for other amino acid residues with similar chemical properties (e.g. charge or hydrophobicity) and therefore do not change the functional properties of the molecule. Where sequences differ in conservative substitutions, the percent sequence identity may be adjusted upwards to correct for the conservative nature of the substitution. Sequences which differ by such conservative substitutions are said to have "sequence similarity" or "similarity". Means for making this adjustment are well-known to those of skill in the art. Typically this involves scoring a conservative substitution as a partial rather than a full mismatch, thereby increasing the percentage sequence identity. Thus, for example, where an identical amino acid is given a score of 1 and a non-conservative substitution is given a score of zero, a conservative substitution is given a score between zero and 1. The scoring of conservative substitutions is calculated, e.g., according to the algorithm of Henikoff S and Henikoff JG. [Amino acid substitution matrices from protein blocks. Proc. Natl. Acad. Sci. U.S.A. 1992, 89(22): 10915-9].

Identity (e.g., percent homology) can be determined using any homology comparison software, including for example, the BlastN software of the National Center of Biotechnology Information (NCBI) such as by using default parameters. According to some embodiments of the invention, the identity is a global identity, i.e., an identity over the entire amino acid or nucleic acid sequences of the invention and not over portions thereof.

According to some embodiments of the invention, the term "homology" or "homologous" refers to identity of two or more nucleic acid sequences; or identity of two or more amino acid sequences; or the identity of an amino acid sequence to one or more nucleic acid sequence.

According to some embodiments of the invention, the homology is a global homology, i.e., an homology over the entire amino acid or nucleic acid sequences of the invention and not over portions thereof.

The degree of homology or identity between two or more sequences can be determined using various known sequence comparison tools. Following is a non- limiting description of such tools which can be used along with some embodiments of the invention.

Pairwise global alignment was defined by S. B. Needleman and C D. Wunsch,

"A general method applicable to the search of similarities in the amino acid sequence of two proteins" Journal of Molecular Biology, 1970, pages 443-53, volume 48).

For example, when starting from a polypeptide sequence and comparing to other polypeptide sequences, the EMBOSS-6.0.1 Needleman-Wunsch algorithm (available from emboss(dot)sourceforge(dot)net/apps/cvs/emboss/apps/needle(d ot)html) can be used to find the optimum alignment (including gaps) of two sequences along their entire length - a "Global alignment". Default parameters for Needleman-Wunsch algorithm (EMBOSS-6.0.1) include: gapopen=10; gapextend=0.5; datafile= EBLOSUM62; brief=YES.

According to some embodiments of the invention, the parameters used with the

EMBOSS-6.0.1 tool (for protein-protein comparison) include: gapopen=8; gapextend=2; datafile= EBLOSUM62; brief = YES.

According to some embodiments of the invention, the threshold used to determine homology using the EMBOSS-6.0.1 Needleman-Wunsch algorithm is 80%, 81%, 82 %, 83 %, 84 %, 85 %, 86 %, 87 %, 88 %, 89 %, 90 %, 91 %, 92 %, 93 %, 94

%, 95 %, 96 %, 97 %, 98 %, 99 %, or 100 %. When starting from a polypeptide sequence and comparing to polynucleotide sequences, the OneModel FramePlus algorithm [Halperin, E., Faigler, S. and Gill-More, R. (1999) - FramePlus: aligning DNA to protein sequences. Bioinformatics, 15, 867- 873) (available from biocceleration(dot)com/Products(dot)html] can be used with following default parameters: model=frame+_p2n. model mode=local.

According to some embodiments of the invention, the parameters used with the OneModel FramePlus algorithm are model=frame+_p2n.model, mode=qglobal.

According to some embodiments of the invention, the threshold used to determine homology using the OneModel FramePlus algorithm is 80%, 81%, 82 %, 83 %, 84 %, 85 %, 86 %, 87 %, 88 %, 89 %, 90 %, 91 %, 92 %, 93 %, 94 %, 95 %, 96 %, 97 %, 98 %, 99 %, or 100 %.

When starting with a polynucleotide sequence and comparing to other polynucleotide sequences the EMBOSS-6.0.1 Needleman-Wunsch algorithm (available from emboss(dot)sourceforge(dot)net/apps/cvs/emboss/apps/needle(d ot)html) can be used with the following default parameters: (EMBOSS-6.0.1) gapopen=10; gapextend=0.5; datafile= EDNAFULL; brief = YES.

According to some embodiments of the invention, the parameters used with the EMBOSS-6.0.1 Needleman-Wunsch algorithm are gapopen=10; gapextend=0.2; datafile= EDNAFULL; brief=YES.

According to some embodiments of the invention, the threshold used to determine homology using the EMBOSS-6.0.1 Needleman-Wunsch algorithm for comparison of polynucleotides with polynucleotides is 80%, 81%, 82 %, 83 %, 84 %, 85 %, 86 %, 87 %, 88 %, 89 %, 90 %, 91 %, 92 %, 93 %, 94 %, 95 %, 96 %, 97 %, 98 %, 99 %, or 100 %.

According to some embodiment, determination of the degree of homology further requires employing the Smith- Waterman algorithm (for protein-protein comparison or nucleotide-nucleotide comparison).

Default parameters for GenCore 6.0 Smith-Waterman algorithm include: model =sw.model.

According to some embodiments of the invention, the threshold used to determine homology using the Smith-Waterman algorithm is 80%, 81%, 82 %, 83 %, 84 %, 85 %, 86 %, 87 %, 88 %, 89 %, 90 %, 91 %, 92 %, 93 %, 94 %, 95 %, 96 %, 97 %, 98 %, 99 %, or 100 %.

According to some embodiments of the invention, the global homology is performed on sequences which are pre- selected by local homology to the polypeptide or polynucleotide of interest (e.g., 60% identity over 60% of the sequence length), prior to performing the global homology to the polypeptide or polynucleotide of interest (e.g., 80% global homology on the entire sequence). For example, homologous sequences are selected using the BLAST software with the Blastp and tBlastn algorithms as filters for the first stage, and the needle (EMBOSS package) or Frame+ algorithm alignment for the second stage. Local identity (Blast alignments) is defined with a very permissive cutoff - 60% Identity on a span of 60% of the sequences lengths because it is used only as a filter for the global alignment stage. In this specific embodiment (when the local identity is used), the default filtering of the Blast package is not utilized (by setting the parameter "-F F").

In the second stage, homologs are defined based on a global identity of at least 80% to the core gene polypeptide sequence.

According to some embodiments of the invention, two distinct forms for finding the optimal global alignment for protein or nucleotide sequences are used:

/. Between two proteins (following the blastp filter):

EMBOSS-6.0.1 Needleman-Wunsch algorithm with the following modified parameters: gapopen=8 gapextend=2. The rest of the parameters are unchanged from the default options listed here:

Standard (Mandatory) qualifiers:

[-asequence] sequence Sequence filename and optional format, or reference

(input USA)

[-bsequence] seqall Sequence(s) filename and optional format, or reference

(input USA)

-gapopen float [10.0 for any sequence]. The gap open penalty is the score taken away when a gap is created. The best value depends on the choice of comparison matrix. The default value assumes you are using the EBLOSUM62 matrix for protein sequences, and the EDNAFULL matrix for nucleotide sequences. (Floating point number from 1.0 to 100.0) -gapextend float [0.5 for any sequence]. The gap extension, penalty is added to the standard gap penalty for each base or residue in the gap. This is how long gaps are penalized. Usually you will expect a few long gaps rather than many short gaps, so the gap extension penalty should be lower than the gap penalty. An exception is where one or both sequences are single reads with possible sequencing errors in which case you would expect many single base gaps. You can get this result by setting the gap open penalty to zero (or very low) and using the gap extension penalty to control gap scoring. (Floating point number from 0.0 to 10.0)

[-outfile] align [*. needle] Output alignment file name

Additional (Optional) qualifiers:

-datafile matrixf [EBLOSUM62 for protein, EDNAFULL for DNA]. This is the scoring matrix file used when comparing sequences. By default it is the file 'EBLOSUM62' (for proteins) or the file 'EDNAFULL' (for nucleic sequences). These files are found in the 'data' directory of the EMBOSS installation.

Advanced (Unprompted) qualifiers:

-[no]brief boolean [Y] Brief identity and similarity

Associated qualifiers:

"-asequence" associated qualifiers

-sbeginl integer Start of the sequence to be used

-sendl integer End of the sequence to be used

-sreversel boolean Reverse (if DNA)

-saskl boolean Ask for begin/end/reverse

-snucleotidel boolean Sequence is nucleotide

-sproteinl boolean Sequence is protein

-slowerl boolean Make lower case

-supperl boolean Make upper case

-sformatl string Input sequence format

-sdbnamel string Database name

-sidl string Entryname

-ufol string UFO features

-fformatl string Features format

-fopenfilel string Features file name "-bsequence" associated qualifiers

-sbegin2 integer Start of each sequence to be used

-send2 integer End of each sequence to be used

-sreverse2 boolean Reverse (if DNA)

-sask2 boolean Ask for begin/end/reverse

-snucleotide2 boolean Sequence is nucleotide

-sprotein2 boolean Sequence is protein

-slower2 boolean Make lower case

-supper2 boolean Make upper case

-sformat2 string Input sequence format

-sdbname2 string Database name

-sid2 string Entryname

-ufo2 string UFO features

-fformat2 string Features format

-fopenfile2 string Features file name

"-outfile" associated qualifiers

-aformat3 string Alignment format

-aextension3 string File name extension

-adirectory3 string Output directory

-aname3 string Base file name

-awidth3 integer Alignment width

-aaccshow3 boolean Show accession number in the header -adesshow3 boolean Show description in the header -ausashow3 boolean Show the full USA in the alignment -aglobal3 boolean Show the full sequence in alignment General qualifiers:

-auto boolean Turn off prompts

-stdout boolean Write first file to standard output

-filter boolean Read first file from standard input, write first file to standard output

-options boolean Prompt for standard and additional values

-debug boolean Write debug output to program.dbg -verbose boolean Report some/full command line options

-help boolean Report command line options. More information on associated and general qualifiers can be found with -help -verbose

-warning boolean Report warnings

-error boolean Report errors

-fatal boolean Report fatal errors

-die boolean Report dying program messages

2. Between a protein sequence and a nucleotide sequence (following the tblastn filter): GenCore 6.0 OneModel application utilizing the Frame+ algorithm with the following parameters: model=frame+_p2n.model mode=qglobal - q=protein. sequence -db= nucleotide. sequence. The rest of the parameters are unchanged from the default options:

Usage:

om -model=<model_fname> [-q=] query [-db=] database [options]

-model=<model_fname> Specifies the model that you want to run. All models supplied by Compugen are located in the directory $CGNROOT/models/.

Valid command line parameters:

-dev=<dev_name> Selects the device to be used by the application.

Valid devices are:

bic - Bioccelerator (valid for SW, XSW, FRAME_N2P,

and FRAME_P2N models),

xlg - BioXL/G (valid for all models except XSW).

xlp - BioXL/P (valid for SW, FRAME+_N2P, and

FRAME_P2N models),

xlh - BioXL/H (valid for SW, FRAME+_N2P, and

FRAME_P2N models),

soft - Software device (for all models).

-q=<query> Defines the query set. The query can be a sequence file or a database reference. You can specify a query by its name or by accession number. The format is detected automatically. However, you may specify a format using the -qfmt parameter. If you do not specify a query, the program prompts for one. If the query set is a database reference, an output file is produced for each sequence in the query. -db=<database name> Chooses the database set. The database set can be a sequence file or a database reference. The database format is detected automatically. However, you may specify a format using -dfmt parameter.

-qacc Add this parameter to the command line if you specify query using accession numbers.

-dace Add this parameter to the command line if you specify a database using accession numbers.

-dfmt/-qfmt=<format_type> Chooses the database/query format type. Possible formats are:

fasta - fasta with seq type auto-detected.

fastap - fasta protein seq.

fastan - fasta nucleic seq.

gcg - gcg format, type is auto-detected.

gcg9seq - gcg9 format, type is auto-detected.

gcg9seqp - gcg9 format protein seq.

gcg9seqn - gcg9 format nucleic seq.

nbrf - nbrf seq, type is auto-detected.

nbrfp - nbrf protein seq.

nbrfn - nbrf nucleic seq.

embl - embl and swissprot format.

genbank - genbank format (nucleic).

blast - blast format.

nbrf_gcg - nbrf-gcg seq, type is auto-detected.

nbrf_gcgp - nbrf-gcg protein seq.

nbrf_gcgn - nbrf-gcg nucleic seq.

raw - raw ascii sequence, type is auto-detected,

rawp - raw ascii protein sequence,

rawn - raw ascii nucleic sequence,

pir - pir codata format, type is auto-detected,

profile - gcg profile (valid only for -qfmt

in SW, XSW, FRAME_P2N, and FRAME+_P2N).

-out=<out_fname> The name of the output file. -suffix=<name> The output file name suffix.

-gapop=<n> Gap open penalty. This parameter is not valid for FRAME+. For FrameSearch the default is 12.0. For other searches the default is 10.0.

-gapext=<n> Gap extend penalty. This parameter is not valid for FRAME+. For FrameSearch the default is 4.0. For other models: the default for protein searches is 0.05, and the default for nucleic searches is 1.0.

-qgapop=<n> The penalty for opening a gap in the query sequence. The default is 10.0. Valid for XSW.

-qgapext=<n> The penalty for extending a gap in the query sequence. The default is 0.05. Valid for XSW.

-start=<n> The position in the query sequence to begin the search.

-end=<n> The position in the query sequence to stop the search.

-qtrans Performs a translated search, relevant for a nucleic query against a protein database. The nucleic query is translated to six reading frames and a result is given for each frame.

Valid for SW and XSW.

-dtrans Performs a translated search, relevant for a protein query against a DNA database. Each database entry is translated to six reading frames and a result is given for each frame.

Valid for SW and XSW.

Note: "-qtrans" and "-dtrans" options are mutually exclusive.

-matrix=<matrix_file> Specifies the comparison matrix to be used in the search. The matrix must be in the BLAST format. If the matrix file is not located in $CGNROOT/tables/matrix, specify the full path as the value of the -matrix parameter. -trans=<transtab_name> Translation table. The default location for the table is $CGNROOT/tables/trans .

-onestrand Restricts the search to just the top strand of the query/database nucleic sequence.

-list=<n> The maximum size of the output hit list. The default is 50.

-docalign=<n> The number of documentation lines preceding each alignment. The default is 10. -thr_score=<score_name> The score that places limits on the display of results. Scores that are smaller than -thr_min value or larger than -thr_max value are not shown. Valid options are: quality.

z score.

escore.

-thr_max=<n> The score upper threshold. Results that are larger than -thr_max value are not shown.

-thr_min=<n> The score lower threshold. Results that are lower than -thr_min value are not shown.

-align=<n> The number of alignments reported in the output file,

-noalign Do not display alignment.

Note: "-align" and "-noalign" parameters are mutually exclusive.

-outfmt=<format_name> Specifies the output format type. The default format is PFS. Possible values are:

PFS - PFS text format

FASTA - FASTA text format

BLAST - BLAST text format

-nonorm Do not perform score normalization.

-norm=<norm_name> Specifies the normalization method. Valid options are:

log - logarithm normalization.

std - standard normalization.

stat - Pearson statistical method.

Note: "-nonorm" and "-norm" parameters cannot be used together.

Note: Parameters -xgapop, -xgapext, -fgapop, -fgapext, -ygapop, -ygapext, -delop, and -delext apply only to FRAME+.

-xgapop=<n> The penalty for opening a gap when inserting a codon (triplet). The default is 12.0.

-xgapext=<n> The penalty for extending a gap when inserting a codon (triplet). The default is 4.0.

-ygapop=<n> The penalty for opening a gap when deleting an amino acid. The default is 12.0. -ygapext=<n> The penalty for extending a gap when deleting an amino acid. The default is 4.0.

-fgapop=<n> The penalty for opening a gap when inserting a DNA base. The default is 6.0.

-fgapext=<n> The penalty for extending a gap when inserting a DNA base. The default is 7.0.

-delop=<n> The penalty for opening a gap when deleting a DNA base. The default is 6.0.

-delext=<n> The penalty for extending a gap when deleting a DNA base. The default is 7.0.

-silent No screen output is produced.

-host=<host_name> The name of the host on which the server runs. By default, the application uses the host specified in the file $CGNROOT/cgnhosts.

-wait Do not go to the background when the device is busy. This option is not relevant for the Parseq or Soft pseudo device.

-batch Run the job in the background. When this option is specified, the file

"$CGNROOT/defaults/batch. defaults" is used for choosing the batch command. If this file does not exist, the command "at now" is used to run the job.

Note: "-batch" and "-wait" parameters are mutually exclusive.

-version Prints the software version number.

-help Displays this help message. To get more specific help type:

"om -model=<model_fname> -help".

According to some embodiments the homology is a local homology or a local identity.

Local alignments tools include, but are not limited to the BlastP, BlastN, BlastX or TBLASTN software of the National Center of Biotechnology Information (NCBI), FASTA, and the Smith-Waterman algorithm.

A tblastn search allows the comparison between a protein sequence to the six- frame translations of a nucleotide database. It can be a very productive way of finding homologous protein coding regions in unannotated nucleotide sequences such as expressed sequence tags (ESTs) and draft genome records (HTG), located in the BLAST databases est and htgs, respectively. Default parameters for blastp include: Max target sequences: 100; Expected threshold: e ^"5 ; Word size: 3; Max matches in a query range: 0; Scoring parameters: Matrix - BLOSUM62; filters and masking: Filter - low complexity regions.

Local alignments tools, which can be used include, but are not limited to, the tBLASTX algorithm, which compares the six-frame conceptual translation products of a nucleotide query sequence (both strands) against a protein sequence database. Default parameters include: Max target sequences: 100; Expected threshold: 10; Word size: 3; Max matches in a query range: 0; Scoring parameters: Matrix - BLOSUM62; filters and masking: Filter - low complexity regions.

According to some embodiments of the invention, the exogenous polynucleotide of the invention encodes a polypeptide having an amino acid sequence at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, or more say 100 % identical to the amino acid sequence selected from the group consisting of SEQ ID NOs:202-219, 221-292, 295- 327, 4064-4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780- 5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, and 6792-6893.

According to some embodiments of the invention, the exogenous polynucleotide of the invention encodes a polypeptide having the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893.

According to some embodiments of the invention, the method of increasing fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant, is effected by expressing within the plant an exogenous polynucleotide comprising a nucleic acid sequence encoding a polypeptide at least at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, or more say 100 % identical to the amino acid sequence selected from the group consisting of SEQ ID NOs:202-219, 221-292, 295-327, 4064-4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828- 6679, 6689-6690, 6708-6785, and 6792-6893, thereby increasing the fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of the plant.

According to some embodiments of the invention, the exogenous polynucleotide encodes a polypeptide consisting of the amino acid sequence set forth by SEQ ID NO: 202-327, 4064-6892 or 6893.

According to an aspect of some embodiments of the invention, the method of increasing fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant, is effected by expressing within the plant an exogenous polynucleotide comprising a nucleic acid sequence encoding a polypeptide comprising an amino acid sequence selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893, thereby increasing the fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of the plant.

According to an aspect of some embodiments of the invention, there is provided a method of increasing fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant, comprising expressing within the plant an exogenous polynucleotide comprising a nucleic acid sequence encoding a polypeptide selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893, thereby increasing the fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of the plant. According to some embodiments of the invention, the exogenous polynucleotide encodes a polypeptide consisting of the amino acid sequence set forth by SEQ ID NO: 202-327, 4064-6892 or 6893.

According to some embodiments of the invention the exogenous polynucleotide comprises a nucleic acid sequence which is at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % identical to the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 1-91, 94-201, 328-2317, 2320- 2321, 2323, 2326-3835, 3838-3840, 3842-3843, 3848, 3850-3852, 3854, 3856-3953, and 3955-4062.

According to an aspect of some embodiments of the invention, there is provided a method of increasing fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant, comprising expressing within the plant an exogenous polynucleotide comprising a nucleic acid sequence at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % identical to the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 1-91, 94-201, 328-2317, 2320-2321, 2323, 2326-3835, 3838-3840, 3842- 3843, 3848, 3850-3852, 3854, 3856-3953, and 3955-4062, thereby increasing the fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of the plant.

According to some embodiments of the invention the exogenous polynucleotide is at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % identical to the polynucleotide selected from the group consisting of SEQ ID NOs: 1-91, 94-201, 328-2317, 2320-2321, 2323, 2326-3835, 3838-3840, 3842-3843, 3848, 3850-3852, 3854, 3856-3953, and 3955-4062.

According to some embodiments of the invention the exogenous polynucleotide is set forth by SEQ ID NO: 1-201, 328-4061 or 4062.

According to some embodiments of the invention the exogenous polynucleotide is set forth by the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 1-201 and 328-4062.

According to some embodiments of the invention the method of increasing fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant further comprising selecting a plant having an increased nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance as compared to the wild type plant of the same species which is grown under the same growth conditions.

It should be noted that selecting a transformed plant having an increased trait as compared to a native (or non-transformed) plant grown under the same growth conditions is performed by selecting for the trait, e.g., validating the ability of the transformed plant to exhibit the increased trait using well known assays (e.g., seedling analyses, greenhouse assays) as is further described herein below.

According to an aspect of some embodiments of the invention, there is provided a method of selecting a transformed plant having increased nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance as compared to a wild type plant of the same species which is grown under the same growth conditions, the method comprising:

(a) providing plants transformed with an exogenous polynucleotide encoding a polypeptide comprising an amino acid sequence at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % homologous (e.g., having sequence similarity or sequence identity) to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295-327, 4064-4175, 4177-4210, 4212- 4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, and 6792-6893,

(b) selecting from the plants a plant having increased fertilizer use efficiency

(e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance,

thereby selecting the plant having increased fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance as compared to the wild type plant of the same species which is grown under the same growth conditions.

According to some embodiments of the invention the amino acid sequence is selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893.

According to an aspect of some embodiments of the invention, there is provided a method of selecting a transformed plant having increased fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance as compared to a wild type plant of the same species which is grown under the same growth conditions, the method comprising:

(a) providing plants transformed with an exogenous polynucleotide encoding a polypeptide comprising an amino acid sequence at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % identical to the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 1-91, 94-201, 328-2317, 2320-2321, 2323, 2326-3835, 3838-3840, 3842-3843, 3848, 3850-3852, 3854, 3856-3953, and 3955-4062,

(b) selecting from the plants a plant having increased fertilizer use efficiency

(e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance (e.g., by selecting the plants for the increased trait),

thereby selecting the plant having increased fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance as compared to the wild type plant of the same species which is grown under the same growth conditions.

As used herein the term "polynucleotide" refers to a single or double stranded nucleic acid sequence which is isolated and provided in the form of an RNA sequence, a complementary polynucleotide sequence (cDNA), a genomic polynucleotide sequence and/or a composite polynucleotide sequences (e.g., a combination of the above).

The term "isolated" refers to at least partially separated from the natural environment e.g., from a plant cell.

As used herein the phrase "complementary polynucleotide sequence" refers to a sequence, which results from reverse transcription of messenger RNA using a reverse transcriptase or any other RNA dependent DNA polymerase. Such a sequence can be subsequently amplified in vivo or in vitro using a DNA dependent DNA polymerase.

As used herein the phrase "genomic polynucleotide sequence" refers to a sequence derived (isolated) from a chromosome and thus it represents a contiguous portion of a chromosome.

As used herein the phrase "composite polynucleotide sequence" refers to a sequence, which is at least partially complementary and at least partially genomic. A composite sequence can include some exonal sequences required to encode the polypeptide of the present invention, as well as some intronic sequences interposing therebetween. The intronic sequences can be of any source, including of other genes, and typically will include conserved splicing signal sequences. Such intronic sequences may further include cis acting expression regulatory elements.

Nucleic acid sequences encoding the polypeptides of the present invention may be optimized for expression. Examples of such sequence modifications include, but are not limited to, an altered G/C content to more closely approach that typically found in the plant species of interest, and the removal of codons atypically found in the plant species commonly referred to as codon optimization.

The phrase "codon optimization" refers to the selection of appropriate DNA nucleotides for use within a structural gene or fragment thereof that approaches codon usage within the plant of interest. Therefore, an optimized gene or nucleic acid sequence refers to a gene in which the nucleotide sequence of a native or naturally occurring gene has been modified in order to utilize statistically-preferred or statistically-favored codons within the plant. The nucleotide sequence typically is examined at the DNA level and the coding region optimized for expression in the plant species determined using any suitable procedure, for example as described in Sardana et al. (1996, Plant Cell Reports 15:677-681). In this method, the standard deviation of codon usage, a measure of codon usage bias, may be calculated by first finding the squared proportional deviation of usage of each codon of the native gene relative to that of highly expressed plant genes, followed by a calculation of the average squared deviation. The formula used is: 1 SDCU = n = 1 N [ ( Xn - Yn ) / Yn ] 2 / N, where Xn refers to the frequency of usage of codon n in highly expressed plant genes, where Yn to the frequency of usage of codon n in the gene of interest and N refers to the total number of codons in the gene of interest. A Table of codon usage from highly expressed genes of dicotyledonous plants is compiled using the data of Murray et al. (1989, Nuc Acids Res. 17:477-498).

One method of optimizing the nucleic acid sequence in accordance with the preferred codon usage for a particular plant cell type is based on the direct use, without performing any extra statistical calculations, of codon optimization Tables such as those provided on-line at the Codon Usage Database through the NIAS (National Institute of Agrobiological Sciences) DNA bank in Japan (kazusa (dot) or (dot) jp/codon/). The Codon Usage Database contains codon usage tables for a number of different species, with each codon usage Table having been statistically determined based on the data present in Genbank.

By using the above Tables to determine the most preferred or most favored codons for each amino acid in a particular species (for example, rice), a naturally- occurring nucleotide sequence encoding a protein of interest can be codon optimized for that particular plant species. This is effected by replacing codons that may have a low statistical incidence in the particular species genome with corresponding codons, in regard to an amino acid, that are statistically more favored. However, one or more less- favored codons may be selected to delete existing restriction sites, to create new ones at potentially useful junctions (5' and 3' ends to add signal peptide or termination cassettes, internal sites that might be used to cut and splice segments together to produce a correct full-length sequence), or to eliminate nucleotide sequences that may negatively effect mRNA stability or expression.

The naturally-occurring encoding nucleotide sequence may already, in advance of any modification, contain a number of codons that correspond to a statistically- favored codon in a particular plant species. Therefore, codon optimization of the native nucleotide sequence may comprise determining which codons, within the native nucleotide sequence, are not statistically-favored with regards to a particular plant, and modifying these codons in accordance with a codon usage table of the particular plant to produce a codon optimized derivative. A modified nucleotide sequence may be fully or partially optimized for plant codon usage provided that the protein encoded by the modified nucleotide sequence is produced at a level higher than the protein encoded by the corresponding naturally occurring or native gene. Construction of synthetic genes by altering the codon usage is described in for example PCT Patent Application 93/07278.

According to some embodiments of the invention, the exogenous polynucleotide is a non-coding RNA.

As used herein the phrase 'non-coding RNA" refers to an RNA molecule which does not encode an amino acid sequence (a polypeptide). Examples of such non-coding RNA molecules include, but are not limited to, an antisense RNA, a pre-miRNA (precursor of a microRNA), or a precursor of a Piwi-interacting RNA (piRNA). Non-limiting examples of non-coding RNA polynucleotides are provided in SEQ ID NOs: 1929, 2601, 2900, 3004, 3937, and 4002.

Thus, the invention encompasses nucleic acid sequences described hereinabove; fragments thereof, sequences hybridizable therewith, sequences homologous thereto, sequences encoding similar polypeptides with different codon usage, altered sequences characterized by mutations, such as deletion, insertion or substitution of one or more nucleotides, either naturally occurring or man induced, either randomly or in a targeted fashion.

According to some embodiments of the invention, the exogenous polynucleotide encodes a polypeptide comprising an amino acid sequence at least 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % identical to the amino acid sequence of a naturally occurring plant orthologue of the polypeptide selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893.

According to some embodiments of the invention, the polypeptide comprising an amino acid sequence at least 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % identical to the amino acid sequence of a naturally occurring plant orthologue of the polypeptide selected from the group consisting of SEQ ID NOs: 202- 327 and 4064-6893.

The invention provides an isolated polynucleotide comprising a nucleic acid sequence at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % identical to the polynucleotide selected from the group consisting of SEQ ID NOs: 1-91, 94-201, 328-2317, 2320-2321, 2323, 2326-3835, 3838-3840, 3842-3843, 3848, 3850-3852, 3854, 3856-3953, and 3955-4062.

According to some embodiments of the invention the nucleic acid sequence is capable of increasing fertilizer use efficiency (e.g., nitrogen use efficiency), yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, abiotic stress tolerance and/or water use efficiency of a plant.

According to some embodiments of the invention the isolated polynucleotide comprising the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 1-201 and 328-4062.

According to some embodiments of the invention the isolated polynucleotide is set forth by SEQ ID NO: 1-201, 328-4061 or 4062.

The invention provides an isolated polynucleotide comprising a nucleic acid sequence encoding a polypeptide which comprises an amino acid sequence at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, or more say 100 % homologous to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295-327, 4064-4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828- 6679, 6689-6690, 6708-6785, and 6792-6893.

According to some embodiments of the invention the amino acid sequence is capable of increasing nitrogen use efficiency, fertilizer use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a plant.

The invention provides an isolated polynucleotide comprising a nucleic acid sequence encoding a polypeptide which comprises the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893. According to an aspect of some embodiments of the invention, there is provided a nucleic acid construct comprising the isolated polynucleotide of the invention, and a promoter for directing transcription of the nucleic acid sequence in a host cell.

The invention provides an isolated polypeptide comprising an amino acid sequence at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, or more say 100 % homologous to an amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295-327, 4064-4175, 4177-4210, 4212- 4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, and 6792-6893.

According to some embodiments of the invention, the polypeptide comprising an amino acid sequence selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893.

According to some embodiments of the invention, the polypeptide is set forth by SEQ ID NO: 202-327, 4064-6892 or 6893.

The invention also encompasses fragments of the above described polypeptides and polypeptides having mutations, such as deletions, insertions or substitutions of one or more amino acids, either naturally occurring or man induced, either randomly or in a targeted fashion.

The term '"plant" as used herein encompasses a whole plant, a grafted plant, ancestor(s) and progeny of the plants and plant parts, including seeds, shoots, stems, roots (including tubers), rootstock, scion, and plant cells, tissues and organs. The plant may be in any form including suspension cultures, embryos, meristematic regions, callus tissue, leaves, gametophytes, sporophytes, pollen, and microspores. Plants that are particularly useful in the methods of the invention include all plants which belong to the superfamily Viridiplantae, in particular monocotyledonous and dicotyledonous plants including a fodder or forage legume, ornamental plant, food crop, tree, or shrub selected from the list comprising Acacia spp., Acer spp., Actinidia spp., Aesculus spp., Agathis australis, Albizia amara, Alsophila tricolor, Andropogon spp., Arachis spp, Areca catechu, Astelia fragrans, Astragalus cicer, Baikiaea plurijuga, Betula spp., Brassica spp., Bruguiera gymnorrhiza, Burkea africana, Butea frondosa, Cadaba farinosa, Calliandra spp, Camellia sinensis, Canna indica, Capsicum spp., Cassia spp., Centroema pubescens, Chacoomeles spp., Cinnamomum cassia, Coffea arabica, Colophospermum mopane, Coronillia varia, Cotoneaster serotina, Crataegus spp., Cucumis spp., Cupressus spp., Cyathea dealbata, Cydonia oblonga, Cryptomeria japonica, Cymbopogon spp., Cynthea dealbata, Cydonia oblonga, Dalbergia monetaria, Davallia divaricata, Desmodium spp., Dicksonia squarosa, Dibeteropogon amplectens, Dioclea spp, Dolichos spp., Dorycnium rectum, Echinochloa pyramidalis, Ehraffia spp., Eleusine coracana, Eragrestis spp., Erythrina spp., Eucalypfus spp., Euclea schimperi, Eulalia vi/losa, Pagopyrum spp., Feijoa sellowlana, Fragaria spp., Flemingia spp, Freycinetia banksli, Geranium thunbergii, GinAgo biloba, Glycine javanica, Gliricidia spp, Gossypium hirsutum, Grevillea spp., Guibourtia coleosperma, Hedysarum spp., Hemaffhia altissima, Heteropogon contoffus, Hordeum vulgare, Hyparrhenia rufa, Hypericum erectum, Hypeffhelia dissolute, Indigo incamata, Iris spp., Leptarrhena pyrolifolia, Lespediza spp., Lettuca spp., Leucaena leucocephala, Loudetia simplex, Lotonus bainesli, Lotus spp., Macrotyloma axillare, Malus spp., Manihot esculenta, Medicago saliva, Metasequoia glyptostroboides, Musa sapientum, Nicotianum spp., Onobrychis spp., Ornithopus spp., Oryza spp., Peltophorum africanum, Pennisetum spp., Persea gratissima, Petunia spp., Phaseolus spp., Phoenix canadensis, Phormium cookianum, Photinia spp., Picea glauca, Pinus spp., Pisum sativam, Podocarpus totara, Pogonarthria lleckii, Pogonaffhria squarrosa, Populus spp., Prosopis cineraria, Pseudotsuga menziesii, Pterolobium stellatum, Pyrus communis, Quercus spp., Rhaphiolepsis umbellata, Rhopalostylis sapida, Rhus natalensis, Ribes grossularia, Ribes spp., Robinia pseudoacacia, Rosa spp., Rubus spp., Salix spp., Schyzachyrium sanguineum, Sciadopitys vefficillata, Sequoia sempervirens, Sequoiadendron giganteum, Sorghum bicolor, Spinacia spp., Sporobolus fimbriatus, Stiburus alopecuroides, Stylosanthos humilis, Tadehagi spp, Taxodium distichum, Themeda triandra, Trifolium spp., Triticum spp., Tsuga heterophylla, Vaccinium spp., Vicia spp., Vitis vinifera, Watsonia pyramidata, Zantedeschia aethiopica, Zea mays, amaranth, artichoke, asparagus, broccoli, Brussels sprouts, cabbage, canola, carrot, cauliflower, celery, collard greens, flax, kale, lentil, oilseed rape, okra, onion, potato, rice, soybean, straw, sugar beet, sugar cane, sunflower, tomato, squash tea, maize, wheat, barley, rye, oat, peanut, pea, lentil and alfalfa, cotton, rapeseed, canola, pepper, sunflower, tobacco, eggplant, eucalyptus, a tree, an ornamental plant, a perennial grass and a forage crop. Alternatively algae and other non-Viridiplantae can be used for the methods of the present invention.

According to some embodiments of the invention, the plant used by the method of the invention is a crop plant such as rice, maize, wheat, barley, peanut, potato, sesame, olive tree, palm oil, banana, soybean, sunflower, canola, sugarcane, alfalfa, millet, leguminosae (bean, pea), flax, lupinus, rapeseed, tobacco, poplar and cotton.

According to some embodiments of the invention the plant is a dicotyledonous plant.

According to some embodiments of the invention the plant is a monocotyledonous plant.

According to some embodiments of the invention, there is provided a plant cell exogenously expressing the polynucleotide of some embodiments of the invention, the nucleic acid construct of some embodiments of the invention and/or the polypeptide of some embodiments of the invention.

According to some embodiments of the invention, expressing the exogenous polynucleotide of the invention within the plant is effected by transforming one or more cells of the plant with the exogenous polynucleotide, followed by generating a mature plant from the transformed cells and cultivating the mature plant under conditions suitable for expressing the exogenous polynucleotide within the mature plant.

According to some embodiments of the invention, the transformation is effected by introducing to the plant cell a nucleic acid construct which includes the exogenous polynucleotide of some embodiments of the invention and at least one promoter for directing transcription of the exogenous polynucleotide in a host cell (a plant cell). Further details of suitable transformation approaches are provided hereinbelow.

As mentioned, the nucleic acid construct according to some embodiments of the invention comprises a promoter sequence and the isolated polynucleotide of some embodiments of the invention.

According to some embodiments of the invention, the isolated polynucleotide is operably linked to the promoter sequence. A coding nucleic acid sequence is "operably linked" to a regulatory sequence (e.g., promoter) if the regulatory sequence is capable of exerting a regulatory effect on the coding sequence linked thereto.

As used herein, the term "promoter" refers to a region of DNA which lies upstream of the transcriptional initiation site of a gene to which RNA polymerase binds to initiate transcription of RNA. The promoter controls where (e.g., which portion of a plant) and/or when (e.g., at which stage or condition in the lifetime of an organism) the gene is expressed.

According to some embodiments of the invention, the promoter is heterologous to the isolated polynucleotide and/or to the host cell.

As used herein the phrase "heterologous promoter" refers to a promoter from a different species or from the same species but from a different gene locus as of the isolated polynucleotide sequence.

Any suitable promoter sequence can be used by the nucleic acid construct of the present invention. Preferably the promoter is a constitutive promoter, a tissue-specific, or an abiotic stress-inducible promoter.

According to some embodiments of the invention, the promoter is a plant promoter, which is suitable for expression of the exogenous polynucleotide in a plant cell.

Suitable promoters for expression in wheat include, but are not limited to, Wheat

SPA promoter (SEQ ID NO: 6894; Albanietal, Plant Cell, 9: 171- 184, 1997, which is fully incorporated herein by reference), wheat LMW (SEQ ID NO: 6895 (longer LMW promoter), and SEQ ID NO: 6896 (LMW promoter) and HMW glutenin-1 (SEQ ID NO: 6897 (Wheat HMW glutenin-1 longer promoter); and SEQ ID NO: 6898 (Wheat HMW glutenin-1 Promoter); Thomas and Flavell, The Plant Cell 2: 1171-1180; Furtado et al., 2009 Plant Biotechnology Journal 7:240-253, each of which is fully incorporated herein by reference), wheat alpha, beta and gamma gliadins [e.g., SEQ ID NO: 6899 (wheat alpha gliadin, B genome, promoter); SEQ ID NO: 6900 (wheat gamma gliadin promoter); EMBO 3: 1409-15, 1984, which is fully incorporated herein by reference], wheat TdPR60 [SEQ ID NO:6901(wheat TdPR60 longer promoter) or SEQ ID NO:6902 (wheat TdPR60 promoter); Kovalchuk et al., Plant Mol Biol 71:81-98, 2009, which is fully incorporated herein by reference], maize Ubl Promoter [cultivar Nongda 105 (SEQ ID NO:6903); GenBank: DQ141598.1; Taylor et al., Plant Cell Rep 1993 12: 491-495, which is fully incorporated herein by reference; and cultivar B73 (SEQ ID NO:6904); Christensen, AH, et al. Plant Mol. Biol. 18 (4), 675-689 (1992), which is fully incorporated herein by reference]; rice actin 1 (SEQ ID NO:6905; Mc Elroy et al. 1990, The Plant Cell, Vol. 2, 163-171, which is fully incorporated herein by reference), rice GOS2 [SEQ ID NO: 6906 (rice GOS2 longer promoter) and SEQ ID NO: 6907 (rice GOS2 Promoter); De Pater et al. Plant J. 1992; 2: 837-44, which is fully incorporated herein by reference], arabidopsis Phol [SEQ ID NO: 6908 (arabidopsis Phol Promoter); Hamburger et al., Plant Cell. 2002; 14: 889-902, which is fully incorporated herein by reference], ExpansinB promoters, e.g., rice ExpB5 [SEQ ID NO:6909 (rice ExpB5 longer promoter) and SEQ ID NO: 6910 (rice ExpB5 promoter)] and Barley ExpB l [SEQ ID NO: 6911 (barley ExpB l Promoter), Won et al. Mol Cells. 2010; 30:369-76, which is fully incorporated herein by reference], barley SS2 (sucrose synthase 2) [(SEQ ID NO: 6912), Guerin and Carbonero, Plant Physiology May 1997 vol. 114 no. 1 55-62, which is fully incorporated herein by reference], and rice PG5a [SEQ ID NO:6913, US 7,700,835, Nakase et al., Plant Mol Biol. 32:621-30, 1996, each of which is fully incorporated herein by reference] .

Suitable constitutive promoters include, for example, CaMV 35S promoter [SEQ ID NO: 6914 (CaMV 35S (QFNC) Promoter); SEQ ID NO: 6915 (PJJ 35S from Brachypodium); SEQ ID NO: 6916 (CaMV 35S (OLD) Promoter) (Odell et al., Nature 313:810-812, 1985); 35S (pEBbVNi Promoter; SEQ ID NO: 6930)], Arabidopsis At6669 promoter (SEQ ID NO: 6917 (Arabidopsis At6669 (OLD) Promoter); see PCT Publication No. WO04081173A2 or the new At6669 promoter (SEQ ID NO: 6918 (Arabidopsis At6669 (NEW) Promoter)); maize Ubl Promoter [cultivar Nongda 105 (SEQ ID NO:6903); GenBank: DQ141598.1; Taylor et al., Plant Cell Rep 1993 12: 491-495, which is fully incorporated herein by reference; and cultivar B73 (SEQ ID NO:6904); Christensen, AH, et al. Plant Mol. Biol. 18 (4), 675-689 (1992), which is fully incorporated herein by reference]; rice actin 1 (SEQ ID NO: 6905, McElroy et al., Plant Cell 2: 163-171, 1990); pEMU (Last et al., Theor. Appl. Genet. 81:581-588, 1991); CaMV 19S (Nilsson et al., Physiol. Plant 100:456-462, 1997); rice GOS2 [SEQ ID NO: 6906 (rice GOS2 longer Promoter) and SEQ ID NO: 6907 (rice GOS2 Promoter), de Pater et al, Plant J Nov;2(6):837-44, 1992]; RBCS promoter (SEQ ID NO:6919); Rice cyclophilin (Bucholz et al, Plant Mol Biol. 25(5):837-43, 1994); Maize H3 histone (Lepetit et al, Mol. Gen. Genet. 231: 276-285, 1992); Actin 2 (An et al, Plant J. 10(1);107-121, 1996) and Synthetic Super MAS (Ni et al., The Plant Journal 7: 661-76, 1995). Other constitutive promoters include those in U.S. Pat. Nos. 5,659,026, 5,608,149; 5.608,144; 5,604,121; 5.569,597: 5.466,785; 5,399,680; 5,268,463; and 5,608,142.

Suitable tissue- specific promoters include, but not limited to, leaf-specific promoters [e.g., AT5G06690 (Thioredoxin) (high expression, SEQ ID NO: 6920), AT5G61520 (AtSTP3) (low expression, SEQ ID NO: 6921) described in Buttner et al 2000 Plant, Cell and Environment 23, 175-184, or the promoters described in Yamamoto et al., Plant J. 12:255-265, 1997; Kwon et al., Plant Physiol. 105:357-67, 1994; Yamamoto et al., Plant Cell Physiol. 35:773-778, 1994; Gotor et al., Plant J. 3:509-18, 1993; Orozco et al., Plant Mol. Biol. 23: 1129-1138, 1993; and Matsuoka et al., Proc. Natl. Acad. Sci. USA 90:9586-9590, 1993; as well as Arabidopsis STP3 (AT5G61520) promoter (Buttner et al., Plant, Cell and Environment 23: 175-184, 2000)], seed-preferred promoters [e.g., Napin (originated from Brassica napus which is characterized by a seed specific promoter activity; Stuitje A. R. et. al. Plant Biotechnology Journal 1 (4): 301-309; SEQ ID NO: 6922 (Brassica napus NAPIN Promoter) from seed specific genes (Simon, et al., Plant Mol. Biol. 5. 191, 1985; Scofield, et al., J. Biol. Chem. 262: 12202, 1987; Baszczynski, et al., Plant Mol. Biol. 14: 633, 1990), rice PG5a (SEQ ID NO: 6913; US 7,700,835), early seed development Arabidopsis BAN (AT1G61720) (SEQ ID NO: 6923, US 2009/0031450 Al), late seed development Arabidopsis ABI3 (AT3G24650) (SEQ ID NO: 6924 (Arabidopsis ABI3 (AT3G24650) longer Promoter) or 6925 (Arabidopsis ABI3 (AT3G24650) Promoter)) (Ng et al., Plant Molecular Biology 54: 25-38, 2004), Brazil Nut albumin (Pearson' et al., Plant Mol. Biol. 18: 235- 245, 1992), legumin (Ellis, et al. Plant Mol. Biol. 10: 203- 214, 1988), Glutelin (rice) (Takaiwa, et al., Mol. Gen. Genet. 208: 15-22, 1986; Takaiwa, et al., FEBS Letts. 221: 43-47, 1987), Zein (Matzke et al Plant Mol Biol, 143).323-32 1990), napA (Stalberg, et al, Planta 199: 515-519, 1996), Wheat SPA (SEQ ID NO:6894; Albanietal, Plant Cell, 9: 171- 184, 1997), sunflower oleosin (Cummins, et al., Plant Mol. Biol. 19: 873- 876, 1992)], endosperm specific promoters [e.g., wheat LMW (SEQ ID NO: 6895 (Wheat LMW Longer Promoter), and SEQ ID NO: 6896 (Wheat LMW Promoter) and HMW glutenin-1 [(SEQ ID NO: 6897 (Wheat HMW glutenin-1 longer Promoter)); and SEQ ID NO: 6898 (Wheat HMW glutenin-1 Promoter), Thomas and Flavell, The Plant Cell 2: 1171-1180, 1990; Mol Gen Genet 216:81-90, 1989; NAR 17:461-2), wheat alpha, beta and gamma gliadins (SEQ ID NO: 6899 (wheat alpha gliadin (B genome) promoter); SEQ ID NO: 6900 (wheat gamma gliadin promoter); EMBO 3: 1409-15, 1984), Barley ltrl promoter, barley B l, C, D hordein (Theor Appl Gen 98: 1253-62, 1999; Plant J 4:343-55, 1993; Mol Gen Genet 250:750- 60, 1996), Barley DOF (Mena et al, The Plant Journal, 116(1): 53- 62, 1998), Biz2 (EP99106056.7), Barley SS2 (SEQ ID NO: 6912 (Barley SS2 Promoter); Guerin and Carbonero Plant Physiology 114: 1 55-62, 1997), wheat Tarp60 (Kovalchuk et al., Plant Mol Biol 71:81-98, 2009), barley D-hordein (D-Hor) and B-hordein (B-Hor) (Agnelo Furtado, Robert J. Henry and Alessandro Pellegrineschi (2009)], Synthetic promoter (Vicente-Carbajosa et al., Plant J. 13: 629-640, 1998), rice prolamin NRP33, rice -globulin Glb-1 (Wu et al, Plant Cell Physiology 39(8) 885- 889, 1998), rice alpha- globulin REB/OHP-1 (Nakase et al. Plant Mol. Biol. 33: 513-S22, 1997), rice ADP- glucose PP (Trans Res 6: 157-68, 1997), maize ESR gene family (Plant J 12:235-46, 1997), sorgum gamma- kafirin (PMB 32: 1029-35, 1996)], embryo specific promoters [e.g., rice OSH1 (Sato et al, Proc. Natl. Acad. Sci. USA, 93: 8117-8122), KNOX (Postma-Haarsma et al, Plant Mol. Biol. 39:257-71, 1999), rice oleosin (Wu et at, J. Biochem., 123:386, 1998)], and flower- specific promoters [e.g., AtPRP4, chalene synthase (chsA) (Van der Meer, et al., Plant Mol. Biol. 15, 95-109, 1990), LAT52 (Twell et al Mol. Gen Genet. 217:240-245; 1989), Arabidopsis apetala- 3 (Tilly et al., Development. 125: 1647-57, 1998), Arabidopsis APETALA 1 (AT1G69120, API) (SEQ ID NO: 6926 (Arabidopsis (AT1G69120) APETALA 1)) (Hempel et al., Development 124:3845-3853, 1997)], and root promoters [e.g., the ROOTP promoter [SEQ ID NO: 6927]; rice ExpB5 (SEQ ID NO: 6910 (rice ExpB5 Promoter); or SEQ ID NO: 6909 (rice ExpB5 longer Promoter)) and barley ExpB l promoters (SEQ ID NO:6911) (Won et al. Mol. Cells 30: 369-376, 2010); arabidopsis ATTPS-CIN (AT3G25820) promoter (SEQ ID NO: 6928; Chen et al., Plant Phys 135: 1956-66, 2004); arabidopsis Phol promoter (SEQ ID NO: 6908, Hamburger et al., Plant Cell. 14: 889-902, 2002), which is also slightly induced by stress]. Suitable abiotic stress-inducible promoters include, but not limited to, salt- inducible promoters such as RD29A (Yamaguchi-Shinozalei et al., Mol. Gen. Genet. 236:331-340, 1993); drought-inducible promoters such as maize rabl7 gene promoter (Pla et. al., Plant Mol. Biol. 21:259-266, 1993), maize rab28 gene promoter (Busk et. al., Plant J. 11: 1285-1295, 1997) and maize Ivr2 gene promoter (Pelleschi et. al., Plant Mol. Biol. 39:373-380, 1999); heat-inducible promoters such as heat tomato hsp80- promoter from tomato (U.S. Pat. No. 5,187,267).

The nucleic acid construct of some embodiments of the invention can further include an appropriate selectable marker and/or an origin of replication. According to some embodiments of the invention, the nucleic acid construct utilized is a shuttle vector, which can propagate both in E. coli (wherein the construct comprises an appropriate selectable marker and origin of replication) and be compatible with propagation in cells. The construct according to the present invention can be, for example, a plasmid, a bacmid, a phagemid, a cosmid, a phage, a virus or an artificial chromosome.

The nucleic acid construct of some embodiments of the invention can be utilized to stably or transiently transform plant cells. In stable transformation, the exogenous polynucleotide is integrated into the plant genome and as such it represents a stable and inherited trait. In transient transformation, the exogenous polynucleotide is expressed by the cell transformed but it is not integrated into the genome and as such it represents a transient trait.

There are various methods of introducing foreign genes into both monocotyledonous and dicotyledonous plants (Potrykus, I., Annu. Rev. Plant. Physiol., Plant. Mol. Biol. (1991) 42:205-225; Shimamoto et al., Nature (1989) 338:274-276).

The principle methods of causing stable integration of exogenous DNA into plant genomic DNA include two main approaches:

(i) Agrobacterium-mediated gene transfer: Klee et al. (1987) Annu. Rev. Plant Physiol. 38:467-486; Klee and Rogers in Cell Culture and Somatic Cell Genetics of Plants, Vol. 6, Molecular Biology of Plant Nuclear Genes, eds. Schell, J., and Vasil, L. K., Academic Publishers, San Diego, Calif. (1989) p. 2-25; Gatenby, in Plant Biotechnology, eds. Kung, S. and Arntzen, C. J., Butterworth Publishers, Boston, Mass. (1989) p. 93-112. (ii) Direct DNA uptake: Paszkowski et al., in Cell Culture and Somatic Cell Genetics of Plants, Vol. 6, Molecular Biology of Plant Nuclear Genes eds. Schell, J., and Vasil, L. K., Academic Publishers, San Diego, Calif. (1989) p. 52-68; including methods for direct uptake of DNA into protoplasts, Toriyama, K. et al. (1988) Bio/Technology 6: 1072-1074. DNA uptake induced by brief electric shock of plant cells: Zhang et al. Plant Cell Rep. (1988) 7:379-384. Fromm et al. Nature (1986) 319:791-793. DNA injection into plant cells or tissues by particle bombardment, Klein et al. Bio/Technology (1988) 6:559-563; McCabe et al. Bio/Technology (1988) 6:923- 926; Sanford, Physiol. Plant. (1990) 79:206-209; by the use of micropipette systems: Neuhaus et al., Theor. Appl. Genet. (1987) 75:30-36; Neuhaus and Spangenberg, Physiol. Plant. (1990) 79:213-217; glass fibers or silicon carbide whisker transformation of cell cultures, embryos or callus tissue, U.S. Pat. No. 5,464,765 or by the direct incubation of DNA with germinating pollen, DeWet et al. in Experimental Manipulation of Ovule Tissue, eds. Chapman, G. P. and Mantell, S. H. and Daniels, W. Longman, London, (1985) p. 197-209; and Ohta, Proc. Natl. Acad. Sci. USA (1986) 83:715- 719.

The Agrobacterium system includes the use of plasmid vectors that contain defined DNA segments that integrate into the plant genomic DNA. Methods of inoculation of the plant tissue vary depending upon the plant species and the Agrobacterium delivery system. A widely used approach is the leaf disc procedure which can be performed with any tissue explant that provides a good source for initiation of whole plant differentiation. See, e.g., Horsch et al. in Plant Molecular Biology Manual A5, Kluwer Academic Publishers, Dordrecht (1988) p. 1-9. A supplementary approach employs the Agrobacterium delivery system in combination with vacuum infiltration. The Agrobacterium system is especially viable in the creation of transgenic dicotyledonous plants.

There are various methods of direct DNA transfer into plant cells. In electroporation, the protoplasts are briefly exposed to a strong electric field. In microinjection, the DNA is mechanically injected directly into the cells using very small micropipettes. In microparticle bombardment, the DNA is adsorbed on microprojectiles such as magnesium sulfate crystals or tungsten particles, and the microprojectiles are physically accelerated into cells or plant tissues. Following stable transformation plant propagation is exercised. The most common method of plant propagation is by seed. Regeneration by seed propagation, however, has the deficiency that due to heterozygosity there is a lack of uniformity in the crop, since seeds are produced by plants according to the genetic variances governed by Mendelian rules. Basically, each seed is genetically different and each will grow with its own specific traits. Therefore, it is preferred that the transformed plant be produced such that the regenerated plant has the identical traits and characteristics of the parent transgenic plant. Therefore, it is preferred that the transformed plant be regenerated by micropropagation which provides a rapid, consistent reproduction of the transformed plants.

Micropropagation is a process of growing new generation plants from a single piece of tissue that has been excised from a selected parent plant or cultivar. This process permits the mass reproduction of plants having the preferred tissue expressing the fusion protein. The new generation plants which are produced are genetically identical to, and have all of the characteristics of, the original plant. Micropropagation allows mass production of quality plant material in a short period of time and offers a rapid multiplication of selected cultivars in the preservation of the characteristics of the original transgenic or transformed plant. The advantages of cloning plants are the speed of plant multiplication and the quality and uniformity of plants produced.

Micropropagation is a multi-stage procedure that requires alteration of culture medium or growth conditions between stages. Thus, the micropropagation process involves four basic stages: Stage one, initial tissue culturing; stage two, tissue culture multiplication; stage three, differentiation and plant formation; and stage four, greenhouse culturing and hardening. During stage one, initial tissue culturing, the tissue culture is established and certified contaminant-free. During stage two, the initial tissue culture is multiplied until a sufficient number of tissue samples are produced from the seedlings to meet production goals. During stage three, the tissue samples grown in stage two are divided and grown into individual plantlets. At stage four, the transformed plantlets are transferred to a greenhouse for hardening where the plants' tolerance to light is gradually increased so that it can be grown in the natural environment. According to some embodiments of the invention, the transgenic plants are generated by transient transformation of leaf cells, meristematic cells or the whole plant.

Transient transformation can be effected by any of the direct DNA transfer methods described above or by viral infection using modified plant viruses.

Viruses that have been shown to be useful for the transformation of plant hosts include CaMV, Tobacco mosaic virus (TMV), brome mosaic virus (BMV) and Bean Common Mosaic Virus (BV or BCMV). Transformation of plants using plant viruses is described in U.S. Pat. No. 4,855,237 (bean golden mosaic virus; BGV), EP-A 67,553 (TMV), Japanese Published Application No. 63-14693 (TMV), EPA 194,809 (BV), EPA 278,667 (BV); and Gluzman, Y. et al., Communications in Molecular Biology: Viral Vectors, Cold Spring Harbor Laboratory, New York, pp. 172-189 (1988). Pseudovirus particles for use in expressing foreign DNA in many hosts, including plants are described in WO 87/06261.

According to some embodiments of the invention, the virus used for transient transformations is avirulent and thus is incapable of causing severe symptoms such as reduced growth rate, mosaic, ring spots, leaf roll, yellowing, streaking, pox formation, tumor formation and pitting. A suitable avirulent virus may be a naturally occurring avirulent virus or an artificially attenuated virus. Virus attenuation may be effected by using methods well known in the art including, but not limited to, sub-lethal heating, chemical treatment or by directed mutagenesis techniques such as described, for example, by Kurihara and Watanabe (Molecular Plant Pathology 4:259-269, 2003), Galon et al. (1992), Atreya et al. (1992) and Huet et al. (1994).

Suitable virus strains can be obtained from available sources such as, for example, the American Type culture Collection (ATCC) or by isolation from infected plants. Isolation of viruses from infected plant tissues can be effected by techniques well known in the art such as described, for example by Foster and Taylor, Eds. "Plant Virology Protocols: From Virus Isolation to Transgenic Resistance (Methods in Molecular Biology (Humana Pr), Vol 81)", Humana Press, 1998. Briefly, tissues of an infected plant believed to contain a high concentration of a suitable virus, preferably young leaves and flower petals, are ground in a buffer solution (e.g., phosphate buffer solution) to produce a virus infected sap which can be used in subsequent inoculations. Construction of plant RNA viruses for the introduction and expression of non- viral exogenous polynucleotide sequences in plants is demonstrated by the above references as well as by Dawson, W. O. et al., Virology (1989) 172:285-292; Takamatsu et al. EMBO J. (1987) 6:307-311; French et al. Science (1986) 231: 1294- 1297; Takamatsu et al. FEBS Letters (1990) 269:73-76; and U.S. Pat. No. 5,316,931.

When the virus is a DNA virus, suitable modifications can be made to the virus itself. Alternatively, the virus can first be cloned into a bacterial plasmid for ease of constructing the desired viral vector with the foreign DNA. The virus can then be excised from the plasmid. If the virus is a DNA virus, a bacterial origin of replication can be attached to the viral DNA, which is then replicated by the bacteria. Transcription and translation of this DNA will produce the coat protein which will encapsidate the viral DNA. If the virus is an RNA virus, the virus is generally cloned as a cDNA and inserted into a plasmid. The plasmid is then used to make all of the constructions. The RNA virus is then produced by transcribing the viral sequence of the plasmid and translation of the viral genes to produce the coat protein(s) which encapsidate the viral RNA.

In one embodiment, a plant viral polynucleotide is provided in which the native coat protein coding sequence has been deleted from a viral polynucleotide, a non-native plant viral coat protein coding sequence and a non-native promoter, preferably the subgenomic promoter of the non-native coat protein coding sequence, capable of expression in the plant host, packaging of the recombinant plant viral polynucleotide, and ensuring a systemic infection of the host by the recombinant plant viral polynucleotide, has been inserted. Alternatively, the coat protein gene may be inactivated by insertion of the non-native polynucleotide sequence within it, such that a protein is produced. The recombinant plant viral polynucleotide may contain one or more additional non-native subgenomic promoters. Each non-native subgenomic promoter is capable of transcribing or expressing adjacent genes or polynucleotide sequences in the plant host and incapable of recombination with each other and with native subgenomic promoters. Non-native (foreign) polynucleotide sequences may be inserted adjacent the native plant viral subgenomic promoter or the native and a non- native plant viral subgenomic promoters if more than one polynucleotide sequence is included. The non-native polynucleotide sequences are transcribed or expressed in the host plant under control of the subgenomic promoter to produce the desired products.

In a second embodiment, a recombinant plant viral polynucleotide is provided as in the first embodiment except that the native coat protein coding sequence is placed adjacent one of the non-native coat protein subgenomic promoters instead of a non- native coat protein coding sequence.

In a third embodiment, a recombinant plant viral polynucleotide is provided in which the native coat protein gene is adjacent its subgenomic promoter and one or more non-native subgenomic promoters have been inserted into the viral polynucleotide. The inserted non-native subgenomic promoters are capable of transcribing or expressing adjacent genes in a plant host and are incapable of recombination with each other and with native subgenomic promoters. Non-native polynucleotide sequences may be inserted adjacent the non-native subgenomic plant viral promoters such that the sequences are transcribed or expressed in the host plant under control of the subgenomic promoters to produce the desired product.

In a fourth embodiment, a recombinant plant viral polynucleotide is provided as in the third embodiment except that the native coat protein coding sequence is replaced by a non-native coat protein coding sequence.

The viral vectors are encapsidated by the coat proteins encoded by the recombinant plant viral polynucleotide to produce a recombinant plant virus. The recombinant plant viral polynucleotide or recombinant plant virus is used to infect appropriate host plants. The recombinant plant viral polynucleotide is capable of replication in the host, systemic spread in the host, and transcription or expression of foreign gene(s) (exogenous polynucleotide) in the host to produce the desired protein.

Techniques for inoculation of viruses to plants may be found in Foster and

Taylor, eds. "Plant Virology Protocols: From Virus Isolation to Transgenic Resistance (Methods in Molecular Biology (Humana Pr), Vol 81)", Humana Press, 1998; Maramorosh and Koprowski, eds. "Methods in Virology" 7 vols, Academic Press, New York 1967-1984; Hill, S.A. "Methods in Plant Virology", Blackwell, Oxford, 1984; Walkey, D.G.A. "Applied Plant Virology", Wiley, New York, 1985; and Kado and Agrawa, eds. "Principles and Techniques in Plant Virology", Van Nostrand-Reinhold, New York. In addition to the above, the polynucleotide of the present invention can also be introduced into a chloroplast genome thereby enabling chloroplast expression.

A technique for introducing exogenous polynucleotide sequences to the genome of the chloroplasts is known. This technique involves the following procedures. First, plant cells are chemically treated so as to reduce the number of chloroplasts per cell to about one. Then, the exogenous polynucleotide is introduced via particle bombardment into the cells with the aim of introducing at least one exogenous polynucleotide molecule into the chloroplasts. The exogenous polynucleotides selected such that it is integratable into the chloroplast's genome via homologous recombination which is readily effected by enzymes inherent to the chloroplast. To this end, the exogenous polynucleotide includes, in addition to a gene of interest, at least one polynucleotide stretch which is derived from the chloroplast's genome. In addition, the exogenous polynucleotide includes a selectable marker, which serves by sequential selection procedures to ascertain that all or substantially all of the copies of the chloroplast genomes following such selection will include the exogenous polynucleotide. Further details relating to this technique are found in U.S. Pat. Nos. 4,945,050; and 5,693,507 which are incorporated herein by reference. A polypeptide can thus be produced by the protein expression system of the chloroplast and become integrated into the chloroplast's inner membrane.

According to some embodiments, there is provided a method of improving nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of a grafted plant, the method comprising providing a scion that does not transgenically express a polynucleotide encoding a polypeptide at least 80% homologous to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-327 and 4064- 6893 and a plant rootstock that transgenically expresses a polynucleotide encoding a polypeptide at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % homologous (or identical) to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295-327, 4064-4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, 6792-6892 or 6893 (e.g., in a constitutive or an abiotic stress responsive manner), thereby improving the nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance of the grafted plant.

In some embodiments, the plant scion is non-transgenic.

Several embodiments relate to a grafted plant exhibiting improved nitrogen use efficiency, yield, growth rate, biomass, vigor, oil content, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, and/or abiotic stress tolerance, comprising a scion that does not transgenically express a polynucleotide encoding a polypeptide at least about 80 % homologous (or identical) to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893 and a plant rootstock that transgenically expresses a polynucleotide encoding a polypeptide at at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % homologous (or identical) to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295-327, 4064-4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828- 6679, 6689-6690, 6708-6785, and 6792-6893.

In some embodiments, the plant root stock transgenically expresses a polynucleotide encoding a polypeptide at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % homologous (or identical) to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295- 327, 4064-4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780- 5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, and 6792-6893 in a stress responsive manner.

According to some embodiments of the invention, the plant root stock transgenically expresses a polynucleotide encoding a polypeptide selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893.

According to some embodiments of the invention, the plant root stock transgenically expresses a polynucleotide comprising a nucleic acid sequence at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % identical to the polynucleotide selected from the group consisting of SEQ ID NOs: 1-91, 94-201, 328-2317, 2320-2321, 2323, 2326-3835, 3838-3840, 3842-3843, 3848, 3850-3852, 3854, 3856-3953, and 3955-4062.

According to some embodiments of the invention, the plant root stock transgenically expresses a polynucleotide selected from the group consisting of SEQ ID NOs: 1-201 and 328-4062.

Since processes which increase nitrogen use efficiency, fertilizer use efficiency, oil content, yield, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, growth rate, biomass, vigor and/or abiotic stress tolerance of a plant can involve multiple genes acting additively or in synergy (see, for example, in Quesda et al., Plant Physiol. 130:951-063, 2002), the present invention also envisages expressing a plurality of exogenous polynucleotides in a single host plant to thereby achieve superior effect on oil content, yield, seed yield, fiber yield, fiber quality, fiber length, photosynthetic capacity, growth rate, biomass, vigor and/or abiotic stress tolerance.

Expressing a plurality of exogenous polynucleotides in a single host plant can be effected by co-introducing multiple nucleic acid constructs, each including a different exogenous polynucleotide, into a single plant cell. The transformed cell can then be regenerated into a mature plant using the methods described hereinabove. Alternatively, expressing a plurality of exogenous polynucleotides in a single host plant can be effected by co-introducing into a single plant-cell a single nucleic-acid construct including a plurality of different exogenous polynucleotides. Such a construct can be designed with a single promoter sequence which can transcribe a polycistronic messenger RNA including all the different exogenous polynucleotide sequences. To enable co-translation of the different polypeptides encoded by the polycistronic messenger RNA, the polynucleotide sequences can be inter-linked via an internal ribosome entry site (IRES) sequence which facilitates translation of polynucleotide sequences positioned downstream of the IRES sequence. In this case, a transcribed polycistronic RNA molecule encoding the different polypeptides described above will be translated from both the capped 5' end and the two internal IRES sequences of the polycistronic RNA molecule to thereby produce in the cell all different polypeptides. Alternatively, the construct can include several promoter sequences each linked to a different exogenous polynucleotide sequence.

The plant cell transformed with the construct including a plurality of different exogenous polynucleotides, can be regenerated into a mature plant, using the methods described hereinabove.

Alternatively, expressing a plurality of exogenous polynucleotides in a single host plant can be effected by introducing different nucleic acid constructs, including different exogenous polynucleotides, into a plurality of plants. The regenerated transformed plants can then be cross-bred and resultant progeny selected for superior abiotic stress tolerance, water use efficiency, fertilizer use efficiency, growth, biomass, yield and/or vigor traits, using conventional plant breeding techniques.

According to some embodiments of the invention, the method further comprising growing the plant expressing the exogenous polynucleotide under the abiotic stress.

Non-limiting examples of abiotic stress conditions include, salinity, osmotic stress, drought, water deprivation, excess of water (e.g., flood, waterlogging), etiolation, low temperature (e.g., cold stress), high temperature, heavy metal toxicity, anaerobiosis, nutrient deficiency (e.g., nitrogen deficiency or nitrogen limitation), nutrient excess, atmospheric pollution and UV irradiation. According to some embodiments of the invention, the method further comprising growing the plant expressing the exogenous polynucleotide under fertilizer limiting conditions (e.g., nitrogen-limiting conditions). Non-limiting examples include growing the plant on soils with low nitrogen content (40-50% Nitrogen of the content present under normal or optimal conditions), or even under sever nitrogen deficiency (0- 10% Nitrogen of the content present under normal or optimal conditions).

Thus, the invention encompasses plants exogenously expressing the polynucleotide(s), the nucleic acid constructs and/or polypeptide(s) of the invention.

Once expressed within the plant cell or the entire plant, the level of the polypeptide encoded by the exogenous polynucleotide can be determined by methods well known in the art such as, activity assays, Western blots using antibodies capable of specifically binding the polypeptide, Enzyme-Linked Immuno Sorbent Assay (ELISA), radio-immuno-assays (RIA), immunohistochemistry, immunocytochemistry, immunofluorescence and the like.

Methods of determining the level in the plant of the RNA transcribed from the exogenous polynucleotide are well known in the art and include, for example, Northern blot analysis, reverse transcription polymerase chain reaction (RT-PCR) analysis (including quantitative, semi-quantitative or real-time RT-PCR) and RNA-m situ hybridization.

The sequence information and annotations uncovered by the present teachings can be harnessed in favor of classical breeding. Thus, sub-sequence data of those polynucleotides described above, can be used as markers for marker assisted selection (MAS), in which a marker is used for indirect selection of a genetic determinant or determinants of a trait of interest (e.g., biomass, growth rate, oil content, yield, abiotic stress tolerance, water use efficiency, nitrogen use efficiency and/or fertilizer use efficiency). Nucleic acid data of the present teachings (DNA or RNA sequence) may contain or be linked to polymorphic sites or genetic markers on the genome such as restriction fragment length polymorphism (RFLP), microsatellites and single nucleotide polymorphism (SNP), DNA fingerprinting (DFP), amplified fragment length polymorphism (AFLP), expression level polymorphism, polymorphism of the encoded polypeptide and any other polymorphism at the DNA or RNA sequence. Examples of marker assisted selections include, but are not limited to, selection for a morphological trait (e.g., a gene that affects form, coloration, male sterility or resistance such as the presence or absence of awn, leaf sheath coloration, height, grain color, aroma of rice); selection for a biochemical trait (e.g., a gene that encodes a protein that can be extracted and observed; for example, isozymes and storage proteins); selection for a biological trait (e.g., pathogen races or insect biotypes based on host pathogen or host parasite interaction can be used as a marker since the genetic constitution of an organism can affect its susceptibility to pathogens or parasites).

The polynucleotides and polypeptides described hereinabove can be used in a wide range of economical plants, in a safe and cost effective manner.

Plant lines exogenously expressing the polynucleotide or the polypeptide of the invention are screened to identify those that show the greatest increase of the desired plant trait.

Thus, according to an additional embodiment of the present invention, there is provided a method of evaluating a trait of a plant, the method comprising: (a) expressing in a plant or a portion thereof the nucleic acid construct of some embodiments of the invention; and (b) evaluating a trait of a plant as compared to a wild type plant of the same type (e.g., a plant not transformed with the claimed biomolecules); thereby evaluating the trait of the plant.

According to an aspect of some embodiments of the invention there is provided a method of producing a crop comprising growing a crop of a plant expressing an exogenous polynucleotide comprising a nucleic acid sequence encoding a polypeptide at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, or more say 100 % homologous (e.g., identical) to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295-327, 4064-4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828- 6679, 6689-6690, 6708-6785, and 6792-6893, wherein said plant is derived from a plant selected for increased abiotic stress tolerance, increased water use efficiency, increased growth rate, increased vigor, increased biomass, increased oil content, increased yield, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photo synthetic capacity, and/or increased fertilizer use efficiency (e.g., increased nitrogen use efficiency) as compared to a control plant, thereby producing the crop.

According to an aspect of some embodiments of the present invention there is provided a method of producing a crop comprising growing a crop plant transformed with an exogenous polynucleotide encoding a polypeptide at least 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, or more say 100 % homologous (e.g., identical) to the amino acid sequence selected from the group consisting of SEQ ID NOs: 202-219, 221-292, 295- 327, 4064-4175, 4177-4210, 4212-4580, 4582-4603, 4605-4749, 4751-4778, 4780- 5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, and 6792-6893, wherein the crop plant is derived from plants selected for increased abiotic stress tolerance, increased water use efficiency, increased growth rate, increased vigor, increased biomass, increased oil content, increased yield, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased fertilizer use efficiency (e.g., increased nitrogen use efficiency) as compared to a wild type plant of the same species which is grown under the same growth conditions, and the crop plant having the increased abiotic stress tolerance, increased water use efficiency, increased growth rate, increased vigor, increased biomass, increased oil content, increased yield, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased fertilizer use efficiency (e.g., increased nitrogen use efficiency), thereby producing the crop.

According to some embodiments of the invention the polypeptide is selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893.

According to an aspect of some embodiments of the invention there is provided a method of producing a crop comprising growing a crop of a plant expressing an exogenous polynucleotide which comprises a nucleic acid sequence which is at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % identical to the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 1-91, 94-201, 328-2317, 2320-2321, 2323, 2326-3835, 3838-3840, 3842-3843, 3848, 3850- 3852, 3854, 3856-3953, and 3955-4062, wherein said plant is derived from a plant (parent plant) that has been transformed to express the exogenous polynucleotide and that has been selected for increased abiotic stress tolerance, increased water use efficiency, increased growth rate, increased vigor, increased biomass, increased oil content, increased yield, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased fertilizer use efficiency (e.g., increased nitrogen use efficiency) as compared to a control plant, thereby producing the crop.

According to an aspect of some embodiments of the present invention there is provided a method of producing a crop comprising growing a crop plant transformed with an exogenous polynucleotide at least 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, or more say 100 % identical to the nucleic acid sequence selected from the group consisting of SEQ ID NOs: 1-91, 94-201, 328-2317, 2320-2321, 2323, 2326-3835, 3838-3840, 3842-3843, 3848, 3850-3852, 3854, 3856-3953, and 3955-4062, wherein the crop plant is derived from plants selected for increased abiotic stress tolerance, increased water use efficiency, increased growth rate, increased vigor, increased biomass, increased oil content, increased yield, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased fertilizer use efficiency (e.g., increased nitrogen use efficiency) as compared to a wild type plant of the same species which is grown under the same growth conditions, and the crop plant having the increased abiotic stress tolerance, increased water use efficiency, increased growth rate, increased vigor, increased biomass, increased oil content, increased yield, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased fertilizer use efficiency (e.g., increased nitrogen use efficiency), thereby producing the crop.

According to some embodiments of the invention the exogenous polynucleotide is selected from the group consisting of SEQ ID NOs: 1-201 and 328-4062.

According to an aspect of some embodiments of the invention there is provided a method of growing a crop comprising seeding seeds and/or planting plantlets of a plant transformed with the exogenous polynucleotide of the invention, e.g., the polynucleotide which encodes the polypeptide of some embodiments of the invention, wherein the plant is derived from plants selected for at least one trait selected from the group consisting of increased abiotic stress tolerance, increased water use efficiency, increased growth rate, increased vigor, increased biomass, increased oil content, increased yield, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased fertilizer use efficiency (e.g., increased nitrogen use efficiency) as compared to a non-transformed plant.

According to some embodiments of the invention the method of growing a crop comprising seeding seeds and/or planting plantlets of a plant transformed with an exogenous polynucleotide comprising a nucleic acid sequence encoding a polypeptide at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % identical to SEQ ID NO: 202-219, 221-292, 295-327, 4064-4175, 4177-4210, 4212- 4580, 4582-4603, 4605-4749, 4751-4778, 4780-5223, 5225-5493, 5522-5807, 5812, 5815-5816, 5828-6679, 6689-6690, 6708-6785, 6792-6892 or 6893, wherein the plant is derived from plants selected for at least one trait selected from the group consisting of increased abiotic stress tolerance, increased water use efficiency, increased growth rate, increased vigor, increased biomass, increased oil content, increased yield, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased fertilizer use efficiency (e.g., increased nitrogen use efficiency) as compared to a non-transformed plant, thereby growing the crop.

According to some embodiments of the invention the polypeptide is selected from the group consisting of SEQ ID NOs: 202-327 and 4064-6893.

According to some embodiments of the invention the method of growing a crop comprising seeding seeds and/or planting plantlets of a plant transformed with an exogenous polynucleotide comprising the nucleic acid sequence at least about 80 %, at least about 81 %, at least about 82 %, at least about 83 %, at least about 84 %, at least about 85 %, at least about 86 %, at least about 87 %, at least about 88 %, at least about 89 %, at least about 90 %, at least about 91 %, at least about 92 %, at least about 93 %, at least about 93 %, at least about 94 %, at least about 95 %, at least about 96 %, at least about 97 %, at least about 98 %, at least about 99 %, e.g., 100 % identical to SEQ ID NO: 1-91, 94-201, 328-2317, 2320-2321, 2323, 2326-3835, 3838-3840, 3842-3843, 3848, 3850-3852, 3854, 3856-3953, 3955-4061 or 4062, wherein the plant is derived from plants selected for at least one trait selected from the group consisting of increased abiotic stress tolerance, increased water use efficiency, increased growth rate, increased vigor, increased biomass, increased oil content, increased yield, increased seed yield, increased fiber yield, increased fiber quality, increased fiber length, increased photosynthetic capacity, and/or increased fertilizer use efficiency (e.g., increased nitrogen use efficiency) as compared to a non-transformed plant, thereby growing the crop.

According to some embodiments of the invention the exogenous polynucleotide is selected from the group consisting of SEQ ID NOs: 1-201 and 328-4062.

The effect of the transgene (the exogenous polynucleotide encoding the polypeptide) on abiotic stress tolerance can be determined using known methods such as detailed below and in the Examples section which follows.

Abiotic stress tolerance - Transformed (i.e., expressing the transgene) and non- transformed (wild type) plants are exposed to an abiotic stress condition, such as water deprivation, suboptimal temperature (low temperature, high temperature), nutrient deficiency, nutrient excess, a salt stress condition, osmotic stress, heavy metal toxicity, anaerobiosis, atmospheric pollution and UV irradiation.

Salinity tolerance assay - Transgenic plants with tolerance to high salt concentrations are expected to exhibit better germination, seedling vigor or growth in high salt. Salt stress can be effected in many ways such as, for example, by irrigating the plants with a hyperosmotic solution, by cultivating the plants hydroponically in a hyperosmotic growth solution (e.g., Hoagland solution), or by culturing the plants in a hyperosmotic growth medium [e.g., 50 % Murashige-Skoog medium (MS medium)]. Since different plants vary considerably in their tolerance to salinity, the salt concentration in the irrigation water, growth solution, or growth medium can be adjusted according to the specific characteristics of the specific plant cultivar or variety, so as to inflict a mild or moderate effect on the physiology and/or morphology of the plants (for guidelines as to appropriate concentration see, Bernstein and Kafkafi, Root Growth Under Salinity Stress In: Plant Roots, The Hidden Half 3rd ed. Waisel Y, Eshel A and Kafkafi U. (editors) Marcel Dekker Inc., New York, 2002, and reference therein).

For example, a salinity tolerance test can be performed by irrigating plants at different developmental stages with increasing concentrations of sodium chloride (for example 50 mM, 100 mM, 200 mM, 400 mM NaCl) applied from the bottom and from above to ensure even dispersal of salt. Following exposure to the stress condition the plants are frequently monitored until substantial physiological and/or morphological effects appear in wild type plants. Thus, the external phenotypic appearance, degree of wilting and overall success to reach maturity and yield progeny are compared between control and transgenic plants.

Quantitative parameters of tolerance measured include, but are not limited to, the average wet and dry weight, growth rate, leaf size, leaf coverage (overall leaf area), the weight of the seeds yielded, the average seed size and the number of seeds produced per plant. Transformed plants not exhibiting substantial physiological and/or morphological effects, or exhibiting higher biomass than wild-type plants, are identified as abiotic stress tolerant plants.

Osmotic tolerance test - Osmotic stress assays (including sodium chloride and mannitol assays) are conducted to determine if an osmotic stress phenotype was sodium chloride- specific or if it was a general osmotic stress related phenotype. Plants which are tolerant to osmotic stress may have more tolerance to drought and/or freezing. For salt and osmotic stress germination experiments, the medium is supplemented for example with 50 mM, 100 mM, 200 mM NaCl or 100 mM, 200 mM NaCl, 400 mM mannitol.

Drought tolerance assay/ Osm oticu m assay - Tolerance to drought is performed to identify the genes conferring better plant survival after acute water deprivation. To analyze whether the transgenic plants are more tolerant to drought, an osmotic stress produced by the non-ionic osmolyte sorbitol in the medium can be performed. Control and transgenic plants are germinated and grown in plant-agar plates for 4 days, after which they are transferred to plates containing 500 mM sorbitol. The treatment causes growth retardation, then both control and transgenic plants are compared, by measuring plant weight (wet and dry), yield, and by growth rates measured as time to flowering.

Conversely, soil-based drought screens are performed with plants overexpressing the polynucleotides detailed above. Seeds from control Arabidopsis plants, or other transgenic plants overexpressing the polypeptide of the invention are germinated and transferred to pots. Drought stress is obtained after irrigation is ceased accompanied by placing the pots on absorbent paper to enhance the soil-drying rate. Transgenic and control plants are compared to each other when the majority of the control plants develop severe wilting. Plants are re-watered after obtaining a significant fraction of the control plants displaying a severe wilting. Plants are ranked comparing to controls for each of two criteria: tolerance to the drought conditions and recovery (survival) following re-watering.

Cold stress tolerance - To analyze cold stress, mature (25 day old) plants are transferred to 4 °C chambers for 1 or 2 weeks, with constitutive light. Later on plants are moved back to greenhouse. Two weeks later damages from chilling period, resulting in growth retardation and other phenotypes, are compared between both control and transgenic plants, by measuring plant weight (wet and dry), and by comparing growth rates measured as time to flowering, plant size, yield, and the like.

Heat stress tolerance - Heat stress tolerance is achieved by exposing the plants to temperatures above 34 °C for a certain period. Plant tolerance is examined after transferring the plants back to 22 °C for recovery and evaluation after 5 days relative to internal controls (non-transgenic plants) or plants not exposed to neither cold or heat stress.

Water use efficiency - can be determined as the biomass produced per unit transpiration. To analyze WUE, leaf relative water content can be measured in control and transgenic plants. Fresh weight (FW) is immediately recorded; then leaves are soaked for 8 hours in distilled water at room temperature in the dark, and the turgid weight (TW) is recorded. Total dry weight (DW) is recorded after drying the leaves at 60 °C to a constant weight. Relative water content (RWC) is calculated according to the following Formula I:

Formula I

RWC = [(FW - DW) / (TW - DW)] x 100

Fertilizer use efficiency - To analyze whether the transgenic plants are more responsive to fertilizers, plants are grown in agar plates or pots with a limited amount of fertilizer, as described, for example, in Examples 17-19 hereinbelow and in Yanagisawa et al (Proc Natl Acad Sci U S A. 2004; 101:7833-8). The plants are analyzed for their overall size, time to flowering, yield, protein content of shoot and/or grain. The parameters checked are the overall size of the mature plant, its wet and dry weight, the weight of the seeds yielded, the average seed size and the number of seeds produced per plant. Other parameters that may be tested are: the chlorophyll content of leaves (as nitrogen plant status and the degree of leaf verdure is highly correlated), amino acid and the total protein content of the seeds or other plant parts such as leaves or shoots, oil content, etc. Similarly, instead of providing nitrogen at limiting amounts, phosphate or potassium can be added at increasing concentrations. Again, the same parameters measured are the same as listed above. In this way, nitrogen use efficiency (NUE), phosphate use efficiency (PUE) and potassium use efficiency (KUE) are assessed, checking the ability of the transgenic plants to thrive under nutrient restraining conditions.

Nitrogen use efficiency - To analyze whether the transgenic plants (e.g., Arabidopsis plants) are more responsive to nitrogen, plant are grown in 0.75-3 mM (nitrogen deficient conditions) or 6-10 mM (optimal nitrogen concentration). Plants are allowed to grow for additional 25 days or until seed production. The plants are then analyzed for their overall size, time to flowering, yield, protein content of shoot and/or grain/ seed production. The parameters checked can be the overall size of the plant, wet and dry weight, the weight of the seeds yielded, the average seed size and the number of seeds produced per plant. Other parameters that may be tested are: the chlorophyll content of leaves (as nitrogen plant status and the degree of leaf greenness is highly correlated), amino acid and the total protein content of the seeds or other plant parts such as leaves or shoots and oil content. Transformed plants not exhibiting substantial physiological and/or morphological effects, or exhibiting higher measured parameters levels than wild-type plants, are identified as nitrogen use efficient plants.

Nitrogen Use efficiency assay using plantlets - The assay is done according to Yanagisawa-S. et al. with minor modifications ("Metabolic engineering with Dofl transcription factor in plants: Improved nitrogen assimilation and growth under low- nitrogen conditions" Proc. Natl. Acad. Sci. USA 101, 7833-7838). Briefly, transgenic plants which are grown for 7-10 days in 0.5 x MS [Murashige-Skoog] supplemented with a selection agent are transferred to two nitrogen-limiting conditions: MS media in which the combined nitrogen concentration (NH ₄ N0 ₃ and KN0 ₃ ) was 0.75 mM (nitrogen deficient conditions) or 6-15 mM (optimal nitrogen concentration). Plants are allowed to grow for additional 30-40 days and then photographed, individually removed from the Agar (the shoot without the roots) and immediately weighed (fresh weight) for later statistical analysis. Constructs for which only Tl seeds are available are sown on selective media and at least 20 seedlings (each one representing an independent transformation event) are carefully transferred to the nitrogen-limiting media. For constructs for which T2 seeds are available, different transformation events are analyzed. Usually, 20 randomly selected plants from each event are transferred to the nitrogen-limiting media allowed to grow for 3-4 additional weeks and individually weighed at the end of that period. Transgenic plants are compared to control plants grown in parallel under the same conditions. Mock- transgenic plants expressing the uidA reporter gene (GUS) under the same promoter or transgenic plants carrying the same promoter but lacking a reporter gene are used as control.

Nitrogen determination - The procedure for N (nitrogen) concentration determination in the structural parts of the plants involves the potassium persulfate digestion method to convert organic N to N0 ₃ ^" (Purcell and King 1996 Argon. J. 88: 111-113, the modified Cd ^" mediated reduction of N0 ₃ ^" to N0 ₂ ^~ (Vodovotz 1996 Biotechniques 20:390-394) and the measurement of nitrite by the Griess assay (Vodovotz 1996, supra). The absorbance values are measured at 550 nm against a standard curve of NaN0 ₂ . The procedure is described in details in Samonte et al. 2006 Agron. J. 98: 168-176.

Germination tests - Germination tests compare the percentage of seeds from transgenic plants that could complete the germination process to the percentage of seeds from control plants that are treated in the same manner. Normal conditions are considered for example, incubations at 22 °C under 22-hour light 2-hour dark daily cycles. Evaluation of germination and seedling vigor is conducted between 4 and 14 days after planting. The basal media is 50 % MS medium (Murashige and Skoog, 1962 Plant Physiology 15, 473-497).

Germination is checked also at unfavorable conditions such as cold (incubating at temperatures lower than 10 °C instead of 22 °C) or using seed inhibition solutions that contain high concentrations of an osmolyte such as sorbitol (at concentrations of 50 mM, 100 mM, 200 mM, 300 mM, 500 mM, and up to 1000 mM) or applying increasing concentrations of salt (of 50 mM, 100 mM, 200 mM, 300 mM, 500 mM NaCl).

The effect of the transgene on plant's vigor, growth rate, biomass, yield and/or oil content can be determined using known methods.

Plant vigor - The plant vigor can be calculated by the increase in growth parameters such as leaf area, fiber length, rosette diameter, plant fresh weight and the like per time.

Growth rate - The growth rate can be measured using digital analysis of growing plants. For example, images of plants growing in greenhouse on plot basis can be captured every 3 days and the rosette area can be calculated by digital analysis. Rosette area growth is calculated using the difference of rosette area between days of sampling divided by the difference in days between samples.

Evaluation of growth rate can be done by measuring plant biomass produced, rosette area, leaf size or root length per time (can be measured in cm per day of leaf area).

Relative growth area can be calculated using Formula II.

Formula II:

Relative growth rate area = Regression coefficient of area along time course Thus, the relative growth area rate is in units of area units (e.g., mm /day or cm /day) and the relative length growth rate is in units of length units (e.g., cm/day or mm/day).

For example, RGR can be determined for plant height (Formula III), SPAD (Formula IV), Number of tillers (Formula V), root length (Formula VI), vegetative growth (Formula VII), leaf number (Formula VIII), rosette area (Formula IX), rosette diameter (Formula X), plot coverage (Formula XI), leaf blade area (Formula XII), and leaf area (Formula XIII).

Formula III: Relative growth rate of Plant height = Regression coefficient of Plant height along time course (measured in cm/day).

Formula IV: Relative growth rate of SPAD = Regression coefficient of SPAD measurements along time course.

Formula V: Relative growth rate of Number of tillers = Regression coefficient of Number of tillers along time course (measured in units of "number of tillers/day").

Formula VI: Relative growth rate of root length = Regression coefficient of root length along time course (measured in cm per day).

Vegetative growth rate analysis - was calculated according to Formula VII below.

Formula VII: Relative growth rate of vegetative growth = Regression coefficient of vegetative weight along time course (measured in grams per day).

Formula VIII: Relative growth rate of leaf number = Regression coefficient of leaf number along time course (measured in number per day).

Formula IX: Relative growth rate of rosette area = Regression coefficient of rosette area along time course (measured in cm per day).

Formula X: Relative growth rate of rosette diameter = Regression coefficient of rosette diameter along time course (measured in cm per day).

Formula XI: Relative growth rate of plot coverage = Regression coefficient of plot (measured in cm per day).

Formula XII: Relative growth rate of leaf blade area = Regression coefficient of leaf area along time course (measured in cm per day).

Formula XIII: Relative growth rate of leaf area = Regression coefficient of leaf area along time course (measured in cm per day). Formula XIV: 1000 Seed Weight = number of seed in sample/ sample weight X 1000

The Harvest Index can be calculated using Formulas XV, XVI, XVII, XVIII and XXXVII below.

Formula XV: Harvest Index (seed) = Average seed yield per plant/ Average dry weight.

Formula XVI: Harvest Index (Sorghum) = Average grain dry weight per Head / (Average vegetative dry weight per Head + Average Head dry weight)

Formula XVII: Harvest Index (Maize) = Average grain weight per plant/ (Average vegetative dry weight per plant plus Average grain weight per plant)

Harvest Index (for barley) - The harvest index is calculated using Formula

XVIII.

Formula XVIII: Harvest Index (for barley and wheat) = Average spike dry weight per plant/ (Average vegetative dry weight per plant + Average spike dry weight per plant)

Following is a non-limited list of additional parameters which can be detected in order to show the effect of the transgene on the desired plant's traits:

Formula XIX: Grain circularity = 4 x 3.14 (grain area/perimeter )

Formula XX: internode volume = 3.14 x (d/2) x l

Formula XXI: Normalized ear weight per plant + vegetative dry weight.

Formula XXII: Root/Shoot Ratio = total weight of the root at harvest/ total weight of the vegetative portion above ground at harvest. (=RBiH/BiH)

Formula XXIII: Ratio of the number of pods per node on main stem at pod set = Total number of pods on main stem /Total number of nodes on main stem.

Formula XXIV: Ratio of total number of seeds in main stem to number of seeds on lateral branches = Total number of seeds on main stem at pod set/ Total number of seeds on lateral branches at pod set.

Formula XXV: Petiole Relative Area = (Petiole area)/Rosette area (measured in

%).

Formula XXVI: % reproductive tiller percentage = Number of Reproductive tillers/number of tillers) X 100. Formula XXVII: Spikes Index = Average Spikes weight per plant/ (Average vegetative dry weight per plant plus Average Spikes weight per plant).

Formula XXVIII:

Relative growth rate of root coverage = Regression coefficient of root coverage along time course.

Formula XXIX:

Seed Oil yield = Seed yield per plant (gr.) * Oil % in seed.

Formula XXX: shoot/root Ratio = total weight of the vegetative portion above ground at harvest/ total weight of the root at harvest.

Formula XXXI: Spikelets Index = Average Spikelets weight per plant/

(Average vegetative dry weight per plant plus Average Spikelets weight per plant).

Formula XXXII: % Canopy coverage = (l-(PAR_DOWN/PAR_UP))xl00.

Formula XXXIII: leaf mass fraction = Leaf area / shoot FW.

Formula XXXIV: Relative growth rate based on dry weight = Regression coefficient of dry weight along time course.

Formula XXXV: Total dry matter (for Maize) = Normalized ear weight per plant + vegetative dry weight.

Formula XXXVI:

Agronomical NUE =

X Nitrogen Fertilization 0% Nitrogen Fertilization

Yield per plant (Kg. ) - Yield per plant (Kg. )

Fertilizer x

Formula XXXVII: Harvest Index (brachypodium) = Average grain weight/average dry (vegetative + spikelet) weight per plant.

Formula XXXVIII: Harvest Index for Sorghum* (* when the plants were not dried) = FW (fresh weight) Heads/(FW Heads + FW Plants)

Grain fill rate [mg/day] - Rate of dry matter accumulation in grain. The grain fill rate is calculated using Formula XXXIX

Formula XXXIX: Grain fill rate [mg/day] = [Grain weight*ear-l x 1000]/[Grain number*ear -1] x Grain filling duration].

Grain protein concentration - Grain protein content (g grain protein m ^" ) is estimated as the product of the mass of grain N (g grain N m ^" ) multiplied by the N/protein conversion ratio of k-5.13 (Mosse 1990, supra). The grain protein concentration is estimated as the ratio of grain protein content per unit mass of the grain (g grain protein kg ^"1 grain).

Fiber length - Fiber length can be measured using fibrograph. The fibrograph system was used to compute length in terms of "Upper Half Mean" length. The upper half mean (UHM) is the average length of longer half of the fiber distribution. The fibrograph measures length in span lengths at a given percentage point (cottoninc (dot) com/ClassificationofCotton/?Pg=4#Length).

According to some embodiments of the invention, increased yield of corn may be manifested as one or more of the following: increase in the number of plants per growing area, increase in the number of ears per plant, increase in the number of rows per ear, number of kernels per ear row, kernel weight, thousand kernel weight (1000- weight), ear length/diameter, increase oil content per kernel and increase starch content per kernel.

As mentioned, the increase of plant yield can be determined by various parameters. For example, increased yield of rice may be manifested by an increase in one or more of the following: number of plants per growing area, number of panicles per plant, number of spikelets per panicle, number of flowers per panicle, increase in the seed filling rate, increase in thousand kernel weight (1000- weight), increase oil content per seed, increase starch content per seed, among others. An increase in yield may also result in modified architecture, or may occur because of modified architecture.

Similarly, increased yield of soybean may be manifested by an increase in one or more of the following: number of plants per growing area, number of pods per plant, number of seeds per pod, increase in the seed filling rate, increase in thousand seed weight (1000-weight), reduce pod shattering, increase oil content per seed, increase protein content per seed, among others. An increase in yield may also result in modified architecture, or may occur because of modified architecture.

Increased yield of canola may be manifested by an increase in one or more of the following: number of plants per growing area, number of pods per plant, number of seeds per pod, increase in the seed filling rate, increase in thousand seed weight (1000- weight), reduce pod shattering, increase oil content per seed, among others. An increase in yield may also result in modified architecture, or may occur because of modified architecture.

Increased yield of cotton may be manifested by an increase in one or more of the following: number of plants per growing area, number of bolls per plant, number of seeds per boll, increase in the seed filling rate, increase in thousand seed weight (1000- weight), increase oil content per seed, improve fiber length, fiber strength, among others. An increase in yield may also result in modified architecture, or may occur because of modified architecture.

Oil content - The oil content of a plant can be determined by extraction of the oil from the seed or the vegetative portion of the plant. Briefly, lipids (oil) can be removed from the plant (e.g., seed) by grinding the plant tissue in the presence of specific solvents (e.g., hexane or petroleum ether) and extracting the oil in a continuous extractor. Indirect oil content analysis can be carried out using various known methods such as Nuclear Magnetic Resonance (NMR) Spectroscopy, which measures the resonance energy absorbed by hydrogen atoms in the liquid state of the sample [See for example, Conway TF. and Earle FR., 1963, Journal of the American Oil Chemists' Society; Springer Berlin / Heidelberg, ISSN: 0003-021X (Print) 1558-9331 (Online)]; the Near Infrared (NI) Spectroscopy, which utilizes the absorption of near infrared energy (1100- 2500 nm) by the sample; and a method described in WO/2001/023884, which is based on extracting oil a solvent, evaporating the solvent in a gas stream which forms oil particles, and directing a light into the gas stream and oil particles which forms a detectable reflected light.

Thus, the present invention is of high agricultural value for promoting the yield of commercially desired crops (e.g., biomass of vegetative organ such as poplar wood, or reproductive organ such as number of seeds or seed biomass).

Any of the transgenic plants described hereinabove or parts thereof may be processed to produce a feed, meal, protein or oil preparation, such as for ruminant animals.

The transgenic plants described hereinabove, which exhibit an increased oil content can be used to produce plant oil (by extracting the oil from the plant).

The plant oil (including the seed oil and/or the vegetative portion oil) produced according to the method of the invention may be combined with a variety of other ingredients. The specific ingredients included in a product are determined according to the intended use. Exemplary products include animal feed, raw material for chemical modification, biodegradable plastic, blended food product, edible oil, biofuel, cooking oil, lubricant, biodiesel, snack food, cosmetics, and fermentation process raw material. Exemplary products to be incorporated to the plant oil include animal feeds, human food products such as extruded snack foods, breads, as a food binding agent, aquaculture feeds, fermentable mixtures, food supplements, sport drinks, nutritional food bars, multi-vitamin supplements, diet drinks, and cereal foods.

According to some embodiments of the invention, the oil comprises a seed oil.

According to some embodiments of the invention, the oil comprises a vegetative portion oil (oil of the vegetative portion of the plant).

According to some embodiments of the invention, the plant cell forms a part of a plant.

According to another embodiment of the present invention, there is provided a food or feed comprising the plants or a portion thereof of the present invention.

As used herein the term "about" refers to ± 10 %.

The terms "comprises", "comprising", "includes", "including", "having" and their conjugates mean "including but not limited to".

The term "consisting of means "including and limited to".

The term "consisting essentially of" means that the composition, method or structure may include additional ingredients, steps and/or parts, but only if the additional ingredients, steps and/or parts do not materially alter the basic and novel characteristics of the claimed composition, method or structure.

As used herein, the singular form "a", "an" and "the" include plural references unless the context clearly dictates otherwise. For example, the term "a compound" or "at least one compound" may include a plurality of compounds, including mixtures thereof.

Throughout this application, various embodiments of this invention may be presented in a range format. It should be understood that the description in range format is merely for convenience and brevity and should not be construed as an inflexible limitation on the scope of the invention. Accordingly, the description of a range should be considered to have specifically disclosed all the possible subranges as well as individual numerical values within that range. For example, description of a range such as from 1 to 6 should be considered to have specifically disclosed subranges such as from 1 to 3, from 1 to 4, from 1 to 5, from 2 to 4, from 2 to 6, from 3 to 6 etc., as well as individual numbers within that range, for example, 1, 2, 3, 4, 5, and 6. This applies regardless of the breadth of the range.

Whenever a numerical range is indicated herein, it is meant to include any cited numeral (fractional or integral) within the indicated range. The phrases "ranging/ranges between" a first indicate number and a second indicate number and "ranging/ranges from" a first indicate number "to" a second indicate number are used herein interchangeably and are meant to include the first and second indicated numbers and all the fractional and integral numerals therebetween.

As used herein the term "method" refers to manners, means, techniques and procedures for accomplishing a given task including, but not limited to, those manners, means, techniques and procedures either known to, or readily developed from known manners, means, techniques and procedures by practitioners of the chemical, pharmacological, biological, biochemical and medical arts.

When reference is made to particular sequence listings, such reference is to be understood to also encompass sequences that substantially correspond to its complementary sequence as including minor sequence variations, resulting from, e.g., sequencing errors, cloning errors, or other alterations resulting in base substitution, base deletion or base addition, provided that the frequency of such variations is less than 1 in 50 nucleotides, alternatively, less than 1 in 100 nucleotides, alternatively, less than 1 in 200 nucleotides, alternatively, less than 1 in 500 nucleotides, alternatively, less than 1 in 1000 nucleotides, alternatively, less than 1 in 5,000 nucleotides, alternatively, less than 1 in 10,000 nucleotides.

It is appreciated that certain features of the invention, which are, for clarity, described in the context of separate embodiments, may also be provided in combination in a single embodiment. Conversely, various features of the invention, which are, for brevity, described in the context of a single embodiment, may also be provided separately or in any suitable subcombination or as suitable in any other described embodiment of the invention. Certain features described in the context of various embodiments are not to be considered essential features of those embodiments, unless the embodiment is inoperative without those elements.

Various embodiments and aspects of the present invention as delineated hereinabove and as claimed in the claims section below find experimental support in the following examples.

EXAMPLES

Reference is now made to the following examples, which together with the above descriptions illustrate some embodiments of the invention in a non limiting fashion.

Generally, the nomenclature used herein and the laboratory procedures utilized in the present invention include molecular, biochemical, microbiological and recombinant DNA techniques. Such techniques are thoroughly explained in the literature. See, for example, "Molecular Cloning: A laboratory Manual" Sambrook et al., (1989); "Current Protocols in Molecular Biology" Volumes I-III Ausubel, R. M., ed. (1994); Ausubel et al., "Current Protocols in Molecular Biology", John Wiley and Sons, Baltimore, Maryland (1989); Perbal, "A Practical Guide to Molecular Cloning", John Wiley & Sons, New York (1988); Watson et al., "Recombinant DNA", Scientific American Books, New York; Birren et al. (eds) "Genome Analysis: A Laboratory Manual Series", Vols. 1-4, Cold Spring Harbor Laboratory Press, New York (1998); methodologies as set forth in U.S. Pat. Nos. 4,666,828; 4,683,202; 4,801,531; 5,192,659 and 5,272,057; "Cell Biology: A Laboratory Handbook", Volumes I-III Cellis, J. E., ed. (1994); "Current Protocols in Immunology" Volumes I-III Coligan J. E., ed. (1994); Stites et al. (eds), "Basic and Clinical Immunology" (8th Edition), Appleton & Lange, Norwalk, CT (1994); Mishell and Shiigi (eds), "Selected Methods in Cellular Immunology", W. H. Freeman and Co., New York (1980); available immunoassays are extensively described in the patent and scientific literature, see, for example, U.S. Pat. Nos. 3,791,932; 3,839,153; 3,850,752; 3,850,578; 3,853,987; 3,867,517; 3,879,262; 3,901,654; 3,935,074; 3,984,533; 3,996,345; 4,034,074; 4,098,876; 4,879,219; 5,011,771 and 5,281,521 ; "Oligonucleotide Synthesis" Gait, M. J., ed. (1984); "Nucleic Acid Hybridization" Hames, B. D., and Higgins S. J., eds. (1985); "Transcription and Translation" Hames, B. D., and Higgins S. J., Eds. (1984); "Animal Cell Culture" Freshney, R. I., ed. (1986); "Immobilized Cells and Enzymes" IRL Press, (1986); "A Practical Guide to Molecular Cloning" Perbal, B., (1984) and "Methods in Enzymology" Vol. 1-317, Academic Press; "PCR Protocols: A Guide To Methods And Applications", Academic Press, San Diego, CA (1990); Marshak et al., "Strategies for Protein Purification and Characterization - A Laboratory Course Manual" CSHL Press (1996); all of which are incorporated by reference as if fully set forth herein. Other general references are provided throughout this document. The procedures therein are believed to be well known in the art and are provided for the convenience of the reader. All the information contained therein is incorporated herein by reference.

GENERAL EXPERIMENTAL AND BIOINFORMATICS METHODS RNA extraction - Tissues growing at various growth conditions (as described below) were sampled and RNA was extracted using TRIzol Reagent from Invitrogen [invitrogen (dot) com/content (dot)cfm?pageid=469] . Approximately 30-50 mg of tissue was taken from samples. The weighed tissues were ground using pestle and mortar in liquid nitrogen and resuspended in 500 μΐ of TRIzol Reagent. To the homogenized lysate, 100 μΐ of chloroform was added followed by precipitation using isopropanol and two washes with 75 % ethanol. The RNA was eluted in 30 μΐ of RNase-free water. RNA samples were cleaned up using Qiagen's RNeasy minikit clean-up protocol as per the manufacturer's protocol (QIAGEN Inc, CA USA). For convenience, each micro-array expression information tissue type has received an expression Set ID.

Correlation analysis - was performed for selected genes according to some embodiments of the invention, in which the characterized parameters (measured parameters according to the correlation IDs) were used as "x axis" for correlation with the tissue transcriptome which was used as the "Y axis". For each gene and measured parameter a correlation coefficient "R" was calculated (using Pearson correlation) along with a p-value for the significance of the correlation. When the correlation coefficient (R) between the levels of a gene's expression in a certain tissue and a phenotypic performance across ecotypes/variety/hybrid is high in absolute value (between 0.5-1), there is an association between the gene (specifically the expression level of this gene) the phenotypic characteristic (e.g., improved nitrogen use efficiency, abiotic stress tolerance, yield, growth rate and the like).

EXAMPLE 1

IDENTIFYING GENES WHICH INCREASE NITROGEN USE EFFICIENCY

(NUE), FERTILIZER USE EFFICIENCY (FUE), YIELD, GROWTH RATE, VIGOR, BIOMASS, OIL CONTENT, ABIOTIC STRESS TOLERANCE (ABST)

AND/OR WATER USE EFFICIENCY (WUE) IN PLANTS The present inventors have identified polynucleotides which upregulation of expression thereof in plants increases nitrogen use efficiency (NUE), fertilizer use efficiency (FUE), yield (e.g., seed yield, oil yield, grain quantity and/or quality), growth rate, vigor, biomass, oil content, fiber yield, fiber quality, fiber length, abiotic stress tolerance (ABST) and/or water use efficiency (WUE) of a plant.

All nucleotide sequence datasets used here were originated from publicly available databases or from performing sequencing using the Solexa technology (e.g. Barley and Sorghum). Sequence data from 100 different plant species was introduced into a single, comprehensive database. Other information on gene expression, protein annotation, enzymes and pathways were also incorporated. Major databases used include:

· Genomes

o Arabidopsis genome [TAIR genome version 6 (arabidopsis (dot) org/)] o Rice genome [IRGSP build 4.0 (rgp (dot) dna (dot) affrc (dot) go (dot) jp/IRGSP/)] .

o Poplar [Populus trichocarpa release 1.1 from JGI (assembly release vl .O) (genome (dot) jgi-psf (dot) org/)]

o Brachypodium [JGI 4x assembly, brachpodium (dot) org)]

o Soybean [DOE- JGI SCP, versions GlymaO or Glymal (phytozome (dot) net/)] o Grape [French-Italian Public Consortium for Grapevine Genome Characterization grapevine genome (genoscope (dot) ens (dot) fr /)]

o Castobean [TIGR/J Craig Venter Institute 4x assembly [(msc (dot) jevi (dot) org/r_communis]

o Sorghum [DOE-JGI SCP, version Sbil [phytozome (dot) net/)] . o Maize [maizesequence (dot) org/]

o Cucumber [cucumber (dot) genomics (dot) org (dot) cn/page/cucumber/index (dot) jsp]

o Tomato [solgenomics (dot) net/tomato/]

o Cassava [phytozome (dot) net/cassava (dot) php]

• Expressed EST and mRNA sequences were extracted from the following databases:

o GenBank (ncbi (dot) nlm (dot) nih (dot) gov/Genbank/).

o RefSeq (ncbi (dot) nlm (dot) nih (dot) gov/RefSeq/).

o TAIR (arabidopsis (dot) org/).

• Protein and pathway databases

o Uniprot [uniprot (dot) org/] .

o AraCyc [arabidopsis (dot) org/biocyc/index (dot) jsp].

o ENZYME [expasy (dot) org/enzyme/] .

· Microarray datasets were downloaded from:

o GEO (ncbi (dot) nlm(dot) nih (dot) gov/geo/)

o TAIR (arabidopsis(dot) org/).

o Proprietary micro-array data (See WO2008/122980 and Examples 3-13 below).

• QTL and SNPs information

o Gramene [gramene (dot) org/qtl/] .

o Panzea [panzea (dot) org/index (dot) html] .

o Soybean QTL: [soybeanbreederstoolbox(dot) com/].

Database Assembly - was performed to build a wide, rich, reliable annotated and easy to analyze database comprised of publicly available genomic mRNA, ESTs DNA sequences, data from various crops as well as gene expression, protein annotation and pathway, QTLs data, and other relevant information.

Database assembly is comprised of a toolbox of gene refining, structuring, annotation and analysis tools enabling to construct a tailored database for each gene discovery project. Gene refining and structuring tools enable to reliably detect splice variants and antisense transcripts, generating understanding of various potential phenotypic outcomes of a single gene. The capabilities of the "LEADS" platform of

Compugen LTD for analyzing human genome have been confirmed and accepted by the scientific community [see e.g., "Widespread Antisense Transcription", Yelin, et al. (2003) Nature Biotechnology 21, 379-85; "Splicing of Alu Sequences", Lev-Maor, et al. (2003) Science 300 (5623), 1288-91; "Computational analysis of alternative splicing using EST tissue information", Xie H et al. Genomics 2002], and have been proven most efficient in plant genomics as well.

EST clustering and gene assembly - For gene clustering and assembly of organisms with available genome sequence data (arabidopsis, rice, castorbean, grape, brachypodium, poplar, soybean, sorghum) the genomic LEADS version (GANG) was employed. This tool allows most accurate clustering of ESTs and mRNA sequences on genome, and predicts gene structure as well as alternative splicing events and anti- sense transcription.

For organisms with no available full genome sequence data, "expressed LEADS" clustering software was applied.

Gene annotation - Predicted genes and proteins were annotated as follows: Sequences blast search [blast (dot) ncbi (dot) nlm (dot) nih (dot) gov /Blast (dot) cgi] against all plant UniProt [uniprot (dot) org/] was performed. Open reading frames of each putative transcript were analyzed and longest ORF with higher number of homologues was selected as predicted protein of the transcript. The predicted proteins were analyzed by InterPro [ebi (dot) ac (dot) uk/interpro/] .

Blast against proteins from AraCyc and ENZYME databases was used to map the predicted transcripts to AraCyc pathways.

Predicted proteins from different species were compared using blast algorithm [ncbi (dot) nlm (dot) nih (dot) gov /Blast (dot) cgi] to validate the accuracy of the predicted protein sequence, and for efficient detection of orthologs.

Gene expression profiling - Several data sources were exploited for gene expression profiling, namely microarray data and digital expression profile (see below). According to gene expression profile, a correlation analysis was performed to identify genes which are co-regulated under different development stages and environmental conditions and associated with different phenotypes.

Publicly available microarray datasets were downloaded from TAIR and NCBI

GEO sites, renormalized, and integrated into the database. Expression profiling is one of the most important resource data for identifying genes important for yield. A digital expression profile summary was compiled for each cluster according to all keywords included in the sequence records comprising the cluster. Digital expression, also known as electronic Northern Blot, is a tool that displays virtual expression profile based on the EST sequences forming the gene cluster. The tool provides the expression profile of a cluster in terms of plant anatomy (e.g., the tissue/organ in which the gene is expressed), developmental stage (the developmental stages at which a gene can be found) and profile of treatment (provides the physiological conditions under which a gene is expressed such as drought, cold, pathogen infection, etc). Given a random distribution of ESTs in the different clusters, the digital expression provides a probability value that describes the probability of a cluster having a total of N ESTs to contain X ESTs from a certain collection of libraries. For the probability calculations, the following is taken into consideration: a) the number of ESTs in the cluster, b) the number of ESTs of the implicated and related libraries, c) the overall number of ESTs available representing the species. Thereby clusters with low probability values are highly enriched with ESTs from the group of libraries of interest indicating a specialized expression.

Recently, the accuracy of this system was demonstrated by Portnoy et al., 2009 (Analysis Of The Melon Fruit Transcriptome Based On 454 Pyrosequencing) in: Plant & Animal Genomes XVII Conference, San Diego, CA. Transcriptomeic analysis, based on relative EST abundance in data was performed by 454 pyrosequencing of cDNA representing mRNA of the melon fruit. Fourteen double strand cDNA samples obtained from two genotypes, two fruit tissues (flesh and rind) and four developmental stages were sequenced. GS FLX pyrosequencing (Roche/454 Life Sciences) of non-normalized and purified cDNA samples yielded 1,150,657 expressed sequence tags (ESTs) that assembled into 67,477 unigenes (32,357 singletons and 35,120 contigs). Analysis of the data obtained against the Cucurbit Genomics Database [icugi (dot) org/] confirmed the accuracy of the sequencing and assembly. Expression patterns of selected genes fitted well their qRT-PCR data.

Overall, 95 genes were identified to have a major impact on nitrogen use efficiency, fertilizer use efficiency, yield (e.g., seed yield, oil yield, grain quantity and/or quality), growth rate, vigor, biomass, oil content, fiber yield, fiber quality, fiber length, abiotic stress tolerance and/or water use efficiency when expression thereof is increased in plants. The identified genes, their curated polynucleotide and polypeptide sequences, as well as their updated sequences according to GenBank database are summarized in Table 1, hereinbelow. Table 1

Identified polynucleotides for increasing nitrogen use efficiency, fertilizer use efficiency, yield, growth rate, vigor, biomass, oil content, fiber yield, fiber quality, fiber length, abiotic stress tolerance and/or water use efficiency of a plant

Polyn. SEQ Polyp. SEQ

Gene Name Cluster Name Organism

ID NO: ID NO: foxtail_milletll lv3IPHY7SI0

WNU1 foxtail_millet 1 202

37360M

WNU2 sorghumll2vllSB02G035890 sorghum 2 203

WNU3 sorghumll2vllSB03G037360 sorghum 3 204

WNU5 arabidopsisl 1 Ov 11 AT 1 G76520 arabidopsis 4 205

WNU6 arabidopsis 11 Ov 1 IAT2G41310 arabidopsis 5 206

WNU7 arabidopsisll0vllAT5G64550 arabidopsis 6 207

WNU8 barleyll0v2IAJ234434 barley 7 208

WNU9 barleyll0v2IAJ467179 barley 8 209

WNU10 barleyll0v2IAV835513 barley 9 210

WNU11 barleyll0v2IBE195092 barley 10 211

WNU12 barleyll0v2IBE216643 barley 11 212

WNU13 barleyll0v2IBE412689 barley 12 213

WNU14 barleyll0v2IBE412739 barley 13 214

WNU15 barleyll0v2IBE413497 barley 14 215

WNU16 barleyll0v2IBE413575 barley 15 216

WNU17 barleyll0v2IBE420881 barley 16 217

WNU18 barleyll0v2IBE421902 barley 17 218

WNU19 barleyll0v2IBE438925 barley 18 219

WNU20 barleyll0v2IBE455654 barley 19 220

WNU21 barleyll0v2IBF260947 barley 20 221

WNU22 barleyll0v2IBF263283 barley 21 222

WNU23 barleyll0v2IBF617606 barley 22 223

WNU25 barleyll0v2IBF623217 barley 23 224

WNU26 barleyll0v2IBF623477 barley 24 225

WNU27 barleyll0v2IBF626052 barley 25 226

WNU28 barleyll0v2IBI778944 barley 26 227

WNU29 barleyll0v2IBI947135 barley 27 228

WNU30 barleyll0v2IBI947599 barley 28 229

WNU31 barleyll0v2IBI950946 barley 29 230

WNU32 barleyll0v2IBJ464604 barley 30 231

WNU33 barleyll0v2IBQ458968 barley 31 232

WNU34 barleyll2vl lAV835440 barley 32 233

WNU35 barleyll2vl lBE196061 barley 33 234

WNU36 barleyll2vl lBE412448 barley 34 235

WNU37 barleyll2vl lBE455619 barley 35 236

WNU38 barleyll2vl lBF257030 barley 36 237

WNU39 barleyll2vl lBF260630 barley 37 238 Polyn. SEQ Polyp. SEQ

Gene Name Cluster Name Organism

ID NO: ID NO:

WNU40 barleyll2vl lBF622946 barley 38 239

WNU41 barleyll2vl lBI957485 barley 39 240

WNU42 barleyll2vl lBI958608 barley 40 241

WNU43 barleyll2vllBM370758 barley 41 242

WNU44 barleyll2vllBM376567 barley 42 243 brachypodiuml 12vl IBRADI1 brachypodiu

WNU45 43 244

G03390 m

brachypodiuml 12vl IBRADI1 brachypodiu

WNU46 44 245

G59650 m

brachypodiuml 12vl IBRADI1 brachypodiu

WNU47 45 246

G67410 m

brachypodiuml 12vl IBRADI2 brachypodiu

WNU49 46 247

G19790 m

brachypodiuml 12vl IBRADI2 brachypodiu

WNU50 47 248

G36910 m

brachypodiuml 12vl IBRADI2 brachypodiu

WNU51 48 249

G45450 m

brachypodiuml 12vl IBRADI2 brachypodiu

WNU52 49 250

G54400 m

WNU53 foxtail_milletll lv3IEC612057 foxtail_millet 50 251

WNU54 foxtail_milletll lv3IEC613339 foxtail_millet 51 252

WNU55 foxtail_milletl 11 v3 IEC613521 foxtail_millet 52 253

WNU56 foxtail_milletl 11 v3 IEC613638 foxtail_millet 53 254

WNU57 foxtail_milletll lv3IEC613764 foxtail_millet 54 255 foxtail_milletll lv3IPHY7SI0

WNU58 foxtail_millet 55 256

02694M

foxtail_milletll lv3IPHY7SI0

WNU60 foxtail_millet 56 257

04807M

foxtail_milletll lv3IPHY7SI0

WNU61 foxtail_millet 57 258

06776M

foxtail_milletll lv3IPHY7SI0

WNU63 foxtail_millet 58 259

10781M

foxtail_milletll lv3IPHY7SI0

WNU65 foxtail_millet 59 260

11960M

foxtail_milletll lv3IPHY7SI0

WNU66 foxtail_millet 60 261

16756M

foxtail_milletll lv3IPHY7SI0

WNU67 foxtail_millet 61 262

16983M

foxtail_milletll lv3IPHY7SI0

WNU68 foxtail_millet 62 263

18426M

foxtail_milletll lv3IPHY7SI0

WNU69 foxtail_millet 63 264

20976M

foxtail_milletll lv3IPHY7SI0

WNU70 foxtail_millet 64 265

21004M

foxtail_milletll lv3IPHY7SI0

WNU71 foxtail_millet 65 266

29993M

foxtail_milletll lv3IPHY7SI0

WNU72 foxtail_millet 66 267

35252M Polyn. SEQ Polyp. SEQ

Gene Name Cluster Name Organism

ID NO: ID NO: foxtail_milletll lv3IPHY7SI0

WNU73 foxtail_millet 67 268

35778M

foxtail_milletll lv3IPHY7SI0

WNU74 foxtail_millet 68 269

36478M

WNU75 maizell0vllAI629766 maize 69 270

WNU76 maizell0vllAI947957 maize 70 271

WNU77 maizell0vllAI948358 maize 71 272

WNU78 maizell0vllAI966985 maize 72 273

WNU80 maizell0vllAW053253 maize 73 274

WNU81 maizell0vllAW225099 maize 74 275

WNU82 maizell0vllBI643478 maize 75 276

WNU83 maizell0vl lBM379051 maize 76 277

WNU85 ricell lvl lBI804924 rice 77 278

WNU87 ricell lvllOSU77294 rice 78 279

WNU90 sorghuml 12v 1 IEVOER2582 sorghum 79 280

WNU91 sorghuml 12v 11 SB 01 G005000 sorghum 80 281

WNU92 sorghuml 12v 11 SB 01 G028940 sorghum 81 282

WNU93 sorghuml 12vl ISB03G008180 sorghum 82 283

WNU94 sorghuml 12v 11 SB 03G034010 sorghum 83 284

WNU96 sorghuml 12vl ISB04G004680 sorghum 84 285

WNU97 sorghuml 12vl ISB04G009980 sorghum 85 286

WNU98 sorghumll2vllSB04G026160 sorghum 86 287

WNU99 sorghuml 12vl ISB09G000320 sorghum 87 288 sorghuml 12v 11 SB 09G018070

WNU100 sorghum 88 289

PI

WNU101 sorghuml 12v 11 SB 10G007680 sorghum 89 290

WNU102 wheatll0v2IBE415420 wheat 90 291

WNU103 wheatll2vl lBM140581 wheat 91 292

WNU104 maizell0vllAW308714 maize 92 293

WNU105 sorghuml 12vl ISB02G031390 sorghum 93 294

WNU103_H

ricell lvl lAA749605 rice 94 295 11

WNU22_H1 wheatll2v3IBE585479 wheat 95 296 foxtail_milletll lv3IPHY7SI0

WNU1 foxtail_millet 96 297

37360M

WNU10 barleyll0v2IAV835513 barley 97 298

WNU12 barleyll0v2IBE216643 barley 98 299

WNU22 barleyll0v2IBF263283 barley 99 300

WNU36 barleyll2vl lBE412448 barley 100 301

WNU41 barleyll2vl lBI957485 barley 101 302

WNU42 barleyll2vl lBI958608 barley 102 241 brachypodiuml 12vl IBRADI1 brachypodiu

WNU45 103 244

G03390 m

brachypodiuml 12vl IBRADI2 brachypodiu

WNU51 104 249

G45450 m

foxtail_milletll lv3IPHY7SI0

WNU60 foxtail_millet 105 257

04807M

foxtail_milletll lv3IPHY7SI0

WNU61 foxtail_millet 106 303

06776M Polyn. SEQ Polyp. SEQ

Gene Name Cluster Name Organism

ID NO: ID NO: foxtail_milletll lv3IPHY7SI0

WNU65 foxtail_millet 107 260

11960M

foxtail_milletll lv3IPHY7SI0

WNU67 foxtail_millet 108 262

16983M

WNU90 sorghuml 12v 1 IEVOER2582 sorghum 109 304

WNU103_H

ricell lvl lAA749605 rice 110 295 11

WNU22_H1 wheatll2v3IBE585479 wheat 111 296 foxtail_milletll lv3IPHY7SI0

WNU1 foxtail_millet 112 202

37360M

WNU2 sorghuml 12vllSB02G035890 sorghum 113 203

WNU3 sorghuml 12vllSB03G037360 sorghum 114 204

WNU5 arabidopsisl 1 Ov 11 AT 1 G76520 arabidopsis 115 205

WNU6 arabidopsis 11 Ov 1 IAT2G41310 arabidopsis 116 206

WNU7 arabidopsisll0vllAT5G64550 arabidopsis 117 207

WNU8 barleyll0v2IAJ234434 barley 118 208

WNU9 barleyll0v2IAJ467179 barley 119 209

WNU11 barleyll0v2IBE195092 barley 120 211

WNU12 barleyll0v2IBE216643 barley 121 305

WNU13 barleyll0v2IBE412689 barley 122 213

WNU14 barleyll0v2IBE412739 barley 123 306

WNU15 barleyll0v2IBE413497 barley 124 215

WNU16 barleyll0v2IBE413575 barley 125 216

WNU17 barleyll0v2IBE420881 barley 126 217

WNU18 barleyll0v2IBE421902 barley 127 218

WNU19 barleyll0v2IBE438925 barley 128 219

WNU20 barleyll0v2IBE455654 barley 129 220

WNU21 barleyll0v2IBF260947 barley 130 307

WNU23 barleyll0v2IBF617606 barley 131 223

WNU25 barleyll0v2IBF623217 barley 132 224

WNU26 barleyll0v2IBF623477 barley 133 225

WNU27 barleyll0v2IBF626052 barley 134 308

WNU28 barleyll0v2IBI778944 barley 135 309

WNU29 barleyll0v2IBI947135 barley 136 228

WNU30 barleyll0v2IBI947599 barley 137 229

WNU31 barleyll0v2IBI950946 barley 138 230

WNU32 barleyll0v2IBJ464604 barley 139 231

WNU33 barleyll0v2IBQ458968 barley 140 232

WNU34 barleyll2vl lAV835440 barley 141 310

WNU35 barleyll2vl lBE196061 barley 142 234

WNU37 barleyll2vl lBE455619 barley 143 311

WNU38 barleyll2vl lBF257030 barley 144 237

WNU39 barleyll2vl lBF260630 barley 145 238

WNU40 barleyll2vl lBF622946 barley 146 239

WNU41 barleyll2vl lBI957485 barley 147 312

WNU42 barleyll2vl lBI958608 barley 148 241

WNU43 barleyll2vllBM370758 barley 149 242

WNU44 barleyll2vllBM376567 barley 150 243 Polyn. SEQ Polyp. SEQ

Gene Name Cluster Name Organism

ID NO: ID NO: brachypodiuml 12vl IBRADI1 brachypodiu

WNU45 151 244

G03390 m

brachypodiuml 12vl IBRADI1 brachypodiu

WNU46 152 245

G59650 m

brachypodiuml 12vl IBRADI1 brachypodiu

WNU47 153 246

G67410 m

brachypodiuml 12vl IBRADI2 brachypodiu

WNU49 154 247

G19790 m

brachypodiuml 12vl IBRADI2 brachypodiu

WNU50 155 313

G36910 m

brachypodiuml 12vl IBRADI2 brachypodiu

WNU51 156 314

G45450 m

brachypodiuml 12vl IBRADI2 brachypodiu

WNU52 157 250

G54400 m

WNU54 foxtail_milletll lv3IEC613339 foxtail_millet 158 252

WNU55 foxtail_milletl 11 v3 IEC613521 foxtail_millet 159 253

WNU56 foxtail_milletl 11 v3 IEC613638 foxtail_millet 160 254

WNU57 foxtail_milletll lv3IEC613764 foxtail_millet 161 255 foxtail_milletll lv3IPHY7SI0

WNU58 foxtail_millet 162 256

02694M

foxtail_milletll lv3IPHY7SI0

WNU60 foxtail_millet 163 257

04807M

foxtail_milletll lv3IPHY7SI0

WNU61 foxtail_millet 164 315

06776M

foxtail_milletll lv3IPHY7SI0

WNU63 foxtail_millet 165 316

10781M

foxtail_milletll lv3IPHY7SI0

WNU65 foxtail_millet 166 260

11960M

foxtail_milletll lv3IPHY7SI0

WNU66 foxtail_millet 167 261

16756M

foxtail_milletll lv3IPHY7SI0

WNU67 foxtail_millet 168 262

16983M

foxtail_milletll lv3IPHY7SI0

WNU68 foxtail_millet 169 263

18426M

foxtail_milletll lv3IPHY7SI0

WNU69 foxtail_millet 170 264

20976M

foxtail_milletll lv3IPHY7SI0

WNU70 foxtail_millet 171 265

21004M

foxtail_milletll lv3IPHY7SI0

WNU71 foxtail_millet 172 266

29993M

foxtail_milletll lv3IPHY7SI0

WNU72 foxtail_millet 173 267

35252M

foxtail_milletll lv3IPHY7SI0

WNU73 foxtail_millet 174 268

35778M

foxtail_milletll lv3IPHY7SI0

WNU74 foxtail_millet 175 317

36478M

WNU75 maizell0vllAI629766 maize 176 270

WNU76 maizell0vllAI947957 maize 177 318

WNU77 maizell0vllAI948358 maize 178 272 Polyn. SEQ Polyp. SEQ

Gene Name Cluster Name Organism

ID NO: ID NO:

WNU78 maizell0vllAI966985 maize 179 319

WNU80 maizell0vllAW053253 maize 180 320

WNU81 maizell0vllAW225099 maize 181 321

WNU82 maizell0vllBI643478 maize 182 322

WNU83 maizell0vl lBM379051 maize 183 323

WNU85 ricell lvl lBI804924 rice 184 324

WNU87 ricell lvllOSU77294 rice 185 279

WNU90 sorghuml 12v 1 IEVOER2582 sorghum 186 280

WNU91 sorghuml 12v 11 SB 01 G005000 sorghum 187 281

WNU92 sorghuml 12v 11 SB 01 G028940 sorghum 188 282

WNU93 sorghuml 12vl ISB03G008180 sorghum 189 283

WNU94 sorghuml 12v 11 SB 03G034010 sorghum 190 284

WNU96 sorghuml 12vl ISB04G004680 sorghum 191 285

WNU97 sorghuml 12vl ISB04G009980 sorghum 192 286

WNU98 sorghumll2vllSB04G026160 sorghum 193 325

WNU99 sorghuml 12vl ISB09G000320 sorghum 194 326 sorghuml 12v 11 SB 09G018070

WNU100 sorghum 195 289

PI

WNU101 sorghuml 12v 11 SB 10G007680 sorghum 196 290

WNU102 wheatll0v2IBE415420 wheat 197 291

WNU104 maizell0vllAW308714 maize 198 293

WNU105 sorghuml 12vl ISB02G031390 sorghum 199 294

WNU103_H

ricell lvl lAA749605 rice 200 295 11

WNU22_H1 wheatll2v3IBE585479 wheat 201 327

Table 1. "Polyp." = polypeptide; "Polyn." - Polynucleotide.

EXAMPLE 2

IDENTIFICATION OF HOMOLOGOUS SEQUENCES THAT INCREASE NITROGEN USE EFFICIENCY, FERTILIZER USE EFFICIENCY, YIELD,

GROWTH RATE, VIGOR, BIOMASS, OIL CONTENT, ABIOTIC STRESS TOLERANCE AND/OR WATER USE EFFICIENCY IN PLANTS

The concepts of orthology and paralogy have recently been applied to functional characterizations and classifications on the scale of whole-genome comparisons. Orthologs and paralogs constitute two major types of homologs: The first evolved from a common ancestor by specialization, and the latter is related by duplication events. It is assumed that paralogs arising from ancient duplication events are likely to have diverged in function while true orthologs are more likely to retain identical function over evolutionary time. To further investigate and identify putative orthologs of the genes affecting nitrogen use efficiency, fertilizer use efficiency, yield (e.g., seed yield, oil yield, grain quantity and/or quality), growth rate, vigor, biomass, oil content, abiotic stress tolerance and/or water use efficiency, all sequences were aligned using the BLAST (/Basic Local Alignment Search Tool/). Sequences sufficiently similar were tentatively grouped. These putative orthologs were further organized under a Phylogram - a branching diagram (tree) assumed to be a representation of the evolutionary relationships among the biological taxa. Putative ortholog groups were analyzed as to their agreement with the phylogram and in cases of disagreements these ortholog groups were broken accordingly. Expression data was analyzed and the EST libraries were classified using a fixed vocabulary of custom terms such as developmental stages (e.g., genes showing similar expression profile through development with up regulation at specific stage, such as at the seed filling stage) and/or plant organ (e.g., genes showing similar expression profile across their organs with up regulation at specific organs such as seed). The annotations from all the ESTs clustered to a gene were analyzed statistically by comparing their frequency in the cluster versus their abundance in the database, allowing the construction of a numeric and graphic expression profile of that gene, which is termed "digital expression". The rationale of using these two complementary methods with methods of phenotypic association studies of QTLs, SNPs and phenotype expression correlation is based on the assumption that true orthologs are likely to retain identical function over evolutionary time. These methods provide different sets of indications on function similarities between two homologous genes, similarities in the sequence level - identical amino acids in the protein domains and similarity in expression profiles.

The search and identification of homologous genes involves the screening of sequence information available, for example, in public databases, which include but are not limited to the DNA Database of Japan (DDBJ), Genbank, and the European Molecular Biology Laboratory Nucleic Acid Sequence Database (EMBL) or versions thereof or the MIPS database. A number of different search algorithms have been developed, including but not limited to the suite of programs referred to as BLAST programs. There are five implementations of BLAST, three designed for nucleotide sequence queries (BLASTN, BLASTX, and TBLASTX) and two designed for protein sequence queries (BLASTP and TBLASTN) (Coulson, Trends in Biotechnology: 76-80, 1994; Birren et al., Genome Analysis, I: 543, 1997). Such methods involve alignment and comparison of sequences. The BLAST algorithm calculates percent sequence identity and performs a statistical analysis of the similarity between the two sequences. The software for performing BLAST analysis is publicly available through the National Centre for Biotechnology Information. Other such software or algorithms are GAP, BESTFIT, FASTA and TFASTA. GAP uses the algorithm of Needleman and Wunsch (J. Mol. Biol. 48: 443-453, 1970) to find the alignment of two complete sequences that maximizes the number of matches and minimizes the number of gaps.

The homologous genes may belong to the same gene family. The analysis of a gene family may be carried out using sequence similarity analysis. To perform this analysis one may use standard programs for multiple alignments e.g. Clustal W. A neighbor-joining tree of the proteins homologous to the genes of some embodiments of the invention may be used to provide an overview of structural and ancestral relationships. Sequence identity may be calculated using an alignment program as described above. It is expected that other plants will carry a similar functional gene (orthologue) or a family of similar genes and those genes will provide the same preferred phenotype as the genes presented here. Advantageously, these family members may be useful in the methods of some embodiments of the invention. Example of other plants include, but not limited to, barley (Hordeum vulgare), Arabidopsis (Arabidopsis thaliana), maize (Zea mays), cotton (Gossypium), Oilseed rape (Brassica napus), Rice (Oryza sativa), Sugar cane (Saccharum officinarum), Sorghum (Sorghum bicolor), Soybean (Glycine max), Sunflower (Helianthus annuus), Tomato (Lycopersicon esculentum) and Wheat (Triticum aestivum)

The above-mentioned analyses for sequence homology is preferably carried out on a full-length sequence, but may also be based on a comparison of certain regions such as conserved domains. The identification of such domains, would also be well within the realm of the person skilled in the art and would involve, for example, a computer readable format of the nucleic acids of some embodiments of the invention, the use of alignment software programs and the use of publicly available information on protein domains, conserved motifs and boxes. This information is available in the PRODOM (biochem (dot) ucl (dot) ac (dot) uk/bsm/dbbrowser/protocol/prodomqry (dot) html), PIR (pir (dot) Georgetown (dot) edu/) or Pfam (sanger (dot) ac (dot) uk/Software/Pfam/) database. Sequence analysis programs designed for motif searching may be used for identification of fragments, regions and conserved domains as mentioned above. Preferred computer programs include, but are not limited to, MEME, SIGNALSCAN, and GENESCAN.

A person skilled in the art may use the homologous sequences provided herein to find similar sequences in other species and other organisms. Homologues of a protein encompass, peptides, oligopeptides, polypeptides, proteins and enzymes having amino acid substitutions, deletions and/or insertions relative to the unmodified protein in question and having similar biological and functional activity as the unmodified protein from which they are derived. To produce such homologues, amino acids of the protein may be replaced by other amino acids having similar properties (conservative changes, such as similar hydrophobicity, hydrophilicity, antigenicity, propensity to form or break a-helical structures or 3-sheet structures). Conservative substitution Tables are well known in the art [see for example Creighton (1984) Proteins. W.H. Freeman and Company]. Homologues of a nucleic acid encompass nucleic acids having nucleotide substitutions, deletions and/or insertions relative to the unmodified nucleic acid in question and having similar biological and functional activity as the unmodified nucleic acid from which they are derived.

Polynucleotides and polypeptides with significant homology to the identified genes described in Table 1 (Example 1 above) were identified from the databases using BLAST software with the Blastp and tBlastn algorithms as filters for the first stage, and the needle (EMBOSS package) or Frame+ algorithm alignment for the second stage. Local identity (Blast alignments) was defined with a very permissive cutoff - 60% Identity on a span of 60% of the sequences lengths because it is used only as a filter for the global alignment stage. The default filtering of the Blast package was not utilized (by setting the parameter "-F F").

In the second stage, homologs were defined based on a global identity of at least 80% to the core gene polypeptide sequence.

Two distinct forms for finding the optimal global alignment for protein or nucleotide sequences were used in this application:

1. Between two proteins (following the blastp filter): EMBOSS-6.0.1 Needleman-Wunsch algorithm with the following modified parameters: gapopen=8 gapextend=2. The rest of the parameters were unchanged from the default options described hereinabove.

2. Between a protein sequence and a nucleotide sequence (following the tblastn filter):

GenCore 6.0 OneModel application utilizing the Frame+ algorithm with the following parameters: model=frame+_p2n.model mode=qglobal -q=protein. sequence -db= nucleotide. sequence. The rest of the parameters were unchanged from the default options described hereinabove.

The query polypeptide sequences were SEQ ID NOs: 202-327 and the query polynucleotides were SEQ ID NOs: 1-201, and the identified orthologous and homologous sequences having at least 80% global sequence identity are provided in Table 2, below. These homologous (e.g., orthologues) genes are expected to increase plant's nitrogen use efficiency (NUE), yield, seed yield, oil yield, oil content, growth rate, fiber yield, fiber quality, photosynthetic capacity, biomass, vigor, and/or abiotic stress tolerance (ABST).

Table 2

Homologues (e.g., orthologues) of the identified genes/polypeptides for increasing nitrogen use efficiency, fertilizer use efficiency, yield, seed yield, growth rate, vigor, biomass, oil content, fiber yield, fiber quality, fiber length, abiotic stress tolerance and/or water use efficiency of a plant

Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU2_H1 maizel 1 Ov 1 ICD434995_T 1 328 4063 203 87.9 glotblastn brachypodiumll2vllBRADIlG2

WNU2_H2 329 4064 203 84.3 glotblastn

5187_T1

WNU2_H3 ricell lvllAU066228 330 4065 203 84.3 globlastp

WNU2_H4 wheatll2v3IBE445814 331 4066 203 82.2 glotblastn brachypodiumll2vllBRADIlG2

WNU2_H5 332 4067 203 81.9 globlastp

5200_P1

WNU2_H6 ryel 12v 1 IDRR001012.123320 333 4068 203 80 globlastp

WNU3_H1 sugarcanel lOvl ICA070079 334 4069 204 98.3 globlastp

WNU3_H2 maizel 10vllAW066630_Pl 335 4070 204 96.7 globlastp

WNU3_H3 maizel 10vllAW360637_Pl 336 4071 204 96.7 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

foxtail_milletll lv3IPHY7SI0019

WNU3_H4 337 4072 204 96.4 globlastp

83M_P1

foxtail_milletll lv3ISICRP01755

WNU3_H5 338 4072 204 96.4 globlastp

8_P1

WNU3_H34 switchgrassll2vl lDN146112_Pl 339 4073 204 95.6 globlastp

WNU3_H6 switchgrasslgbl67IDN146112 340 4073 204 95.6 globlastp

WNU3_H7 ricell lvllAB 117888 341 4074 204 92.8 glotblastn

WNU3_H8 ricell lvllCF954746 342 4075 204 92.3 globlastp brachypodiuml 12v 1 IBRADI2G5

WNU3_H9 343 4076 204 91.7 globlastp

2660_P1

WNU3_H35 switchgrassll2vl lDN141545_Pl 344 4077 204 91.1 globlastp

WNU3_H10 s witchgras slgbl67IDN141545 345 4077 204 91.1 globlastp foxtail_milletll lv3IPHY7SI0224

WNU3_H11 346 4078 204 90.9 globlastp

89M_P1

WNU3_H12 maizell0vllAI941668_Pl 347 4079 204 90.9 globlastp

WNU3_H13 barleyl 12vllBI950534_Pl 348 4080 204 90.6 globlastp barleyl 12v 1 IHV 12v 1 CRPl 58093

WNU3_H14 349 4080 204 90.6 globlastp

_P1

WNU3_H15 sorghuml 12vl ISB09G024250 350 4081 204 90.6 globlastp

WNU3_H16 sugarcanel 1 Ovl ICA071700 351 4082 204 90.6 globlastp

WNU3_H17 ryel 12v 1 IDRR001012.100986 352 4083 204 90.3 globlastp

WNU3_H18 ryel 12v 1 IDRR001012.135608 353 4083 204 90.3 globlastp

WNU3_H19 wheatll2v3IBE400917 354 4084 204 90.1 globlastp

WNU3_H20 cenchruslgbl66IEB652730_Pl 355 4085 204 90 globlastp

WNU3_H21 maizell0vllAI372366_Pl 356 4086 204 90 globlastp

WNU3_H22 oatll lvl lGR345828_Pl 357 4087 204 89.8 globlastp

WNU3_H23 ricell lvllBM419281 358 4088 204 89.2 globlastp

WNU3_H24 barleyl 12vllBG299553_Pl 359 4089 204 88.6 globlastp brachypodiuml 12v 1 IBRADI2G2

WNU3_H25 360 4090 204 88.6 globlastp

1250_P1

WNU3_H26 wheatll2v3IBE401506 361 4091 204 88.6 globlastp

WNU3_H27 oatll lvl lCN819547_Pl 362 4092 204 88.1 globlastp

WNU3_H28 ryel 12v 1 IDRROO 1012.109054 363 4093 204 87.5 globlastp

WNU3_H29 ryell2vllDRR001012.134389 364 4093 204 87.5 globlastp pseudoroegnerialgb 167 IFF34060 86.4

WNU3_H30 365 4094 204 glotblastn

0 6 bananal 12v 1 IMAGEN20120027

WNU3_H31 366 4095 204 84.3 globlastp

95_P1

WNU3_H32 barleyl 12v 11 AV910390_P1 367 4096 204 84.1 globlastp

WNU3_H33 bananal 12vl lFL651443_Pl 368 4097 204 83 globlastp arabidopsis_lyratal09vl ITMPLA

WNU5_H1 369 205 205 100 globlastp

T1G76520T1_P1

arabidopsis_lyratal09vl IJGIAL0

WNU5_H2 370 4098 205 98 globlastp

07927_P1

WNU5_H3 b_rapall lvllBRA015736_Pl 371 4099 205 89.2 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

thellungiella_halophilumll Ivl ID

WNU5_H4 372 4100 205 88.7 globlastp

N779143

WNU5_H5 b_rapal 11 v 1 IEV 104238_P 1 373 4101 205 87.4 globlastp

WNU5_H6 canolal 11 v 1 IEV 104238_P 1 374 4102 205 86.9 globlastp

WNU5_H7 radishlgbl64IEX756195 375 4103 205 86.2 globlastp

WNU5_H8 b_rapal 11 v 1 IEV223158_P 1 376 4104 205 84.1 globlastp

81.9

WNU5_H9 radishlgbl64IEX895073 377 4105 205 glotblastn

3 arabidopsis_lyratal09vl IJGIALO

WNU6_H1 378 4106 206 94.7 globlastp

15429_P1

thellungiella_parvuluml 11 v 1 IEP

WNU6_H2 379 4107 206 85.5 globlastp

CRPO 16603

WNU6_H3 b_rapall lvllEE568935_Pl 380 4108 206 85 globlastp canolal 11 v 1 ISRR329661.151100

WNU6_H4 381 4109 206 83.7 globlastp

_P1

thellungiella_halophilumll Ivl IE

WNU6_H5 382 4110 206 83.6 globlastp

HJGI 11001006

83.2

WNU6_H6 canolall lvllEE568935_Tl 383 4111 206 glotblastn

6

WNU6_H7 b_rapal 11 v 1 IES912747_P 1 384 4112 206 83.2 globlastp

WNU6_H8 canolal 11 v 1 IES912747_P 1 385 4113 206 83.2 globlastp

WNU6_H9 canolall lvllEV016118_Pl 386 4114 206 82.3 globlastp

WNU6_H10 radishlgbl64IFD951571 387 4115 206 82.3 globlastp thellungiella_parvulumll IvllBY

WNU7_H1 388 4116 207 92.6 globlastp

830354

arabidopsis_lyratal09vl IJGIALO

WNU7_H2 389 4117 207 91.5 globlastp

31129_P1

thellungiella_halophilumll Ivl IB

WNU7_H3 390 4118 207 90 globlastp

Y830354

WNU7_H4 b_rapall lvllC0749935_Pl 391 4119 207 85.7 globlastp

WNU8_H1 ryell2vllBE495472 392 208 208 100 globlastp

WNU8_H2 ryell2vllBE587609 393 208 208 100 globlastp

WNU8_H3 ryel 12v 1 IDRR001012.100384 394 208 208 100 globlastp

WNU8_H4 ryell2vllDRR001012.101919 395 208 208 100 globlastp

WNU8_H5 ryel 12v 1 IDRR001012.103485 396 208 208 100 globlastp

WNU8_H6 ryel 12v 1 IDRROO 1012.104321 397 208 208 100 globlastp

WNU8_H7 ryel 12v 1 IDRROO 1012.112767 398 208 208 100 globlastp

WNU8_H8 ryel 12vllDRR001012.11902 399 208 208 100 globlastp

WNU8_H9 ryel 12vllDRR001012.122152 400 208 208 100 globlastp

WNU8_H10 ryell2vllDRR001012.137813 401 4120 208 100 glotblastn

WNU8_H11 ryel 12v 1 IDRROO 1012.158922 402 208 208 100 globlastp

WNU8_H12 ryell2vllDRR001012.201080 403 208 208 100 globlastp

WNU8_H13 ryell2vllDRR001012.213076 404 208 208 100 globlastp

WNU8_H14 ryell2vllDRR001012.848887 405 208 208 100 globlastp

WNU8_H15 wheatll2v3IBE398175 406 208 208 100 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H16 wheatll2v3IBE398223 407 208 208 100 globlastp

WNU8_H17 wheatll2v3IBE398691 408 208 208 100 globlastp

WNU8_H18 wheatll2v3IBE399072 409 208 208 100 globlastp

WNU8_H19 wheatll2v3IBE399356 410 208 208 100 globlastp

WNU8_H20 wheatll2v3IBE399404 411 208 208 100 globlastp

WNU8_H21 wheatll2v3IBE406548 412 208 208 100 globlastp

WNU8_H22 wheatll2v3IBE413915 413 208 208 100 globlastp

WNU8_H23 wheatll2v3IBE415959 414 208 208 100 globlastp

WNU8_H24 wheatll2v3IWHTTEFlX 415 208 208 100 globlastp

WNU8_H25 wheatll2v3IBE398307 416 4121 208 99.8 globlastp

99.7

WNU8_H26 ryel 12v 1 IDRROO 1012.270934 417 4122 208 glotblastn

8

99.7

WNU8_H27 wheatll2v3IBE406853 418 4123 208 glotblastn

8

WNU8_H28 wheatll2v3IBE403574 419 4124 208 99.6 globlastp

99.3

WNU8_H29 ryel 12vllDRR001012.172851 420 4125 208 glotblastn

3

99.3

WNU8_H30 ryell2vllEU153587 421 4126 208 glotblastn

3

WNU8_H31 wheatll2v3IBE398292 422 4127 208 99.3 globlastp

WNU8_H32 wheatll2v3IBE398872 423 4127 208 99.3 globlastp

WNU8_H33 wheatll2v3IBE400214 424 4127 208 99.3 globlastp

WNU8_H34 wheatll2v3IBE407014 425 4127 208 99.3 globlastp

WNU8_H35 wheatll2v3IBE590945 426 4128 208 99.3 globlastp

WNU8_H36 ryell2vllDRR001012.118155 427 4129 208 99.1 globlastp

WNU8_H37 wheatll2v3IBE398530 428 4130 208 99.1 globlastp

WNU8_H38 oatll lvl lCN815245_Pl 429 4131 208 98.9 globlastp

WNU8_H39 ryell2vllDRR001012.106186 430 4132 208 98.9 globlastp

WNU8_H40 oatll lvl lG0583634_Pl 431 4133 208 98.7 globlastp

WNU8_H41 oatll lvl lG0585413_Pl 432 4133 208 98.7 globlastp

WNU8_H42 oatll lvl lG0586258_Pl 433 4133 208 98.7 globlastp brachypodiumi 12v 1 IBRADIOO 12

WNU8_H43 434 4134 208 98.2 globlastp

S00200T2_P1

brachypodiumll2vllBRADIlG0

WNU8_H44 435 4134 208 98.2 globlastp

6860T2_P1

brachypodiumll2vllBRADIlG0

WNU8_H45 436 4134 208 98.2 globlastp

6860_P1

brachypodiumll2vllBRADIlG0

WNU8_H46 437 4134 208 98.2 globlastp

6870_P1

brachypodiumll2vllBRADI4Gl

WNU8_H47 438 4134 208 98.2 globlastp

2750T2_P1

WNU8_H48 ryel 12vllDRR001012.341337 439 4135 208 97.8 globlastp brachypodiumi 12v 1 IB DPRD 12 V 97.3

WNU8_H49 440 4136 208 glotblastn

1008469_T1 2 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

brachypodiumi 12v 1 IB DCRP 12 V

WNU8_H50 441 4137 208 97.3 globlastp

1052162_P1

WNU8_H51 pigeonpeall lvllGR464509_Pl 442 4138 208 97.1 globlastp

WNU8_H52 cowpeall2vl lFC456669_Pl 443 4139 208 96.9 globlastp

WNU8_H53 peanutll0vl lCD038354_Pl 444 4140 208 96.9 globlastp

WNU8_H54 pigeonpeall lvllGW359244_Pl 445 4141 208 96.9 globlastp soybeanll lvl lGLYMA16G0735

WNU8_H55 446 4142 208 96.9 globlastp

0

soybeanll2vl lGLYMA16G0735

WNU8_H55 447 4142 208 96.9 globlastp

0_P1

trigonellal 11 v 1 ISRR066194X 103

WNU8_H56 448 4143 208 96.9 globlastp

703

WNU8_H57 wheatll2v3IBE352631 449 4144 208 96.9 globlastp

WNU8_H58 wheatll2v3IBE398718 450 4144 208 96.9 globlastp

WNU8_H59 wheatll2v3IBE418288 451 4144 208 96.9 globlastp

WNU8_H60 wheatll2v3IBE419649 452 4144 208 96.9 globlastp

WNU8_H61 wheatll2v3IBE424307 453 4144 208 96.9 globlastp

WNU8_H62 wheatll2v3IBF200050 454 4144 208 96.9 globlastp brachypodiumi 12v 1 ID V470157_ 96.8

WNU8_H63 455 4145 208 glotblastn

Tl 8 brachypodiumi 12v 1 ID V475966_

WNU8_H64 456 4146 208 96.7 globlastp

PI

WNU8_H100

beanll2v2ICA898053_Pl 457 4147 208 96.6 globlastp 0

WNU8_H65 applell lvllCN489484_Pl 458 4148 208 96.6 globlastp

WNU8_H66 beanll2vllCA898053 459 4147 208 96.6 globlastp

WNU8_H67 beanll2vllFG232244 460 4147 208 96.6 globlastp

WNU8_H68 cowpeall2vl lFF395866_Pl 461 4149 208 96.6 globlastp

WNU8_H69 humulusll lvl lES654484_Pl 462 4150 208 96.6 globlastp

WNU8_H70 humulusll lvl lES655751_Pl 463 4150 208 96.6 globlastp

WNU8_H71 humulusll lvl lEX521150_Pl 464 4150 208 96.6 globlastp

WNU8_H72 maizell0vllAI586401_Pl 465 4151 208 96.6 globlastp

WNU8_H73 maizell0vllT14798_Pl 466 4151 208 96.6 globlastp

WNU8_H74 milletllOvl ICD724499_P1 467 4152 208 96.6 globlastp

WNU8_H75 milletll0vl lCD725344_Pl 468 4152 208 96.6 globlastp

WNU8_H76 milletllOvl ICD725865_P1 469 4152 208 96.6 globlastp

WNU8_H77 milletllOvl ICD726323_P1 470 4152 208 96.6 globlastp

WNU8_H78 milletllOvl ICD726441_P1 471 4152 208 96.6 globlastp milletllOvl IEVO454PM000499_

WNU8_H79 472 4152 208 96.6 globlastp

PI

milletl lOvl IEVO454PM000661_

WNU8_H80 473 4152 208 96.6 globlastp

PI

milletl 1 Ovl IEVO454PM001271_

WNU8_H81 474 4152 208 96.6 globlastp

PI Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

milletl 1 Ovl IEVO454PM001383_

WNU8_H82 475 4152 208 96.6 globlastp

PI

milletll0vl lEVO454PM002183_

WNU8_H83 476 4152 208 96.6 globlastp

PI

milletllOvl IEVO454PM003597_

WNU8_H84 477 4152 208 96.6 globlastp

PI

milletll0vl lEVO454PM005551_

WNU8_H85 478 4152 208 96.6 globlastp

PI

milletl 1 Ovl IEVO454PM015011_

WNU8_H86 479 4152 208 96.6 globlastp

PI

milletllOvl IEVO454PM032398_

WNU8_H87 480 4152 208 96.6 globlastp

PI

WNU8_H88 pigeonpeall lvllEE604711_P1 481 4153 208 96.6 globlastp

WNU8_H89 ricell lvllAA749924 482 4154 208 96.6 globlastp

WNU8_H90 ricell lvllAA751062 483 4154 208 96.6 globlastp

WNU8_H91 ricell lvllAA751073 484 4154 208 96.6 globlastp

WNU8_H92 ricell lvllAA751266 485 4154 208 96.6 globlastp

WNU8_H93 ricell lvllCB635357 486 4154 208 96.6 globlastp

WNU8_H94 ryell2vllBE494068 487 4155 208 96.6 globlastp

WNU8_H95 ryell2vllBE495285 488 4156 208 96.6 globlastp

WNU8_H96 ryell2vllBE495525 489 4155 208 96.6 globlastp

WNU8_H97 ryell2vllBE704534 490 4155 208 96.6 globlastp

WNU8_H98 ryell2vllDRR001012.101216 491 4157 208 96.6 globlastp

WNU8_H99 ryell2vllDRR001012.102514 492 4158 208 96.6 globlastp

WNU8_H100 ryell2vllDRR001012.103115 493 4158 208 96.6 globlastp

WNU8_H101 ryel 12v 1 IDRROO 1012.143672 494 4158 208 96.6 globlastp

WNU8_H102 ryell2vllDRR001012.186360 495 4158 208 96.6 globlastp

WNU8_H103 ryel 12vllDRR001012.311498 496 4155 208 96.6 globlastp soybeani 11 vl IGLYMA 19G0724

WNU8_H104 497 4159 208 96.6 globlastp

0

WNU8_H105 wheatll2v3IBE406571 498 4160 208 96.6 globlastp

WNU8_H104, soybeani 12vl IGLYMA 19G0724

499 4159 208 96.6 globlastp WNU8_H710 0T3_P1

96.4

WNU8_H106 chickpeall lvl lCK148718XX2 500 4161 208 glotblastn

2

96.4

WNU8_H107 milletl 1 Ovl ICD724963_T 1 501 4162 208 glotblastn

2

WNU8_H100

chickpeall3v2ICD051300_Pl 502 4163 208 96.4 globlastp 1

WNU8_H100

chickpeal 13 v2IGR394715_P1 503 4163 208 96.4 globlastp 2

WNU8_H100 chickpeall3v2ISRR133517.1237

504 4163 208 96.4 globlastp

3 61_P1

WNU8_H100 chickpeall3v2ISRR133517.1476

505 4163 208 96.4 globlastp 4 59_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H100 chickpeall3v2ISRR133517.2779

506 4163 208 96.4 globlastp 5 3_P1

WNU8_H108 chickpeal 11 v 11 AJO 10225XX 1 507 4163 208 96.4 globlastp

WNU8_H109 chickpeall lvl lGR397423 508 4163 208 96.4 globlastp

WNU8_H109 chickpeal 13v2IAB024998_Pl 509 4163 208 96.4 globlastp

WNU8_H110 cottonll lvllBE055520_Pl 510 4164 208 96.4 globlastp

WNU8_H111 cucumber I09v 11 AT007014_P 1 511 4165 208 96.4 globlastp

WNU8_H112 cynodonll0vl lES294218_Pl 512 4166 208 96.4 globlastp foxtail_milletll lv3IEC612500_P

WNU8_H113 513 4167 208 96.4 globlastp

1

foxtail_milletll lv3IEC612637_P

WNU8_H114 514 4167 208 96.4 globlastp

1

gossypium_raimondiil 12v 11 AI05

WNU8_H115 515 4164 208 96.4 globlastp

4704_P1

WNU8_H116 maizell0vllAA051887_Pl 516 4168 208 96.4 globlastp

WNU8_H117 maizell0vllAI586642_Pl 517 4169 208 96.4 globlastp

WNU8_H118 maizel lOvl IAI600492_P1 518 4170 208 96.4 globlastp

WNU8_H119 maizell0vllT14745_Pl 519 4171 208 96.4 globlastp

WNU8_H120 medicagoll2vl lAI737510_Pl 520 4172 208 96.4 globlastp

WNU8_H121 medicagoll2vl lAI974390_Pl 521 4172 208 96.4 globlastp milletllOvl IEVO454PM002847_

WNU8_H122 522 4173 208 96.4 globlastp

PI

WNU8_H123 ryel 12v 1 IDRROO 1012.150591 523 4174 208 96.4 globlastp

WNU8_H124 wheatll2v3IBE399763 524 4175 208 96.4 globlastp

WNU8_H106,

chickpeall3v2IAJ010225_Pl 525 4163 208 96.4 globlastp WNU8_H108

WNU8_H100

chickpeall3v2IGR407792_Tl 526 4161 208 96.2 glotblastn 6

WNU8_H100 chickpeall3v2ISRR133517.1571

527 4176 208 96.2 glotblastn 7 70_T1

WNU8_H125 aristolochial lOvl IFD748314_P1 528 4177 208 96.2 globlastp

WNU8_H126 aristolochiall0vl lFD758456_Pl 529 4177 208 96.2 globlastp

WNU8_H127 bananal 12vl IBBS 1834T7_P1 530 4178 208 96.2 globlastp

WNU8_H128 cottonll lvllBM359349_Pl 531 4179 208 96.2 globlastp

WNU8_H129 cottonll lvllCO095627_Pl 532 4180 208 96.2 globlastp

WNU8_H130 cucurbital 11 v 1 IFG227792_P 1 533 4181 208 96.2 globlastp cucurbital 11 v 11 SRR091276X 135

WNU8_H131 534 4182 208 96.2 globlastp

177_P1

foxtail_milletll lv3IEC613365_P

WNU8_H132 535 4183 208 96.2 globlastp

1

foxtail_milletll lv3IEC613737_P

WNU8_H133 536 4183 208 96.2 globlastp

1

foxtail_milletll lv3IGT228338_P

WNU8_H134 537 4183 208 96.2 globlastp

1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

foxtail_milletll lv3IPHY7SI0220

WNU8_H135 538 4183 208 96.2 globlastp

36M_P1

foxtail_milletll lv3IPHY7SI0220

WNU8_H136 539 4183 208 96.2 globlastp

37M_P1

gossypium_raimondiil 12v 11 AI73

WNU8_H137 540 4180 208 96.2 globlastp

0162_P1

WNU8_H138 lotusl09vl lAI967306_Pl 541 4184 208 96.2 globlastp milletl 1 Ovl IEVO454PM016641_

WNU8_H139 542 4185 208 96.2 globlastp

PI

WNU8_H140 poppyll lvllFE964382_Pl 543 4186 208 96.2 globlastp

WNU8_H141 poppyll lvllFE965111_Pl 544 4186 208 96.2 globlastp

WNU8_H142 poppyll lvllFE965256_Pl 545 4186 208 96.2 globlastp

WNU8_H143 poppyll lvllFE965993_Pl 546 4186 208 96.2 globlastp

WNU8_H144 poppyll lvllFG606650_Pl 547 4186 208 96.2 globlastp

WNU8_H145 poppyll lvllFG610664_Pl 548 4186 208 96.2 globlastp poppy 111 v 1 ISRR030259.100126

WNU8_H146 549 4186 208 96.2 globlastp

_P1

poppy 111 v 1 ISRR030259.101544

WNU8_H147 550 4186 208 96.2 globlastp

_P1

poppy 111 v 1 ISRR030259.102267

WNU8_H148 551 4186 208 96.2 globlastp

_P1

poppy 111 v 1 ISRR030259.10410_

WNU8_H149 552 4186 208 96.2 globlastp

PI

poppyll lvllSRR030259.133939

WNU8_H150 553 4187 208 96.2 glotblastn

_ 1

soybeanll lvl IGLYMA05G2411

WNU8_H151 554 4188 208 96.2 globlastp

0

WNU8_H152 sugarcanel lOvl 1 AF331850 555 4189 208 96.2 globlastp

WNU8_H153 sugarcanel lOvl IBQ533135 556 4190 208 96.2 globlastp

WNU8_H151, soybeanll2vl lGLYMA05G2411

557 4188 208 96.2 globlastp WNU8_H408 0_P1

WNU8_H100

switchgrassll2vl lDN142583_Pl 558 4191 208 96 globlastp 8

WNU8_H154 applell lvllCN488523_Pl 559 4192 208 96 globlastp

WNU8_H155 applell lvllCN494505_Pl 560 4192 208 96 globlastp

WNU8_H156 bananall2vl lBBS3632T3_Pl 561 4193 208 96 globlastp

WNU8_H157 clementinell lvl lBE205689_Pl 562 4194 208 96 globlastp

WNU8_H158 clementinel 11 vl IB Q624489_P 1 563 4195 208 96 globlastp

WNU8_H159 cottonll lvllBG445721_Pl 564 4196 208 96 globlastp

WNU8_H160 cowpeall2vl lFC456829_Pl 565 4197 208 96 globlastp

WNU8_H161 cowpeal 12v 1 IFC458124_P 1 566 4197 208 96 globlastp foxtail_milletl 11 v3 IEC612225_P

WNU8_H162 567 4198 208 96 globlastp

1

foxtail_milletll lv3IGT228217_P

WNU8_H163 568 4198 208 96 globlastp

1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

hornbeaml 12vl ISRR364455.103

WNU8_H164 569 4199 208 96 globlastp

031_P1

kiwilgbl66IGFXAY940092Xl_

WNU8_H165 570 4200 208 96 globlastp

PI

WNU8_H166 maizell0vllT18806_Pl 571 4201 208 96 globlastp

WNU8_H167 melonl 1 Ov 11 AM729307_P1 572 4202 208 96 globlastp

WNU8_H168 oakll0vl lCU639705_Pl 573 4203 208 96 globlastp

WNU8_H169 oakll0vl lDB996494_Pl 574 4203 208 96 globlastp

WNU8_H170 ricell lvllCB620198 575 4204 208 96 glotblastn

WNU8_H171 ryell2vllBE495927 576 4205 208 96 globlastp

WNU8_H172 ryel 12v 1 IDRR001012.10049 577 4206 208 96 globlastp

WNU8_H173 sorghuml 12vllSB 10G023330 578 4207 208 96 globlastp

WNU8_H174 sorghuml 12v 11 SB 10G023340 579 4207 208 96 globlastp

WNU8_H175 sorghumll2vllSB 10G023350 580 4207 208 96 globlastp

WNU8_H176 sorghuml 12vllSB 10G023360 581 4207 208 96 globlastp

WNU8_H177 teall0vllCV699774 582 4208 208 96 globlastp

WNU8_H178 tobaccolgbl62IBQ842818 583 4209 208 96 globlastp trigonellal 11 v 11 SRR066194X 155

WNU8_H179 584 4210 208 96 globlastp

552

poppyll lvllSRR030259.102988 95.9

WNU8_H180 585 4211 208 glotblastn

_ 1 7

95.9

WNU8_H181 ryell2vllDRR001013.13890 586 4212 208 glotblastn

7

WNU8_H182 cottonll lvllBE052982_Pl 587 4213 208 95.8 globlastp pigeonpeal 11 v 1 ISRR054580X 19

WNU8_H183 588 4214 208 95.8 globlastp

235_P1

95.7

WNU8_H184 applell lvllCK900552_Tl 589 4215 208 glotblastn

8

95.7

WNU8_H185 cynodonll0vl lDN985422_Tl 590 4216 208 glotblastn

5

95.7

WNU8_H186 poppyll lvllFE966067_Tl 591 4217 208 glotblastn

5 poppy 111 v 1 ISRR030260.100144 95.7

WNU8_H187 592 4218 208 glotblastn

_ 1 5

WNU8_H100 nicotiana_benthamianal 12v 11 A Y

593 4219 208 95.7 globlastp 9 206004_P1

WNU8_H101 nicotiana_benthamianal 12v 1 ICN

594 4219 208 95.7 globlastp 0 741625_P1

WNU8_H101

switchgrassll2vl lDN140822_Pl 595 4220 208 95.7 globlastp 1

WNU8_H101

switchgrassll2vl lDN141030_Pl 596 4220 208 95.7 globlastp 2

WNU8_H101

s witchgras s 112v 1 IDN 141417_P 1 597 4220 208 95.7 globlastp

3 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H101

switchgrassll2vl lDN151972_Pl 598 4221 208 95.7 globlastp 4

WNU8_H101

switchgrassll2vl lGR876245_Pl 599 4220 208 95.7 globlastp 5

WNU8_H101 switchgrassll2vl lSRR187773.41

600 4220 208 95.7 globlastp 6 5907_P1

amorphophallusll lv2ISRR08935

WNU8_H188 601 4222 208 95.7 globlastp

1X101178_P1

amorphophallusll lv2ISRR08935

WNU8_H189 602 4222 208 95.7 globlastp

1X101401_P1

aristolochiall0vl lSRR039082S0

WNU8_H190 603 4223 208 95.7 globlastp

176545_P1

WNU8_H191 cannabisl 12v 1 IGR220976_P 1 604 4224 208 95.7 globlastp

WNU8_H192 cottonl 11 v 11 AI054704_P 1 605 4225 208 95.7 globlastp

WNU8_H193 cynodonll0vl lDN985513_Pl 606 4226 208 95.7 globlastp eschscholzial 11 v 1 ICD476726_P

WNU8_H194 607 4227 208 95.7 globlastp

1

eschscholzial 11 v 1 ICD476797_P

WNU8_H195 608 4227 208 95.7 globlastp

1

eschscholzial 11 vllCD476881_P

WNU8_H196 609 4227 208 95.7 globlastp

1

eschscholzial 11 vllCD477282_P

WNU8_H197 610 4227 208 95.7 globlastp

1

eschscholzial 11 v 1 ICD477313_P

WNU8_H198 611 4227 208 95.7 globlastp

1

eschscholzial 11 vllCD477368_P

WNU8_H199 612 4227 208 95.7 globlastp

1

eschscholzial 11 vllCD477537_P

WNU8_H200 613 4227 208 95.7 globlastp

1

eschscholzial 11 v 1 ICD478703_P

WNU8_H201 614 4227 208 95.7 globlastp

1

euphorbiall lvllSRR098678X10

WNU8_H202 615 4228 208 95.7 globlastp

0288_P1

euphorbiall lvllSRR098678X10

WNU8_H203 616 4228 208 95.7 globlastp

0301_P1

euphorbiall lvllSRR098678X10

WNU8_H204 617 4228 208 95.7 globlastp

0373_P1

WNU8_H205 maizell0vllH35894_Pl 618 4229 208 95.7 globlastp

WNU8_H206 oakll0vl lFN640894_Pl 619 4230 208 95.7 globlastp

WNU8_H207 oakll0vl lFP043949_Pl 620 4230 208 95.7 globlastp oakll0vl lSRR006307S0002473_

WNU8_H208 621 4231 208 95.7 globlastp

PI

WNU8_H209 onionll2vllBQ580086_Pl 622 4232 208 95.7 globlastp poppy 111 v 1 ISRR030259.109187

WNU8_H210 623 4233 208 95.7 globlastp

_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H211 prunusll0vl lBU039267 624 4234 208 95.7 globlastp

WNU8_H212 rosell2vllBQ104256 625 4235 208 95.7 globlastp

WNU8_H213 silenell lvl lSRR096785X100438 626 4236 208 95.7 globlastp

WNU8_H214 silenell lvl lSRR096785X100589 627 4236 208 95.7 globlastp

WNU8_H215 silenell lvl lSRR096785X100710 628 4236 208 95.7 globlastp

WNU8_H216 silenell lvl lSRR096785X101356 629 4236 208 95.7 globlastp

WNU8_H217 silenell lvl lSRR096785X102548 630 4237 208 95.7 globlastp

WNU8_H218 silenell lvl lSRR096785X103692 631 4236 208 95.7 globlastp

WNU8_H219 silenell lvl lSRR096785X106318 632 4237 208 95.7 globlastp

WNU8_H220 tobaccolgb 162INTU04632 633 4238 208 95.7 globlastp trigonellal l lvl ISRR066194X 116

WNU8_H221 634 4239 208 95.7 globlastp

263

WNU8_H101 95.5

chickpeall3v2IGR392683_Tl 635 4240 208 glotblastn 7 3

WNU8_H101 chickpeall3v2ISRR133517.1559 95.5

636 4241 208 glotblastn 8 16_T1 3

WNU8_H101 chickpeall3v2ISRR133517.2957 95.5

637 4242 208 glotblastn 9 8_T1 3

amorphophallusll lv2ISRR08935 95.5

WNU8_H222 638 4243 208 glotblastn

1X143730_T1 3 amsoniall lvllSRR098688X1008 95.5

WNU8_H223 639 4244 208 glotblastn

_ 1 3

95.5

WNU8_H224 cottonl l lvl 1 AI730606_T 1 640 4245 208 glotblastn

3 flaveriall lvl lSRR149229.46624 95.5

WNU8_H225 641 4246 208 glotblastn

7_T1 3 flaveriall lvl lSRR149232.10243 95.5

WNU8_H226 642 4247 208 glotblastn

1_T1 3 foxtail_milletll lv3IEC613894_T 95.5

WNU8_H227 643 4248 208 glotblastn

1 3 foxtail_milletll lv3ISICRP09461 95.5

WNU8_H228 644 4249 208 glotblastn

4_T1 3 plantagoll 1 V2ISRR066373X133 95.5

WNU8_H229 645 4250 208 glotblastn

888_T1 3 poppy 1 l lvl ISRR030259.205881 95.5

WNU8_H230 646 4251 208 glotblastn

_ 1 3 poppyll lvllSRR030259.227682 95.5

WNU8_H231 647 4252 208 glotblastn

_ 1 3

95.5

WNU8_H232 silenell lvl lSRR096785X153635 648 4253 208 glotblastn

3

WNU8_H102

beanll2v2ICA898065_Pl 649 4254 208 95.5 globlastp 0

WNU8_H102 nicotiana_benthamianal 12v 1 IB P

1 74473 i_pi 650 4255 208 95.5 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H102 nicotiana_benthamianal 12v 1 ICN

651 4256 208 95.5 globlastp 2 655509_P1

WNU8_H102 prunus_mumell3vl lBU039267_

652 4257 208 95.5 globlastp 3 PI

WNU8_H233 aristolochiall0vl lFD750352_Pl 653 4258 208 95.5 globlastp chelidoniuml 11 vl ISRR084752X

WNU8_H235 654 4259 208 95.5 globlastp

100201_P1

WNU8_H236 cottonll lvllAI725538_Pl 655 4260 208 95.5 globlastp

WNU8_H237 cottonl l lvl 1 AI726406_P 1 656 4260 208 95.5 globlastp

WNU8_H238 cottonll lvllAI726541_Pl 657 4260 208 95.5 globlastp

WNU8_H239 cottonl l lvllAI730220_Pl 658 4260 208 95.5 globlastp

WNU8_H240 cottonl l lvl 1 AI730498_P 1 659 4260 208 95.5 globlastp

WNU8_H241 cottonll lvllBF274186_Pl 660 4260 208 95.5 globlastp

WNU8_H242 cottonl 1 lvllCOl 17735XX2_P1 661 4260 208 95.5 globlastp

WNU8_H243 eggplantl 1 Ovl IFS000082_P 1 662 4261 208 95.5 globlastp

WNU8_H244 eggplantllOvl IFS000440_P1 663 4262 208 95.5 globlastp eschscholziall lvllCD476486_P

WNU8_H245 664 4263 208 95.5 globlastp

1

eschscholziall lvllCD478453XX

WNU8_H246 665 4264 208 95.5 globlastp

2_P1

eschscholzial l lvl ICD478458_P

WNU8_H247 666 4264 208 95.5 globlastp

1

eschscholzial 11 vllCD478468_P

WNU8_H248 667 4265 208 95.5 globlastp

1

eschscholzial 11 V1ICD479080XX

WNU8_H249 668 4264 208 95.5 globlastp

2_P1

eschscholzial 11 v 11 SRRO 14116.1

WNU8_H250 669 4266 208 95.5 globlastp

10768_P1

gossypium_raimondiil 12v 11 AI72

WNU8_H251 670 4260 208 95.5 globlastp

5538_P1

gossypium_raimondiil 12v 11 AI72

WNU8_H252 671 4260 208 95.5 globlastp

6406_P1

gossypium_raimondiil 12v 1 IBEO

WNU8_H253 672 4267 208 95.5 globlastp

52982_P1

grapel 11 v 1 IGS VIVTO 102514200

WNU8_H254 673 4268 208 95.5 globlastp

1_P1

grapel 11 v 1 IGS VIVTO 102514500

WNU8_H255 674 4268 208 95.5 globlastp

1_P1

momordical 1 Ov 1 ISRR071315 SO

WNU8_H256 675 4269 208 95.5 globlastp

002857_P1

WNU8_H257 nasturtiumll lvl lGH162035_Pl 676 4270 208 95.5 globlastp

WNU8_H258 papayalgbl65IEL784286_Pl 677 4271 208 95.5 globlastp

WNU8_H259 peall lvllCD861071_Pl 678 4272 208 95.5 globlastp

WNU8_H260 pepperll2vllAF109666_Pl 679 4273 208 95.5 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

poppy 1 l lvl ISRR030259.119594

WNU8_H261 680 4274 208 95.5 globlastp

_P1

WNU8_H262 rosell2vllBQ106130 681 4275 208 95.5 globlastp solanum_phurejal09vl ISPHAAO

WNU8_H263 682 4276 208 95.5 globlastp

76676

WNU8_H264 sorghuml 12vl ISB02G036420 683 4277 208 95.5 globlastp soybeanll lvl lGLYMA10G3570

WNU8_H265 684 4278 208 95.5 globlastp

0

soybeanl 12vl IGLYMA 10G3570

WNU8_H265 685 4278 208 95.5 globlastp

0_P1

WNU8_H266 vincall lvl lSRR098690X123396 686 4279 208 95.5 globlastp

WNU8_H267 watermelonl l lvl IC0997727 687 4280 208 95.5 globlastp

WNU8_H102

castorbeanll2vl lEE254323_Tl 688 4281 208 95.3 glotblastn 4

WNU8_H102

switchgrassll2vl lFL815212_Pl 689 4282 208 95.3 globlastp 5

WNU8_H268 aquilegial 10v2 IDR930217_P 1 690 4283 208 95.3 globlastp

WNU8_H269 bananall2vl lZ99973_Pl 691 4284 208 95.3 globlastp beechll lvl lSRR006293.33031_

WNU8_H270 692 4285 208 95.3 glotblastn

Tl

WNU8_H271 beetl 12v 11 AW777205_P 1 693 4286 208 95.3 globlastp

WNU8_H272 beetll2vllBF011175_Pl 694 4286 208 95.3 globlastp

WNU8_H273 castorbeanll lvl lEE254323 695 4281 208 95.3 glotblastn

WNU8_H274 centaureal l lvl IEH726601_P1 696 4287 208 95.3 globlastp

WNU8_H275 centaureal l lvl IEH761240_P1 697 4287 208 95.3 globlastp chelidoniuml 11 vl ISRR084752X

WNU8_H276 698 4288 208 95.3 globlastp

100558_P1

chelidoniuml 11 vl ISRR084752X

WNU8_H277 699 4289 208 95.3 globlastp

100795_P1

chelidoniuml 11 vl ISRR084752X

WNU8_H278 700 4289 208 95.3 globlastp

101329_P1

cirsiumll lvllSRR346952.10027

WNU8_H279 701 4287 208 95.3 globlastp

08_P1

cirsiumll lvllSRR349641.10396

WNU8_H280 702 4287 208 95.3 globlastp

2_P1

cleome_gynandral 1 Ov 1 ISRR015

WNU8_H281 703 4290 208 95.3 globlastp

532S0001474_P1

cleome_gynandral 1 Ov 1 ISRR015

WNU8_H282 704 4290 208 95.3 globlastp

532S0004204_P1

cleome_spinosall0vl lGR932583

WNU8_H283 705 4291 208 95.3 globlastp

_P1

cleome_spinosall0vl lSRR01553

WNU8_H284 706 4292 208 95.3 globlastp

1S0002895_P1

WNU8_H285 cottonl l lvl IBF274217XX 1_P 1 707 4293 208 95.3 globlastp

WNU8_H286 cottonll lvllCO100824_Pl 708 4293 208 95.3 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H287 cottonll lvllDT053387_Pl 709 4294 208 95.3 globlastp

WNU8_H288 cottonl l lvl IDT569172_P 1 710 4293 208 95.3 globlastp

WNU8_H289 eucalyptusll lv2IAW191358_Pl 711 4295 208 95.3 globlastp euonymus 111 v 11 SRR070038X10

WNU8_H290 712 4296 208 95.3 globlastp

1364_P1

euonymus 111 v 11 SRR070038X11

WNU8_H291 713 4296 208 95.3 globlastp

5963_P1

euonymus 111 v 11 SRR070038X25

WNU8_H292 714 4297 208 95.3 globlastp

9150_P1

flaverial 11 vl ISRR 149229.10067

WNU8_H293 715 4298 208 95.3 globlastp

5_P1

flaveriall lvl lSRR149229.13810

WNU8_H294 716 4298 208 95.3 globlastp

3_P1

flaverial 11 vl ISRR 149229.42603

WNU8_H295 717 4299 208 95.3 globlastp

8_P1

flaverial 11 V1 ISRR149229.45253

WNU8_H296 718 4299 208 95.3 globlastp

8_P1

flaverial 11 V1 ISRR149229.45272

WNU8_H297 719 4298 208 95.3 globlastp

7_P1

flaverial l lvl lSRR149232.10595

WNU8_H298 720 4298 208 95.3 globlastp

9_P1

flaverial l lvl lSRR149232.11963

WNU8_H299 721 4298 208 95.3 globlastp

9_P1

flaverial 11 V1 ISRR149232.23936

WNU8_H300 722 4298 208 95.3 globlastp

9XX2_P1

flaverial 11 V1 ISRR149232.25331

WNU8_H301 723 4298 208 95.3 globlastp

8_P1

fiaveriall lvl lSRR149232.31659

WNU8_H302 724 4299 208 95.3 globlastp

5_P1

flaverial 11 V1 ISRR149232.35660

WNU8_H303 725 4298 208 95.3 globlastp

1_P1

flaverial 11 V1 ISRR149232.38225

WNU8_H304 726 4298 208 95.3 globlastp

2_P1

flaverial 11 V1 ISRR149232.85827

WNU8_H305 727 4298 208 95.3 globlastp

_P1

flaverial 11 V1 ISRR149240.22221

WNU8_H306 728 4298 208 95.3 globlastp

7_P1

WNU8_H307 gerberal09vllAJ750107_Pl 729 4300 208 95.3 globlastp gossypium_raimondiil 12v 11 AI05

WNU8_H308 730 4293 208 95.3 globlastp

5114_P1

hornbeaml 12vl ISRR364455.101

WNU8_H309 731 4301 208 95.3 globlastp

164_P1

hornbeaml 12vl ISRR364455.101

WNU8_H310 732 4301 208 95.3 globlastp

583_P1

hornbeaml 12vl ISRR364455.101

WNU8_H311 733 4301 208 95.3 globlastp

709_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H312 medicagoll2vl lAW256757_Pl 734 4302 208 95.3 globlastp

WNU8_H313 medicagoll2vl lBF650996_Pl 735 4303 208 95.3 globlastp

WNU8_H314 pigeonpeal l lvl IGR466613_T 1 736 4304 208 95.3 glotblastn plantagoll 1 v2ISRR066373X100

WNU8_H315 737 4305 208 95.3 globlastp

182_P1

plantagoll 1 v2ISRR066373X101

WNU8_H316 738 4305 208 95.3 globlastp

749_P1

platanusll lvl lSRR096786X1063

WNU8_H317 739 4306 208 95.3 globlastp

02_P1

WNU8_H318 poppyll lvllFE965841_Pl 740 4307 208 95.3 globlastp

WNU8_H319 poppyll lvllFE968602_Pl 741 4308 208 95.3 globlastp

WNU8_H320 poppyll lvllFG612840_Tl 742 4309 208 95.3 glotblastn poppyll lvllSRR030259.111052

WNU8_H321 743 4310 208 95.3 globlastp

_P1

poppy 1 l lvl ISRR030267.75877_

WNU8_H322 744 4308 208 95.3 globlastp

PI

WNU8_H323 ryell2vllBF429367 745 4311 208 95.3 globlastp

WNU8_H324 ryell2vllDRR001012.101877 746 4312 208 95.3 glotblastn

WNU8_H325 silenell lvl lDV768325 747 4313 208 95.3 globlastp

WNU8_H326 silenell lvl lSRR096785X101252 748 4314 208 95.3 globlastp solanum_phurejal09vl ISPHAI77

WNU8_H327 749 4315 208 95.3 globlastp

3886

soybeani 11 vl IGLYMA05G1163

WNU8_H328 750 4316 208 95.3 globlastp

0

soybeanll2vl lGLYMA05G1163

WNU8_H328 751 4316 208 95.3 globlastp

0T2_P1

soybeani 11 V1 IGLYMA17G2390

WNU8_H329 752 4317 208 95.3 globlastp

0

WNU8_H330 sugarcanellOvl lCAl 10141 753 4318 208 95.3 globlastp

WNU8_H331 tomatoll lvl lNTU04632 754 4319 208 95.3 globlastp

WNU8_H332 wheatll2v3IHX143170 755 4320 208 95.3 globlastp

WNU8_H329, soybeani 12vl lGLYMA17G2390

756 4317 208 95.3 globlastp WNU8_H711 0_P1

WNU8_H102

castorbeanll2vl lEG658125_Pl 757 4321 208 95.1 globlastp 6

WNU8_H102

poplarll3vl lAI161969_Pl 758 4322 208 95.1 globlastp 7

WNU8_H102

switchgrassll2vl IFE605464_P1 759 4323 208 95.1 globlastp 8

WNU8_H333 amborellal 12v3 IFD428667_P 1 760 4324 208 95.1 globlastp

WNU8_H334 applell lvllCN862600_Pl 761 4325 208 95.1 globlastp

WNU8_H335 applell lvllMDU80268_Pl 762 4326 208 95.1 globlastp

WNU8_H336 artemisial 1 Ov 1 IE Y 102338_P 1 763 4327 208 95.1 globlastp

WNU8_H337 bananal 12vl IDQ057979_P 1 764 4328 208 95.1 globlastp

WNU8_H338 bananall2vl lES431512_Pl 765 4329 208 95.1 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H339 bananall2vl lFF561778_Pl 766 4330 208 95.1 globlastp beechll lvl lSRR006293.11634_

WNU8_H340 767 4331 208 95.1 globlastp

PI

beechl 11 vl ISRR006293.11715_

WNU8_H341 768 4332 208 95.1 globlastp

PI

beechl 11 vl lSRR006293.26950_

WNU8_H342 769 4333 208 95.1 globlastp

PI

WNU8_H343 beetll2vllBF011125_Pl 770 4334 208 95.1 globlastp

WNU8_H344 blueberryll2vllCF811324_Pl 771 4335 208 95.1 globlastp

WNU8_H345 blueberry 112v 1 IDR068176_P1 772 4336 208 95.1 globlastp blueberryll2vllSRR353282X114

WNU8_H346 773 4337 208 95.1 globlastp

12D1_P1

WNU8_H347 cacaoll0vllCU471873_Pl 774 4338 208 95.1 globlastp

WNU8_H348 cannabisl 12v 1 IGR220640_P 1 775 4339 208 95.1 globlastp

WNU8_H349 castorbeanll lvl lEG658125 776 4321 208 95.1 globlastp cirsiumll lvllSRR346952.12427

WNU8_H350 111 4340 208 95.1 globlastp

6_P1

WNU8_H351 cottonll lvllAI055181_Pl 778 4341 208 95.1 globlastp

WNU8_H352 cottonll lvllAI730775_Pl 779 4342 208 95.1 globlastp

WNU8_H353 cottonl 11 v 1 IB Q407515_P1 780 4343 208 95.1 globlastp

WNU8_H354 cottonl 11 v 1 ICO074038_P1 781 4343 208 95.1 globlastp

WNU8_H355 eucalyptusll lv2ICB968056_Pl 782 4344 208 95.1 globlastp

WNU8_H356 eucalyptusll lv2ICD668816_Pl 783 4345 208 95.1 globlastp

WNU8_H357 eucalyptusll lv2ICD669665_Pl 784 4346 208 95.1 globlastp flaverial 11 vl ISRR 149229.10401

WNU8_H358 785 4347 208 95.1 globlastp

7_P1

flaverial 11 vl ISRR 149229.12443

WNU8_H359 786 4347 208 95.1 globlastp

3_P1

flaverial 11 V1 ISRR149229.44430

WNU8_H360 787 4348 208 95.1 globlastp

5_P1

flaverial 11 V1 ISRR149229.93595

WNU8_H361 788 4347 208 95.1 globlastp

_P1

fiaveriall lvl lSRR149232.15044

WNU8_H362 789 4349 208 95.1 globlastp

_P1

gossypium_raimondiil 12v 11 AI05

WNU8_H363 790 4341 208 95.1 globlastp

5181_P1

gossypium_raimondiil 12v 11 AI73

WNU8_H364 791 4350 208 95.1 globlastp

0775_P1

grapel 11 v 1 IGS VIVTO 101631700

WNU8_H365 792 4351 208 95.1 globlastp

1_P1

WNU8_H366 humulusll lvl lES652342_Pl 793 4352 208 95.1 globlastp

WNU8_H367 lettucell2vl lDW043995_Pl 794 4353 208 95.1 globlastp

WNU8_H368 lotusl09vl lCN825649_Pl 795 4354 208 95.1 globlastp momordical 1 Ov 1 ISRR071315 SO

WNU8_H369 796 4355 208 95.1 globlastp

016076_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

phylall 1 v2ISRR099035X100072

WNU8_H370 797 4356 208 95.1 globlastp

_P1

phylall 1 v2ISRR099035X101326

WNU8_H371 798 4356 208 95.1 globlastp

_P1

phylall 1 v2ISRR099035X101336

WNU8_H372 799 4356 208 95.1 globlastp

_P1

phylall 1 v2ISRR099035X103026

WNU8_H373 800 4356 208 95.1 globlastp

_P1

pigeonpeall lvllSRR054580Xl 1

WNU8_H374 801 4357 208 95.1 globlastp

8863_P1

podocarpusll0vllSRR065014S0

WNU8_H375 802 4358 208 95.1 globlastp

015649_P1

WNU8_H376 poppyll lvllFE965023_Pl 803 4359 208 95.1 globlastp

WNU8_H377 poppyll lvllFE966271_Pl 804 4360 208 95.1 globlastp poppy 111 v 1 ISRR030259.131651

WNU8_H378 805 4360 208 95.1 globlastp

_P1

poppyll lvllSRR030259.204870

WNU8_H379 806 4360 208 95.1 globlastp

_P1

poppyll lvllSRR030259.371307

WNU8_H380 807 4359 208 95.1 globlastp

_P1

poppy 111 v 1 ISRR030265.228007

WNU8_H381 808 4361 208 95.1 globlastp

_P1

poppyll lvllSRR030266.80491_

WNU8_H382 809 4361 208 95.1 globlastp

PI

poppyll lvllSRR033669.106346

WNU8_H383 810 4362 208 95.1 globlastp

_P1

poppyll lvllSRR096789.100989

WNU8_H384 811 4361 208 95.1 globlastp

_P1

poppyll lvllSRR096789.114426

WNU8_H385 812 4361 208 95.1 globlastp

_P1

primulall lvllSRR098679X1008

WNU8_H386 813 4363 208 95.1 globlastp

7_P1

pteridiumll lvl lSRR043594X10

WNU8_H387 814 4364 208 95.1 globlastp

2662

solanum_phurejal09vl ISPHAI78

WNU8_H388 815 4365 208 95.1 globlastp

1348

solanum_phurejal09vl ISPHAJ30

WNU8_H389 816 4365 208 95.1 globlastp

2119

solanum_phurejal09vl ISPHBG1

WNU8_H390 817 4365 208 95.1 globlastp

23241

WNU8_H391 strawberryll lvl lCO378450 818 4366 208 95.1 globlastp

WNU8_H392 tomatoll lvl lAF108894 819 4367 208 95.1 globlastp

WNU8_H393 tomatoll lvl lBG123241 820 4367 208 95.1 globlastp trigonellal 11 v 1 ISRR066194X 107

WNU8_H394 821 4368 208 95.1 globlastp

491 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

tripterygiumll 1 vl ISRR098677X

WNU8_H395 822 4369 208 95.1 globlastp

100595

tripterygiumll lvl ISRR098677X

WNU8_H396 823 4369 208 95.1 globlastp

100891

tripterygiumll lvl ISRR098677X

WNU8_H397 824 4369 208 95.1 globlastp

101036

tripterygiumll lvl ISRR098677X

WNU8_H398 825 4369 208 95.1 globlastp

12791XX1

utricularial 11 v 11 SRR094438.100

WNU8_H399 826 4370 208 95.1 globlastp

179

95.0

WNU8_H400 applell lvllCX022900_Tl 827 4371 208 glotblastn

8

95.0

WNU8_H401 cannabisl 12v 1 IGR220972_T 1 828 4372 208 glotblastn

8

95.0

WNU8_H402 cottonll lvllBQ416159_Tl 829 4373 208 glotblastn

8 eschscholziall lvllCD476470_T 95.0

WNU8_H403 830 4374 208 glotblastn

1 8 flaveriall lvl ISRR149232.10172 95.0

WNU8_H404 831 4375 208 glotblastn

0_T1 8

95.0

WNU8_H405 grapell lvllCB001916_Tl 832 4376 208 glotblastn

8 poppyll lvllSRR096789.135633 95.0

WNU8_H406 833 4377 208 glotblastn

_ 1 8

95.0

WNU8_H407 sorghuml 12v 1 ICD204773 834 4378 208 glotblastn

8

95.0

WNU8_H408 soybeanll lvl lCF806389 835 4379 208 glotblastn

8

95.0

WNU8_H409 wheatll2v3IAW448510 836 4380 208 glotblastn

8

WNU8_H102 prunus_mumel 13 vl IBU039165_

837 4381 208 94.9 globlastp 9 PI

amorphophallusll lv2ISRR08935

WNU8_H410 838 4382 208 94.9 globlastp

1X10266_P1

amorphophallusll lv2ISRR08935

WNU8_H411 839 4382 208 94.9 globlastp

1X105525XX1_P1

amorphophallusll lv2ISRR08935

WNU8_H412 840 4382 208 94.9 globlastp

1X128278_P1

amsoniall lvllSRR098688X1001

WNU8_H413 841 4383 208 94.9 globlastp

75_P1

WNU8_H414 aquilegiall0v2IDR935423_Pl 842 4384 208 94.9 globlastp

WNU8_H415 aquilegial 10v2IDT744770_Pl 843 4385 208 94.9 globlastp

WNU8_H416 bananall2vl lFF560532_Pl 844 4386 208 94.9 globlastp

WNU8_H417 basilicumll0vl lDY321893_Pl 845 4387 208 94.9 globlastp

WNU8_H418 blueberry 112v 1 IDR067017_P1 846 4388 208 94.9 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

blueberryll2vllSRR353282X100

WNU8_H419 847 4389 208 94.9 globlastp

165D1_P1

blueberryll2vllSRR353282X100

WNU8_H420 848 4390 208 94.9 globlastp

928D1_P1

WNU8_H421 cacaoll0vllCA797400_Pl 849 4391 208 94.9 globlastp

WNU8_H422 cacaoll0vllCF972784_Pl 850 4392 208 94.9 globlastp cedrusl 11 v 1 ISRR065007X 10066

WNU8_H423 851 4393 208 94.9 globlastp

6_P1

cirsiumll lvllSRR346952.10049

WNU8_H424 852 4394 208 94.9 globlastp

75_P1

cirsiumll lvllSRR346952.10520

WNU8_H425 853 4394 208 94.9 globlastp

90_P1

WNU8_H426 clementinell lvl lBE205741_Pl 854 4395 208 94.9 globlastp cleome_gynandral 1 Ov 1 ISRRO 15

WNU8_H427 855 4396 208 94.9 globlastp

532S0001773_P1

cleome_spinosall0vl lGR933669

WNU8_H428 856 4397 208 94.9 globlastp

_P1

cleome_spinosall0vl lSRR01553

WNU8_H429 857 4398 208 94.9 globlastp

1S0001111_P1

WNU8_H430 coffeall0vllDV663574_Pl 858 4399 208 94.9 globlastp

WNU8_H431 cottonll lvllCO071370_Pl 859 4400 208 94.9 globlastp

WNU8_H432 cottonl 11 v 1 IDT048133_P 1 860 4401 208 94.9 globlastp

WNU8_H433 dandelionll0vl lDR399309_Pl 861 4402 208 94.9 globlastp eschscholziall lvllCD476398_P

WNU8_H434 862 4403 208 94.9 globlastp

1

WNU8_H435 eucalyptusll lv2ICB967966_Pl 863 4404 208 94.9 globlastp

WNU8_H436 euphorbiall lvllAW862637_Pl 864 4405 208 94.9 globlastp grapel 11 v 1 IGS VIVTO 102563800

WNU8_H437 865 4406 208 94.9 globlastp

1_P1

WNU8_H438 humulusll lvl lFG346869_Pl 866 4407 208 94.9 globlastp

WNU8_H439 humulusll lvl lGD245567_Pl 867 4408 208 94.9 globlastp

WNU8_H440 maizell0vllBG320525_Pl 868 4409 208 94.9 globlastp

WNU8_H441 oiLpalmll 1 vl IEL682924_P1 869 4410 208 94.9 globlastp

WNU8_H442 oiLpalmll 1 vl IEL930607_P1 870 4411 208 94.9 globlastp

WNU8_H443 oiLpalmll lvl lES323752_Pl 871 4411 208 94.9 globlastp

WNU8_H444 orangell lvllBE205741_Pl 872 4412 208 94.9 globlastp orobanchel lOvl ISRR023189S00

WNU8_H445 873 4413 208 94.9 globlastp

00079_P1

orobanchel lOvl ISRR023189S00

WNU8_H446 874 4414 208 94.9 globlastp

01178_P1

WNU8_H447 partheniuml 1 Ov 1 IGW776061_P 1 875 4415 208 94.9 globlastp

WNU8_H448 pepperll2vllAF108894_Pl 876 4416 208 94.9 globlastp

WNU8_H449 pepperll2vllBM061844_Pl 877 4416 208 94.9 globlastp phalaenopsisll lvl lCB033270XX

WNU8_H450 878 4417 208 94.9 globlastp

1_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

phalaenopsisll lvl lCK858530_P

WNU8_H451 879 4418 208 94.9 globlastp

1

WNU8_H452 platanusll lvl lAM286248_Pl 880 4419 208 94.9 globlastp platanusll lvl ISRR096786X1011

WNU8_H453 881 4419 208 94.9 globlastp

71_P1

poppy 1 l lvl ISRR030259.124479

WNU8_H454 882 4420 208 94.9 globlastp

_P1

WNU8_H455 prunusll0vl lBU039165 883 4381 208 94.9 globlastp

WNU8_H456 ryel 12v 1 IDRR001012.156956 884 4421 208 94.9 globlastp

WNU8_H457 sprucell lvllES245248 885 4422 208 94.9 globlastp

WNU8_H458 sprucell lvllES250415 886 4422 208 94.9 globlastp

WNU8_H459 sprucell lvllEX345407 887 4422 208 94.9 globlastp

WNU8_H460 strawberryll lvl lC0381963 888 4423 208 94.9 globlastp

WNU8_H461 sunflower 112v 11 AJ318256 889 4424 208 94.9 globlastp

WNU8_H462 sunflower 112v 11 AY094064 890 4424 208 94.9 globlastp

WNU8_H463 sunflower 112v 1 IBU671873 891 4424 208 94.9 globlastp

WNU8_H464 sunfiowerll2vllBU671985 892 4424 208 94.9 globlastp

WNU8_H465 sunfiowerll2vllCD851234 893 4424 208 94.9 globlastp

WNU8_H466 sunflower 112v 1 ID Y909098 894 4424 208 94.9 globlastp

WNU8_H467 sunflower 112v 1 ID Y915476 895 4424 208 94.9 globlastp tabernaemontanall lvl lSRR0986

WNU8_H468 896 4425 208 94.9 globlastp

89X101208

tabernaemontanall lvl lSRR0986

WNU8_H469 897 4426 208 94.9 globlastp

89X106153XX1

WNU8_H470 tomatoll lvl lR28725 898 4427 208 94.9 globlastp tragopogonll0vllSRR020205S0

WNU8_H471 899 4428 208 94.9 globlastp

002006

trigonellal l lvl ISRR066194X 102

WNU8_H472 900 4429 208 94.9 globlastp

42

WNU8_H501 poplarll3vl lAI164807_Pl 901 4430 208 94.9 globlastp

94.8

WNU8_H473 eucalyptusll lv2ICU400103_Tl 902 4431 208 glotblastn

8

94.8

WNU8_H474 medicagoll2vl lBF639628_Tl 903 4432 208 glotblastn

7

WNU8_H103 monkeyfiowerll2vl lDV205853_ 94.8

904 4433 208 glotblastn 0 Tl 5

94.8

WNU8_H475 avocadoll0vllCO996848_Tl 905 4434 208 glotblastn

5

94.8

WNU8_H476 beetl 12v 11 AW697790_T 1 906 4435 208 glotblastn

5

94.8

WNU8_H477 cannabisl 12v 1 IGR222004_T 1 907 4436 208 glotblastn

5 eschscholzial 11 v 11 SRR014116.1 94.8

WNU8_H478 908 4437 208 glotblastn

05105_T1 5 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

flaverial 11 vl ISRR 149229.11491 94.8

WNU8_H479 909 4438 208 glotblastn

7_T1 5 gossypium_raimondiil 12v 11 AI72 94.8

WNU8_H480 910 4439 208 glotblastn

6186_T1 5

94.8

WNU8_H481 maizell0vllCD441766_Tl 911 4440 208 glotblastn

5

94.8

WNU8_H482 ryell2vllDRR001012.347328 912 4441 208 glotblastn

5

WNU8_H103

castorbeanll2vl lEE256050_Pl 913 4442 208 94.7 globlastp 1

WNU8_H103

castorbeanll2vl lEG656787_Pl 914 4442 208 94.7 globlastp 2

WNU8_H103 oleal 13 v 1 IGFX AM946404X 1_P

915 4443 208 94.7 globlastp 3 1

WNU8_H103 oleal 13 v 1 ISRRO 14463X20349D

916 4444 208 94.7 globlastp 4 1_P1

WNU8_H103

poplarll3vl lAI166447_Pl 917 4445 208 94.7 globlastp 5

ambrosial 11 vl ISRR346943.1268

WNU8_H483 918 4446 208 94.7 globlastp

71_P1

arabidopsis_lyratal09vl IJGIALO

WNU8_H484 919 4447 208 94.7 globlastp

00754_P1

arabidopsis_lyratal09vl IJGIALO

WNU8_H485 920 4447 208 94.7 globlastp

30663_P1

arabidopsisll0vl lATlG07901_P

WNU8_H486 921 4447 208 94.7 globlastp

1

arabidopsisll0vl lATlG07930_P

WNU8_H487 922 4447 208 94.7 globlastp

1

arabidopsisll0vl lATlG07940_P

WNU8_H488 923 4447 208 94.7 globlastp

1

arabidopsisl lOvl IAT5G60390_P

WNU8_H489 924 4447 208 94.7 globlastp

1

WNU8_H490 cacaoll0vllCA794319_Pl 925 4448 208 94.7 globlastp

WNU8_H492 castorbeanll lvl lEG656787 926 4442 208 94.7 globlastp cirsiumll lvllSRR346952.10242

WNU8_H493 927 4449 208 94.7 globlastp

1_P1

cleome_spinosall0vl lSRR01553

WNU8_H494 928 4450 208 94.7 globlastp

1S0002488_P1

WNU8_H495 coffeall0vllCF588804_Pl 929 4451 208 94.7 globlastp

WNU8_H496 cottonll lvllAW187614_Pl 930 4452 208 94.7 globlastp

WNU8_H497 cottonll lvllBQ414984_Pl 931 4452 208 94.7 globlastp cucumberl09vllCSCRP008322_

WNU8_H498 932 4453 208 94.7 globlastp

PI

fraxinusl 11 vl ISRR058827.10067

WNU8_H499 933 4454 208 94.7 globlastp

9_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H500 oleall lvllSRR014463.10146 934 4455 208 94.7 globlastp

WNU8_H501 poplarll0vl lAI161969 935 4456 208 94.7 globlastp

WNU8_H502 sunflower 112v 1 IBU028740 936 4457 208 94.7 globlastp

WNU8_H503 sunflower 112v 1 ID Y946305 937 4458 208 94.7 globlastp thellungiella_halophilumll lvl IB

WNU8_H504 938 4459 208 94.7 globlastp

M986048

thellungiella_halophilumll lvl ID

WNU8_H505 939 4459 208 94.7 globlastp

N773185

thellungiella_halophilumll lvl ID

WNU8_H506 940 4459 208 94.7 globlastp

N773401

thellungiella_halophilumll lvl ID

WNU8_H507 941 4459 208 94.7 globlastp

N773796

WNU8_H508 triphysariall0vl lBE574839 942 4460 208 94.7 globlastp

WNU8_H509 triphysarial lOvl IBM357290 943 4460 208 94.7 globlastp valerianal 11 vl ISRR099039X 149

WNU8_H510 944 4461 208 94.7 globlastp

703

foxtail_milletll lv3ISICRP09465 94.6

WNU8_H511 945 4462 208 glotblastn

9_T1 9 ambrosial 1 lvl ISRR346935.1276 94.6

WNU8_H512 946 4463 208 glotblastn

21_T1 3

94.6

WNU8_H513 castorbeanl 1 lvl IEG661854 947 4464 208 glotblastn

3

94.6

WNU8_H514 grapell lvllCB288374_Tl 948 4465 208 glotblastn

3 poppyll lvllSRR030259.267771 94.6

WNU8_H515 949 4466 208 glotblastn

_ 1 3 sorghuml 12v 11 SB 12 V 1 CRP0382 94.6

WNU8_H516 950 4467 208 glotblastn

94 3 valerianal 11 vl ISRR099039X 100 94.6

WNU8_H517 951 4468 208 glotblastn

036 3

94.6

WNU8_H518 wheatll2v3IAL820214 952 4469 208 glotblastn

3

WNU8_H103 prunus_mumell3vl lAJ533915_P

953 4470 208 94.6 globlastp 6 1

abiesll lv2ISRR098676X101737

WNU8_H519 954 4471 208 94.6 globlastp

_P1

amorphophallusll lv2ISRR08935

WNU8_H520 955 4472 208 94.6 globlastp

1X106775_P1

WNU8_H521 applell lvllCN860744_Pl 956 4473 208 94.6 globlastp

WNU8_H522 artemisiallOvl IEY037542_P1 957 4474 208 94.6 globlastp euonymus 111 v 11 SRR070038X10

WNU8_H523 958 4475 208 94.6 globlastp

0853_P1

euonymus 111 v 11 SRR070038X11

WNU8_H524 959 4476 208 94.6 globlastp

282_P1

WNU8_H525 euphorbiall lvllAW862626_Pl 960 4477 208 94.6 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H526 flaxll lvllCA482954_Pl 961 4478 208 94.6 globlastp

WNU8_H527 flaxll lvllCV478249_Pl 962 4478 208 94.6 globlastp ipomoea_batatasll0vl lCB33004

WNU8_H528 963 4479 208 94.6 globlastp

2_P1

WNU8_H529 ipomoea_nilll0vl lBJ553094_Pl 964 4480 208 94.6 globlastp

WNU8_H530 loliuml 1 Ov 11 AU245749_P 1 965 4481 208 94.6 globlastp

WNU8_H531 loliumll0vllDT669536_Pl 966 4482 208 94.6 globlastp milletllOvl IEVO454PM009336_

WNU8_H532 967 4483 208 94.6 globlastp

PI

WNU8_H533 oiLpalml l lvl IEL608609_P1 968 4484 208 94.6 globlastp oil_palmll lvl lEL681356XXl_P

WNU8_H534 969 4485 208 94.6 globlastp

1

phalaenopsisll lvl lSRR125771.1

WNU8_H535 970 4486 208 94.6 globlastp

013977_P1

WNU8_H536 poplarll0vl lAI161649 971 4487 208 94.6 globlastp pseudotsugal 1 Ov 1 ISRR065119S0

WNU8_H537 972 4488 208 94.6 globlastp

000257

WNU8_H538 spikemosslgbl65IDN839525 973 4489 208 94.6 globlastp trigonellal l lvl ISRR066194X 137

WNU8_H539 974 4490 208 94.6 globlastp

675

trigonellal l lvl ISRR066194X 154

WNU8_H540 975 4490 208 94.6 globlastp

517

tripterygiumll 1 vl ISRR098677X

WNU8_H541 976 4491 208 94.6 globlastp

101761

94.4

WNU8_H536 poplarll3vl lAI161506_Tl 977 4492 208 glotblastn

1 b Junceal 12v 1 IE6 ANDIZ01 AON 94.4

WNU8_H542 978 4493 208 glotblastn

BV_T1 1 canolal l lvl ISRR329671.156242 94.4

WNU8_H543 979 4494 208 glotblastn

_ 1 1

94.4

WNU8_H544 cichoriumlgb 1711 AY378166_T 1 980 4495 208 glotblastn

1

94.4

WNU8_H545 lotusl09vl lBP070850_Tl 981 4496 208 glotblastn

1

94.4

WNU8_H546 oil_palmll lvl lEB643526_Tl 982 4497 208 glotblastn

1 primulall lvllSRR098679Xl 130 94.4

WNU8_H547 983 4498 208 glotblastn

06_T1 1 scabiosall lvllSRR063723X103 94.4

WNU8_H548 984 4499 208 glotblastn

333 1

94.4

WNU8_H549 sugarcanell0vl lAF281361 985 4500 208 glotblastn

1

94.4

WNU8_H550 tomatoll lvl lAI773886 986 4501 208 glotblastn

1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H103 beanll2v2ISRR001336.212815_

987 4502 208 94.4 globlastp 7 PI

WNU8_H103 monkeyflower 112v 1 ID V207107_

988 4503 208 94.4 globlastp 8 PI

WNU8_H103 monkeyflowerl 12vl IDV207353_

989 4503 208 94.4 globlastp 9 PI

WNU8_H104 monkeyflowerl 12vl IDV208772_

990 4503 208 94.4 globlastp 0 PI

abiesll lv2ISRR098676X100568

WNU8_H551 991 4504 208 94.4 globlastp

_P1

WNU8_H552 amborellal 12v3 ICK749009_P 1 992 4505 208 94.4 globlastp

WNU8_H554 cacaoll0vllCA795371_Pl 993 4506 208 94.4 globlastp cannabisll2vllSOLX00017332_

WNU8_H555 994 4507 208 94.4 globlastp

PI

WNU8_H556 catharanthusll lvllEG554695_Pl 995 4508 208 94.4 globlastp

WNU8_H557 catharanthusll lvllEG555941_Pl 996 4508 208 94.4 globlastp

WNU8_H558 catharanthusll lvllEG557697_Pl 997 4508 208 94.4 globlastp cedrusl 11 v 1 ISRR065007X 10019

WNU8_H559 998 4509 208 94.4 globlastp

9_P1

cedrusl 11 v 1 ISRR065007X 10026

WNU8_H560 999 4509 208 94.4 globlastp

_P1

WNU8_H561 cottonll lvllBF268921_Pl 1000 4510 208 94.4 globlastp

WNU8_H562 cottonl 11 v 1 IBF269646_P1 1001 4510 208 94.4 globlastp euonymus 111 v 11 SRR070038X10

WNU8_H563 1002 4511 208 94.4 globlastp

0282_P1

euonymus 111 v 11 SRR070038X10

WNU8_H564 1003 4511 208 94.4 globlastp

269_P1

euonymus 111 v 11 SRR070038X10

WNU8_H565 1004 4511 208 94.4 globlastp

3854_P1

euonymus 111 v 11 SRR070038X10

WNU8_H566 1005 4511 208 94.4 globlastp

4549_P1

euonymus 111 v 11 SRR070038X10

WNU8_H567 1006 4511 208 94.4 globlastp

6777_P1

euonymus 111 v 11 SRR070038X11

WNU8_H568 1007 4511 208 94.4 globlastp

1303_P1

euonymus 111 v 11 SRR070038X11

WNU8_H569 1008 4511 208 94.4 globlastp

5972_P1

WNU8_H570 euphorbial 11 v 11 AW862613_P1 1009 4512 208 94.4 globlastp euphorbiall lvllSRR098678X10

WNU8_H571 1010 4513 208 94.4 globlastp

2266_P1

fraxinusl 11 vl ISRR058827.10210

WNU8_H572 1011 4514 208 94.4 globlastp

2_P1

fraxinusl 11 vl ISRR058827.10899

WNU8_H573 1012 4515 208 94.4 globlastp

7_P1

WNU8_H574 gnetumll0vllCB082379_Pl 1013 4516 208 94.4 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H575 heveall0vl lEC601487_Pl 1014 4517 208 94.4 globlastp

WNU8_H576 lettucell2vl ICV700260_P1 1015 4518 208 94.4 globlastp maritime_pinel 1 Ov 11 AL749939_

WNU8_H577 1016 4519 208 94.4 globlastp

PI

WNU8_H578 melonl 1 Ov 1 ID V631424_P 1 1017 4520 208 94.4 globlastp

WNU8_H579 monkeyflowerl lOvl IDV205853 1018 4503 208 94.4 globlastp

WNU8_H580 monkeyflower 11 Ov 1 ID V207107 1019 4503 208 94.4 globlastp

WNU8_H581 nasturtiuml 11 vl IGH163859_P1 1020 4521 208 94.4 globlastp

WNU8_H582 oatll lvl lG0582886_Pl 1021 4522 208 94.4 globlastp

WNU8_H583 pepperll2vllBM063862_Pl 1022 4523 208 94.4 globlastp phalaenopsisll lvl lSRR125771.1

WNU8_H584 1023 4524 208 94.4 globlastp

001018_P1

WNU8_H585 pinell0v2IH75081_Pl 1024 4525 208 94.4 globlastp podocarpusll0vllSRR065014S0

WNU8_H586 1025 4526 208 94.4 globlastp

002906_P1

WNU8_H587 prunusll0vl lAJ533915 1026 4527 208 94.4 globlastp pseudotsugall0vllGFXAY83255

WNU8_H588 1027 4528 208 94.4 globlastp

7X1

pteridiumll lvl lSRR043594X10

WNU8_H589 1028 4529 208 94.4 globlastp

2541

pteridiumll lvl lSRR043594X10

WNU8_H590 1029 4530 208 94.4 globlastp

4777

WNU8_H591 salviall0vl lFJ858191 1030 4531 208 94.4 globlastp sequoiall0vl lSRR065044S0007

WNU8_H592 1031 4532 208 94.4 globlastp

394

WNU8_H593 spikemosslgb 165 IFE440656 1032 4533 208 94.4 globlastp

WNU8_H594 sprucell lvllES875403 1033 4534 208 94.4 globlastp tabernaemontanall lvl lSRR0986

WNU8_H595 1034 4535 208 94.4 globlastp

89X100678

trigonellall lvllSRR066194X742

WNU8_H596 1035 4536 208 94.4 globlastp

67

tripterygiumll 1 vl ISRR098677X

WNU8_H597 1036 4537 208 94.4 globlastp

107031

valerianal 11 vl ISRR099039X 100

WNU8_H598 1037 4538 208 94.4 globlastp

438

WNU8_H599 watermelonl 11 v 11 AB029104 1038 4539 208 94.4 globlastp

WNU8_H600 watermelonl 11 v 1 ICK700722 1039 4539 208 94.4 globlastp amorphophallusll lv2ISRR08935 94.2

WNU8_H601 1040 4540 208 glotblastn

1X100293_T1 2

94.2

WNU8_H602 ryell2vllDRR001013.151108 1041 4541 208 glotblastn

1

WNU8_H104

chickpeal 13v2IGR915502_P1 1042 4542 208 94.2 globlastp 1

WNU8_H104 chickpeal 13v2ISRRl 33517.1118

1043 4542 208 94.2 globlastp 2 03_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H104 oleall3vllSRR014463X11728D

1044 4543 208 94.2 globlastp

3 1_P1

WNU8_H104 prunus_mumell3vl lBU045587_

1045 4544 208 94.2 globlastp 4 PI

WNU8_H104 prunus_mumell3vl lSRR345679.

1046 4545 208 94.2 globlastp 5 95461_P1

WNU8_H603 amborellal 12v3 IC0997427_P 1 1047 4546 208 94.2 globlastp amorphophallusll lv2ISRR08935

WNU8_H604 1048 4547 208 94.2 globlastp

1X10941_P1

arnicall lvl lSRR099034X10003

WNU8_H605 1049 4548 208 94.2 globlastp

2_P1

arnicall lvl lSRR099034X10033

WNU8_H606 1050 4549 208 94.2 globlastp

5_P1

arnicall lvl lSRR099034X10388

WNU8_H607 1051 4550 208 94.2 globlastp

8_P1

arnicall lvl ISRR099034X11664

WNU8_H608 1052 4550 208 94.2 globlastp

3_P1

WNU8_H609 catharanthusll lvllEG554541_Pl 1053 4551 208 94.2 globlastp

WNU8_H610 chickpeall lvl lGR915502 1054 4552 208 94.2 glotblastn euonymus 111 v 11 SRR070038X43

WNU8_H611 1055 4553 208 94.2 globlastp

550_P1

WNU8_H612 lettucell2vl lDW046184_Pl 1056 4554 208 94.2 globlastp

WNU8_H613 medicagoll2vl lAW684157_Pl 1057 4555 208 94.2 globlastp

WNU8_H614 oleall lvllSRR014463.10556 1058 4556 208 94.2 globlastp phalaenopsisll lvl lCK857786_P

WNU8_H615 1059 4557 208 94.2 globlastp

1

poppyll lvllSRR096789.104983

WNU8_H616 1060 4558 208 94.2 globlastp

_P1

primulall lvllSRR098679X1011

WNU8_H617 1061 4559 208 94.2 globlastp

31_P1

WNU8_H618 prunusll0vl lBU045587 1062 4560 208 94.2 globlastp

WNU8_H619 rosell2vllBQ106350 1063 4561 208 94.2 globlastp

WNU8_H620 rosell2vllSRR397984.101837 1064 4562 208 94.2 globlastp scabiosall lvllSRR063723X101

WNU8_H621 1065 4563 208 94.2 globlastp

062

WNU8_H622 strawberryll lvl lCO382086 1066 4564 208 94.2 globlastp

WNU8_H623 sunflower 112v 1 IEL418188 1067 4565 208 94.2 globlastp thalictruml 11 v 11 SRR096787X 10

WNU8_H624 1068 4566 208 94.2 globlastp

0511

WNU8_H625 triphysariall0vl lBM356801 1069 4567 208 94.2 globlastp

WNU8_H626 triphysarial 1 Ov 1 IDR 174744 1070 4568 208 94.2 globlastp valerianall lvl ISRR099039X115

WNU8_H627 1071 4569 208 94.2 globlastp

328

WNU8_H628 vincall lvl lSRR098690X100355 1072 4570 208 94.2 globlastp

WNU8_H629 vincall lvl lSRR098690X100729 1073 4571 208 94.2 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

watermelonll lvllBTM17968633

WNU8_H630 1074 4572 208 94.2 globlastp

162350

WNU8_H500, oleal 13 v 1 ISRRO 14463X 10146D

1075 4556 208 94.2 globlastp WNU8_H614 1_P1

WNU8_H610, chickpeall3v2ISRR133517.1208

1076 4542 208 94.2 globlastp WNU8_H997 98_P1

WNU8_H104 94.1

switchgrassll2vl lFL854656_Tl 1077 4573 208 glotblastn 6 8

ambrosial l lvl lSRR346935.1946 94.1

WNU8_H631 1078 4574 208 glotblastn

19_T1 8 b Junceal 12v 1 IE6 ANDIZO 1 A09 94.1

WNU8_H632 1079 4575 208 glotblastn

HC_T1 8 b Junceal 12v 1 IE6 ANDIZO 1 B A8 94.1

WNU8_H633 1080 4576 208 glotblastn

3M_T1 8 beechl 11 vl ISRR006293.20105_ 94.1

WNU8_H634 1081 4577 208 glotblastn

Tl 8

94.1

WNU8_H635 castorbeanll lvl lRCPRD029589 1082 4578 208 glotblastn

8 gossypium_raimondiill2vllGRl 94.1

WNU8_H636 1083 4579 208 glotblastn

2V1PRD009747_T1 8 phalaenopsisll lvl lCB032056_T 94.1

WNU8_H637 1084 4580 208 glotblastn

1 8 poppyll lvllSRR030267.285961 94.1

WNU8_H638 1085 4581 208 glotblastn

_ 1 8 gossypium_raimondiil 12v 11 SRR 94.0

WNU8_H639 1086 4582 208 glotblastn

032367.1025615_T1 1 ambrosial 11 vl ISRR346943.1007

WNU8_H640 1087 4583 208 94 globlastp

46_P1

WNU8_H641 aquilegial 10v2IDR920295_Pl 1088 4584 208 94 globlastp arnicall lvl lSRR099034X10078

WNU8_H642 1089 4585 208 94 globlastp

9_P1

b Junceal 12v 1 IE6 ANDIZO 1 A00

WNU8_H643 1090 4586 208 94 globlastp

QZ_P1

b Junceal 12v 1 IE6 ANDIZO 1 A04

WNU8_H644 1091 4586 208 94 globlastp

RE_P1

b Junceal 12v 1 IE6 ANDIZO 1 A05I

WNU8_H645 1092 4587 208 94 globlastp

7_P1

b Junceal 12v 1 IE6 ANDIZO 1 AOD

WNU8_H646 1093 4586 208 94 globlastp

RC_P1

b Junceal 12v 1 IE6 ANDIZO 1 A 1 Q

WNU8_H647 1094 4586 208 94 globlastp

2C_P1

b Junceal 12v 1 IE6 ANDIZO 1 A 1 T

WNU8_H648 1095 4586 208 94 globlastp

4L_P1

b Junceal 12v 1 IE6 ANDIZO 1 A2Y

WNU8_H649 1096 4586 208 94 globlastp

FN_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

b Junceal 12v 1 IE6 ANDIZO 1 A3X

WNU8_H650 1097 4586 208 94 globlastp

GA_P1

b Junceal 12v 1 IE6 ANDIZO 1 A4T

WNU8_H651 1098 4586 208 94 globlastp

RW1_P1

b Junceal 12v 1 IE6 ANDIZO 1 A4T

WNU8_H652 1099 4586 208 94 globlastp

V2_P1

b Junceal 12v 1 IE6 ANDIZO 1 A60

WNU8_H653 1100 4586 208 94 globlastp

5I_P1

b Junceal 12v 1 IE6 ANDIZO 1 A71

WNU8_H654 1101 4586 208 94 globlastp

DP_P1

b Junceal 12v 1 IE6 ANDIZO 1 A7U

WNU8_H655 1102 4586 208 94 globlastp

YD_P1

b Junceal 12v 1 IE6 ANDIZO 1A8E

WNU8_H656 1103 4586 208 94 globlastp

X1_P1

b J unceal 12v 1 IE6 ANDIZO 1 A98

WNU8_H657 1104 4586 208 94 globlastp

K5_P1

b Junceal 12v 1 IE6 ANDIZO 1 AES

WNU8_H658 1105 4586 208 94 globlastp

P5_P1

b Junceal 12v 1 IE6 ANDIZO 1 A06

WNU8_H659 1106 4586 208 94 globlastp

V5_P1

b Junceal 12v 1 IE6 ANDIZO 1 AR2

WNU8_H660 1107 4586 208 94 globlastp

C5_P1

WNU8_H661 b_rapall lvllBG543067_Pl 1108 4586 208 94 globlastp

WNU8_H662 b_rapall lvllBG543807_Pl 1109 4586 208 94 globlastp

WNU8_H663 b_rapall lvllBNU21744_Pl 1110 4586 208 94 globlastp

WNU8_H664 b_rapall lvllBQ791801_Pl 1111 4586 208 94 globlastp

WNU8_H665 b_rapall lvllCD813870_Pl 1112 4586 208 94 globlastp

WNU8_H666 b_rapall lvllL38205_Pl 1113 4586 208 94 globlastp

WNU8_H667 canolall lvllAI352739_Pl 1114 4586 208 94 globlastp

WNU8_H668 canolall lvllCB331912_Pl 1115 4586 208 94 globlastp

WNU8_H669 canolall lvllCN726590_Pl 1116 4586 208 94 globlastp

WNU8_H670 canolall lvllCN729818_Pl 1117 4586 208 94 globlastp

WNU8_H671 canolal 11 v 1 ICN729909_P1 1118 4586 208 94 globlastp

WNU8_H672 canolall lvllCN730343_Pl 1119 4586 208 94 globlastp

WNU8_H673 canolall lvllCN730658_Pl 1120 4586 208 94 globlastp

WNU8_H674 canolall lvllCN730882_Pl 1121 4586 208 94 globlastp

WNU8_H675 canolall lvllCN735190_Pl 1122 4586 208 94 globlastp

WNU8_H676 canolall lvllCN735423_Pl 1123 4586 208 94 globlastp

WNU8_H677 canolall lvllCN826026XXl_Pl 1124 4586 208 94 globlastp

WNU8_H678 canolall lvllCN826539_Pl 1125 4586 208 94 globlastp

WNU8_H679 canolal 1 lvllCN827011_P1 1126 4586 208 94 globlastp

WNU8_H680 canolall lvllCN827537_Pl 1127 4586 208 94 globlastp

WNU8_H681 canolall lvllCN828604_Pl 1128 4586 208 94 globlastp

WNU8_H682 canolal l lvllDY001542_Pl 1129 4586 208 94 globlastp

WNU8_H683 canolal 11 v 1 ID Y002283_P 1 1130 4586 208 94 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H684 canolall lvllDY010813_Pl 1131 4586 208 94 globlastp

WNU8_H685 canolall lvllEE476856_Pl 1132 4586 208 94 globlastp

WNU8_H686 canolall lvllEE551290_Pl 1133 4586 208 94 globlastp

WNU8_H687 canolal 11 v 1 IEG020415_P1 1134 4586 208 94 globlastp canolall lvllSRR019557.37092_

WNU8_H688 1135 4586 208 94 globlastp

PI

distyliuml 11 vl ISRR065077X 100

WNU8_H689 1136 4588 208 94 globlastp

439_P1

epimediuml 11 vl ISRR013502.10

WNU8_H690 1137 4589 208 94 globlastp

405_P1

euonymus 111 v 11 SRR070038X10

WNU8_H691 1138 4590 208 94 globlastp

1785_P1

euonymus 111 v 11 SRR070038X10

WNU8_H692 1139 4591 208 94 globlastp

3768_P1

WNU8_H693 marchantialgbl66IBJ841010_Pl 1140 4592 208 94 globlastp nasturtiumll lvl lSRR032558.348

WNU8_H694 1141 4593 208 94 globlastp

984_P1

WNU8_H695 oatll lvl lCN816326_Pl 1142 4594 208 94 globlastp

WNU8_H696 oatll lvl lG0584378_Pl 1143 4595 208 94 globlastp

WNU8_H697 oatll lvl lG0586922_Pl 1144 4594 208 94 globlastp

WNU8_H698 oatll lvl lGR313243_Pl 1145 4594 208 94 globlastp

WNU8_H699 oatll lvl lGR313302_Pl 1146 4595 208 94 globlastp

WNU8_H700 oatll lvl lGR313710_Pl 1147 4594 208 94 globlastp

WNU8_H701 poplarll0vl lAI166447 1148 4596 208 94 globlastp sequoiall0vl lSRR065044S0000

WNU8_H702 1149 4597 208 94 globlastp

261

taxusll0vl lSRR032523S000759

WNU8_H703 1150 4598 208 94 globlastp

7

WNU8_H723 poplarll3vl lAI162399_Pl 1151 4599 208 94 globlastp

WNU8_H724 poplarll3vl lAI165649_Pl 1152 4600 208 94 globlastp

93.9

WNU8_H704 prunusll0vl lCN917657 1153 4601 208 glotblastn

9

WNU8_H104 chickpeall3v2ISRR133517.1201 93.9

1154 4602 208 glotblastn 7 08_T1 7

93.9

WNU8_H705 castorbeanl 11 vl IRCPRD007088 1155 4603 208 glotblastn

7 b Junceal 12v 1 IE6 ANDIZ01 AES 93.9

WNU8_H706 1156 4604 208 glotblastn

GE_T1 6

93.9

WNU8_H707 bananall2vl lFL657364_Tl 1157 4605 208 glotblastn

6 fraxinusl 11 vl ISRR058827.10263 93.9

WNU8_H708 1158 4606 208 glotblastn

3XX1_T1 6

93.9

WNU8_H709 maizel lOvl IFL097864_T1 1159 4607 208 glotblastn

6 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

cephalotaxusll lvllSRR064395X

WNU8_H733 1188 4633 208 93.7 globlastp

100427_P1

euonymus 111 v 11 SRR070038X17

WNU8_H734 1189 4634 208 93.7 globlastp

6037_P1

gnetumi 1 Ov 1 ISRR064399S00014

WNU8_H735 1190 4635 208 93.7 globlastp

49_P1

oiLpalml 11 v 1 IES414440XX 1 _P

WNU8_H736 1191 4636 208 93.7 globlastp

1

sciadopitysll0vl lSRR065035S00

WNU8_H737 1192 4637 208 93.7 globlastp

00206

WNU8_H738 spruce 111 v 11 SRR064180X 11301 1193 4638 208 93.7 globlastp tripterygiumll 1 vl ISRR098677X

WNU8_H739 1194 4639 208 93.7 globlastp

101200

WNU8_H740 zosterall0vl lAM766058 1195 4632 208 93.7 globlastp

93.5

WNU8_H741 eucalyptusll lv2ICU397481_Tl 1196 4640 208 glotblastn

4 thellungiella_halophilumll lvl ID 93.5

WNU8_H742 1197 4641 208 glotblastn

N776912 4 aquilegial 10v2ICRPAC006620_ 93.5

WNU8_H743 1198 4642 208 glotblastn

Tl 1

93.5

WNU8_H744 b_rapall lvllAM395184_Tl 1199 4643 208 glotblastn

1

93.5

WNU8_H745 b_rapall lvllCX190853_Tl 1200 4644 208 glotblastn

1

93.5

WNU8_H746 b_rapall lvllL37459_Tl 1201 4645 208 glotblastn

1

93.5

WNU8_H747 cacaoll0vllCRPTC024018_Tl 1202 4646 208 glotblastn

1 ceratodonll0vllSRR074890S007 93.5

WNU8_H748 1203 4647 208 glotblastn

3885_T1 1

93.5

WNU8_H749 oatll lvl lCN818507_Tl 1204 4648 208 glotblastn

1 primulall lvllSRR098679X2211 93.5

WNU8_H750 1205 4649 208 glotblastn

86_T1 1 primulall lvllSRR098682Xl 156 93.5

WNU8_H751 1206 4650 208 glotblastn

82_T1 1

93.5

WNU8_H752 tomatoll lvl lBI919315 1207 4651 208 glotblastn

1

WNU8_H105 oleal 13 v 1 ISRR014463X22600D

1208 4652 208 93.5 globlastp 2 1_P1

ceratodonll0vllSRR074890S000

WNU8_H753 1209 4653 208 93.5 globlastp

3758_P1

ceratodonll0vllSRR074890S000

WNU8_H754 1210 4653 208 93.5 globlastp

4771_P1

ceratodonll0vllSRR074890S000

WNU8_H755 1211 4653 208 93.5 globlastp

5849_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

ceratodonll0vllSRR074890S000

WNU8_H756 1212 4653 208 93.5 globlastp

6087_P1

ceratodonll0vllSRR074890S001

WNU8_H757 1213 4653 208 93.5 globlastp

8183_P1

ceratodonll0vllSRR074890S002

WNU8_H758 1214 4653 208 93.5 globlastp

0766_P1

ceratodonll0vllSRR074890S002

WNU8_H759 1215 4653 208 93.5 globlastp

7994_P1

ceratodonll0vllSRR074890S003

WNU8_H760 1216 4653 208 93.5 globlastp

1249_P1

ceratodonll0vllSRR074890S003

WNU8_H761 1217 4653 208 93.5 globlastp

3316_P1

ceratodonll0vllSRR074890S004

WNU8_H762 1218 4653 208 93.5 globlastp

6096_P1

ceratodonll0vllSRR074890S004

WNU8_H763 1219 4653 208 93.5 globlastp

8907_P1

ceratodonll0vllSRR074890S038

WNU8_H764 1220 4653 208 93.5 globlastp

6187_P1

ceratodonll0vllSRR074890S053

WNU8_H765 1221 4653 208 93.5 globlastp

7086_P1

ceratodonll0vllSRR074890S064

WNU8_H766 1222 4653 208 93.5 globlastp

8778_P1

ceratodonll0vllSRR074890S065

WNU8_H767 1223 4653 208 93.5 globlastp

3196_P1

ceratodonll0vllSRR074890S068

WNU8_H768 1224 4653 208 93.5 globlastp

0883_P1

ceratodonll0vllSRR074890S127

WNU8_H769 1225 4653 208 93.5 globlastp

5775_P1

ceratodonll0vllSRR074890S128

WNU8_H770 1226 4653 208 93.5 globlastp

4354_P1

ceratodonl 1 Ov 1 ISRR074890S 134

WNU8_H771 1227 4653 208 93.5 globlastp

9436_P1

ceratodonll0vllSRR074890S177

WNU8_H772 1228 4653 208 93.5 globlastp

8058_P1

ceratodonl 1 Ov 1 ISRR074891 S098

WNU8_H773 1229 4653 208 93.5 globlastp

4886_P1

cucumber I09v 1 ICSCRPO 10330_

WNU8_H774 1230 4654 208 93.5 globlastp

PI

WNU8_H775 eucalyptusl 11 v2ICT981337_P1 1231 4655 208 93.5 globlastp fraxinusl 11 vl ISRR058827.10011

WNU8_H776 1232 4656 208 93.5 globlastp

_P1

WNU8_H777 marchantialgb 166IC96106_P 1 1233 4657 208 93.5 globlastp

WNU8_H778 medicagoll2vl lAW329865_Pl 1234 4658 208 93.5 globlastp oiLpalml 11 v 1 ISRR 190698.1041

WNU8_H779 1235 4659 208 93.5 globlastp

32_P1

WNU8_H780 oleal 11 v 1 ISRR014463.17060 1236 4660 208 93.5 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

oleal 13 v 1 ISRRO 14463X 17060D

WNU8_H780 1237 4661 208 93.5 globlastp

1_P1

WNU8_H781 poplarll0vl lAI164318 1238 4662 208 93.5 globlastp

WNU8_H781 poplarll3vl lAI164318_Pl 1239 4663 208 93.5 globlastp primulall lvllSRR098679X1040

WNU8_H782 1240 4664 208 93.5 globlastp

33_P1

WNU8_H783 sprucell lvllES253909 1241 4665 208 93.5 globlastp thalictruml 11 v 11 SRR096787X 10

WNU8_H784 1242 4666 208 93.5 globlastp

2731

poppy 1 l lvl ISRR030259.121454

WNU8_H785 1243 4667 208 93.4 globlastp

_P1

eucalyptusll lv2IEGPRD011768 93.3

WNU8_H786 1244 4668 208 glotblastn

_ 1 2

93.3

WNU8_H787 grapell lvllEC980496_Tl 1245 4669 208 glotblastn

2 amsoniall lvllSRR098688X1005

WNU8_H788 1246 4670 208 93.3 globlastp

19_P1

ceratodonll0vllSRR074890S000

WNU8_H789 1247 4671 208 93.3 globlastp

9629_P1

maritime_pine 11 Ov 1 IBX249171 _

WNU8_H790 1248 4672 208 93.3 globlastp

PI

WNU8_H791 peanutll0vl lCD038687_Pl 1249 4673 208 93.3 globlastp physcomitrellal 1 Ov 1 IB J 164066_

WNU8_H792 1250 4674 208 93.3 globlastp

PI

taxusll0vl lSRR032523S003945

WNU8_H793 1251 4675 208 93.3 globlastp

3

tripterygiumll 1 vl ISRR098677X

WNU8_H794 1252 4676 208 93.3 globlastp

103442

watermelonl l lvl 1 VMEL000738

WNU8_H795 1253 4677 208 93.3 globlastp

38482395

WNU8_H105 prunus_mumel 13vl 1 AM289924_ 93.2

1254 4678 208 glotblastn 3 Tl 9

93.2

WNU8_H796 cacaoll0vllCU507521_Tl 1255 4679 208 glotblastn

9 ceratodonll0vllSRR074890S000 93.2

WNU8_H797 1256 4680 208 glotblastn

1781_T1 9 ceratodonll0vllSRR074890S000 93.2

WNU8_H798 1257 4681 208 glotblastn

7932_T1 9 ceratodonll0vllSRR074890S002 93.2

WNU8_H799 1258 4682 208 glotblastn

0356_T1 9 euphorbiall lvllSRR098678X10 93.2

WNU8_H800 1259 4683 208 glotblastn

3383_T1 9 fraxinusl 11 vl ISRR058827.10528 93.2

WNU8_H801 1260 4684 208 glotblastn

6_T1 9

93.2

WNU8_H802 oatll lvl lG0581582_Tl 1261 4685 208 glotblastn

9 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

ambrosial 11 vl ISRR346949.1678

WNU8_H803 1262 4686 208 93.1 glotblastn

91_T1

WNU8_H804 b_rapall lvllL47954_Pl 1263 4687 208 93.1 globlastp

WNU8_H805 bruguieralgbl66IAB073629_Pl 1264 4688 208 93.1 globlastp distyliuml 11 vl ISRR065077X 104

WNU8_H806 1265 4689 208 93.1 globlastp

496_P1

milletllOvl IEVO454PM002208_

WNU8_H807 1266 4690 208 93.1 globlastp

PI

sciadopitysll0vl lSRR065035S00

WNU8_H808 1267 4691 208 93.1 globlastp

01689

WNU8_H809 spikemosslgb 165 IFE427444 1268 4692 208 93.1 globlastp

93.0

WNU8_H810 ambrosiall lvl lGW917875_Tl 1269 4693 208 glotblastn

6 ambrosial 11 vl ISRR346935.1077 93.0

WNU8_H811 1270 4694 208 glotblastn

82_T1 6 canolall lvllSRR329670.105751 93.0

WNU8_H812 1271 4695 208 glotblastn

_ 1 6 ceratodonll0vllSRR074890S003 93.0

WNU8_H813 1272 4696 208 glotblastn

4678_T1 6 ceratodonll0vllSRR074890S047 93.0

WNU8_H814 1273 4697 208 glotblastn

6895_T1 6 poppy 111 v 1 ISRR030259.112775 93.0

WNU8_H815 1274 4698 208 glotblastn

_ 1 6

WNU8_H816 beanl 12v 1 IPVPRD017895 1275 4699 208 92.9 glotblastn

WNU8_H817 canolal 11 v 1 ID Y006918_P 1 1276 4700 208 92.9 globlastp flaveriall lvl lSRR149232.10690

WNU8_H818 1277 4701 208 92.9 globlastp

1_P1

92.8

WNU8_H819 b_rapal 11 v 1 ICX271716_T 1 1278 4702 208 glotblastn

9 flaveriall lvl lSRR149229.10363 92.8

WNU8_H820 1279 4703 208 glotblastn

_ 1 6 ceratodonll0vllSRR074890S000 92.8

WNU8_H821 1280 4704 208 glotblastn

9329_T1 4 ceratodonll0vllSRR074890S007 92.8

WNU8_H822 1281 4705 208 glotblastn

1772_T1 4 fraxinusl 11 vl ISRR058827.10556 92.8

WNU8_H823 1282 4706 208 glotblastn

2_T1 4

WNU8_H824 oil_palmll lvl lES273650_Pl 1283 4707 208 92.8 globlastp physcomitrellall0vllAW126661

WNU8_H825 1284 4708 208 92.8 globlastp

_P1

physcomitrellal 1 Ov 1 IAW145494

WNU8_H826 1285 4708 208 92.8 globlastp

_P1

physcomitrellall0vllAW509897

WNU8_H827 1286 4708 208 92.8 globlastp

_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

physcomitrellall0vllAW738891

WNU8_H828 1287 4709 208 92.8 globlastp

_P1

ceratodonll0vllSRR074890S060

WNU8_H829 1288 4710 208 92.7 globlastp

9797_P1

WNU8_H830 milletll0vl lCD725988_Pl 1289 4711 208 92.7 globlastp pseudotsugall0vllGFXAY83255

WNU8_H831 1290 4712 208 92.7 glotblastn

6X1

WNU8_H105 chickpeall3v2ISRR133517.2494 92.6

1291 4713 208 glotblastn 4 66_T1 8

ceratodonll0vllSRR074890S000 92.6

WNU8_H832 1292 4714 208 glotblastn

5119_T1 2 cucurbital 11 v 1 ISRR091276X 121 92.6

WNU8_H833 1293 4715 208 glotblastn

433_T1 2 fraxinusl 11 vl ISRR058827.10879 92.6

WNU8_H834 1294 4716 208 glotblastn

_ 1 2 phalaenopsisll lvl lCB031989_T 92.6

WNU8_H835 1295 4717 208 glotblastn

1 2 poppy 111 v 1 ISRR030263.430570 92.6

WNU8_H836 1296 4718 208 glotblastn

_ 1 2 physcomitrellal 1 Ov 11 AJ225418_

WNU8_H837 1297 4719 208 92.6 globlastp

PI

physcomitrellall0vllAW145551

WNU8_H838 1298 4719 208 92.6 globlastp

_P1

physcomitrellal 1 Ov 1 IB J 160016_

WNU8_H839 1299 4720 208 92.6 globlastp

PI

physcomitrellal 1 Ov 1 IB J 186660_

WNU8_H840 1300 4721 208 92.6 globlastp

PI

WNU8_H841 canolall lvllDY005831_Pl 1301 4722 208 92.4 globlastp

92.3

WNU8_H842 canolal 11 v 1 IEE420703_T 1 1302 4723 208 glotblastn

9 ceratodonll0vllSRR074890S000 92.3

WNU8_H843 1303 4724 208 glotblastn

4170_T1 9

92.3

WNU8_H844 cottonll lvllCO132300_Tl 1304 4725 208 glotblastn

9 phalaenopsisll lvl lSRR125771.1

WNU8_H845 1305 4726 208 92.3 globlastp

377153_P1

ambrosial 11 V1 ISRR346935.2023

WNU8_H846 1306 4727 208 92.2 globlastp

14_P1

WNU8_H847 centaureal 11 v 1 IEH788025_P1 1307 4728 208 92.2 globlastp

WNU8_H848 cucumberl09vllAB029104_Pl 1308 4729 208 92.2 globlastp flaveriall lvl lSRR149229.29419

WNU8_H849 1309 4730 208 92.2 globlastp

3XX2_P1

ceratodonll0vllSRR074890S032

WNU8_H850 1310 4731 208 92 globlastp

7696_P1

ceratodonll0vllSRR074890S000 91.9

WNU8_H851 1311 4732 208 glotblastn

8588_T1 6 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

ambrosial 11 V1 ISRR346935.2473 91.9

WNU8_H852 1312 4733 208 glotblastn

5_T1 5 eschscholziall lvllCD478773_T 91.7

WNU8_H853 1313 4734 208 glotblastn

1 2 ambrosial 11 vl ISRR346935.1001

WNU8_H854 1314 4735 208 91.7 globlastp

97_P1

trigonellal 11 v 1 ISRR066194X 118

WNU8_H855 1315 4736 208 91.7 globlastp

591

ceratodonll0vllSRR074890S001 91.5

WNU8_H856 1316 4737 208 glotblastn

0775_T1 2 poppyll lvllSRR030261.55346_

WNU8_H857 1317 4738 208 91.5 globlastp

PI

ceratodonll0vllSRR074890S010

WNU8_H858 1318 4739 208 91.3 globlastp

4947_P1

WNU8_H859 wheatll2v3IBF201530 1319 4740 208 91.3 globlastp ambrosial 11 V1 ISRR346935.3653 91.2

WNU8_H860 1320 4741 208 glotblastn

78_T1 8 gossypium_raimondiil 12v 1 IBG4 91.2

WNU8_H861 1321 4742 208 glotblastn

45555_T1 8

91.2

WNU8_H862 oakll0vl lDB998061_Tl 1322 4743 208 glotblastn

8

91.2

WNU8_H863 sunflower 112v 1 ICF094003 1323 4744 208 glotblastn

8 flaveriall lvl lSRR149229.18009

WNU8_H864 1324 4745 208 91.1 globlastp

6_P1

WNU8_H865 pteridiumll lvl lGW575201 1325 4746 208 91.1 globlastp

WNU8_H866 ryell2vllDRR001012.135089 1326 4747 208 91.1 globlastp utricularial 11 v 11 SRR094438.100

WNU8_H867 1327 4748 208 90.9 globlastp

291

90.8

WNU8_H868 canolall lvllEE540074_Tl 1328 4749 208 glotblastn

3 ambrosial 11 vl ISRR346935.1229

WNU8_H869 1329 4750 208 90.6 glotblastn

05_T1

WNU8_H870 ryell2vllDRR001012.115547 1330 4751 208 90.6 globlastp ambrosial 11 vl ISRR346943.1324

WNU8_H871 1331 4752 208 90.4 globlastp

29_P1

WNU8_H872 oakll0vl lCU657890_Pl 1332 4753 208 90.4 globlastp artemisial 1 Ovl ISRR019254S003 90.3

WNU8_H873 1333 4754 208 glotblastn

5817_T1 8 gossypium_raimondiil 12v 1 IFE89 90.3

WNU8_H874 1334 4755 208 glotblastn

6850_T1 8 ambrosial 11 vl ISRR346935.1182

WNU8_H875 1335 4756 208 90.3 globlastp

40_P1

WNU8_H876 medicagoll2vl lCB892601_Pl 1336 4757 208 90.3 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

amorphophallusll lv2ISRR08935 90.2

WNU8_H877 1337 4758 208 glotblastn

1X12124_T1 7

WNU8_H878 oatll lvl lGO586059_Pl 1338 4759 208 90.2 globlastp fraxinusl 11 vl ISRR058827.10671 90.1

WNU8_H879 1339 4760 208 glotblastn

5_T1 8

WNU8_H880 aquilegiall0v2IDR926759_Pl 1340 4761 208 89.9 globlastp

89.7

WNU8_H881 b_rapall lvllEE534476_Tl 1341 4762 208 glotblastn

1 strawberryll 1 vl ISRR034859S00 89.7

WNU8_H882 1342 4763 208 glotblastn

01435 1 milletllOvl IEVO454PM023538_

WNU8_H883 1343 4764 208 89.7 globlastp

PI

WNU8_H105 chickpeal 13v2ISRRl 33517.1803 89.6

1344 4765 208 glotblastn 5 4_T1 5

flaveriall lvl lSRR149229.2566_

WNU8_H884 1345 4766 208 89.5 globlastp

PI

89.4

WNU8_H885 millet 11 Ov 1 ICD724605_T 1 1346 4767 208 glotblastn

9 b Junceal 12v 1 IE6 ANDIZO 1 ANL

WNU8_H886 1347 4768 208 89.4 globlastp

2J_P1

WNU8_H887 ryell2vllBE586334 1348 4769 208 89.3 globlastp

WNU8_H888 ryel 12v 1 IDRR001012.109643 1349 4769 208 89.3 globlastp milletl 1 Ovl IEV0454PM261173_ 89.0

WNU8_H889 1350 4770 208 glotblastn

Tl 4

WNU8_H890 canolall lvllCN730466_Pl 1351 4771 208 88.9 globlastp

88.8

WNU8_H891 curcumall0vllDY383453_Tl 1352 4772 208 glotblastn

1

88.8

WNU8_H892 ryel 12v 1 IDRROO 1012.420786 1353 4773 208 glotblastn

1

WNU8_H893 tobaccolgb 1621 AF120093 1354 4774 208 88.7 globlastp

WNU8_H894 canolal 11 v 1 ID Y001946_P 1 1355 4775 208 88.3 globlastp

WNU8_H895 ryell2vllBE494657 1356 4776 208 88.2 globlastp solanum_phurejal09vl ISPHR287 88.1

WNU8_H896 1357 4777 208 glotblastn

25 7

WNU8_H897 cottonll lvllBG447263_Pl 1358 4778 208 88.1 globlastp ceratodonll0vllSRR074890S003 87.9

WNU8_H898 1359 4779 208 glotblastn

8570_T1 7

87.9

WNU8_H899 pinell0v2IAA556685_Tl 1360 4780 208 glotblastn

2

87.9

WNU8_H900 pinell0v2ICD020050_Tl 1361 4780 208 glotblastn

2

WNU8_H901 ryell2vllDRR001012.248566 1362 4781 208 87.9 globlastp

WNU8_H902 oakll0vl lDB998952_Pl 1363 4782 208 87.7 globlastp

87.6

WNU8_H903 wheatll2v3IBI751305 1364 4783 208 glotblastn

9 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H904 wheatll2v3IBE407061 1365 4784 208 87 globlastp poppy 111 v 1 ISRR030265.155045 86.6

WNU8_H905 1366 4785 208 glotblastn

_ 1 7 canolall lvllSRR019559.16344_ 86.5

WNU8_H906 1367 4786 208 glotblastn

Tl 8 arabidopsis_lyratal09vl IJGIALO

WNU8_H907 1368 4787 208 86.5 globlastp

00755_P1

flaveriall lvl lSRR149232.37699 86.4

WNU8_H908 1369 4788 208 glotblastn

_ 1 1 fraxinusl 11 vl ISRR058827.10998

WNU8_H909 1370 4789 208 86.4 globlastp

0_P1

canolall lvllSRROOl 111.56668_ 86.3

WNU8_H910 1371 4790 208 glotblastn

Tl 5

WNU8_H911 wheatll2v3IBE418902 1372 4791 208 86.3 globlastp ceratodonll0vllSRR074890S001 86.1

WNU8_H912 1373 4792 208 glotblastn

3208_T1 3 foxtail_milletll lv3ISIPRD01229 86.1

WNU8_H913 1374 4793 208 glotblastn

8_T1 2 b Junceal 12v 1 IE6 ANDIZO 1 AOS

WNU8_H914 1375 4794 208 86.1 globlastp

LK_P1

WNU8_H915 cottonll lvllES813128_Pl 1376 4795 208 86.1 globlastp milletl 1 Ovl IEVO454PM014933_

WNU8_H916 1377 4796 208 86.1 globlastp

PI

WNU8_H917 wheatll2v3IBE500164 1378 4797 208 86.1 globlastp

WNU8_H918 maizel 1 Ov 1 IBTO 16906_T 1 1379 4798 208 86 glotblastn milletllOvl IEVO454PM094844_

WNU8_H919 1380 4799 208 85.9 globlastp

PI

poppyll lvllSRR096789.106870

WNU8_H920 1381 4800 208 85.9 globlastp

_P1

eschscholzial 11 v 1 ICD479225_P

WNU8_H921 1382 4801 208 85.7 globlastp

1

WNU8_H922 ryell2vllBE705268 1383 4802 208 85.7 globlastp trigonellal 11 v 1 ISRR066195X227

WNU8_H923 1384 4803 208 85.7 globlastp

497

WNU8_H924 oakll0vl lCU639938_Pl 1385 4804 208 85.5 globlastp

WNU8_H105 nicotiana_benthamianal 12v 11 AF 85.3

1386 4805 208 glotblastn 6 154660_T1 4

WNU8_H105

switchgrassll2vl lFE599218_Pl 1387 4806 208 85.2 globlastp 7

eschscholzial 11 v 1 ICD479412_P

WNU8_H925 1388 4807 208 85.2 globlastp

1

WNU8_H926 oakll0vl lFP029259_Pl 1389 4808 208 85.2 globlastp

85.0

WNU8_H927 ryell2vllDRR001013.218454 1390 4809 208 glotblastn

1

WNU8_H928 cottonll lvllBE054260_Pl 1391 4810 208 85 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

eschscholzial 11 v 1 ICV000181_P

WNU8_H929 1392 4811 208 85 globlastp

1

foxtail_milletll lv3IPHY7SI0300

WNU8_H930 1393 4812 208 85 globlastp

42M_P1

flaveriall lvl lSRR149232.10105

WNU8_H931 1394 4813 208 84.9 globlastp

9_P1

flaveriall lvl lSRR149232.11379

WNU8_H932 1395 4814 208 84.9 globlastp

3_P1

84.8

WNU8_H933 bananall2vl lHQ853243_Tl 1396 4815 208 glotblastn

6 amorphophallusll lv2ISRR08935

WNU8_H934 1397 4816 208 84.8 globlastp

1X102337_P1

flaveriall lvl lSRR149229.12481

WNU8_H935 1398 4817 208 84.8 globlastp

3_P1

milletllOvl IEVO454PM040965_

WNU8_H936 1399 4818 208 84.8 globlastp

PI

poppyll lvllSRR096789.103347

WNU8_H937 1400 4819 208 84.8 globlastp

_P1

thalictruml 11 v 11 SRR096787X 10 84.7

WNU8_H938 1401 4820 208 glotblastn

0429 9

WNU8_H939 ambrosial 11 vl lGR935679_Pl 1402 4821 208 84.6 globlastp ambrosial l lvl lSRR346943.1032

WNU8_H940 1403 4821 208 84.6 globlastp

70_P1

WNU8_H941 pineapplell0vl lDT336013_Pl 1404 4822 208 84.6 globlastp poppyll lvllSRR096789.101574

WNU8_H942 1405 4823 208 84.6 globlastp

_P1

trigonellal 11 v 1 ISRR066194X 102

WNU8_H943 1406 4824 208 84.6 globlastp

555

WNU8_H944 salviall0vl lCV162295 1407 4825 208 84.4 globlastp flaveriall lvl lSRR149229.17662 84.3

WNU8_H945 1408 4826 208 glotblastn

9_T1 4

WNU8_H946 sunflower 112v 1 ICD848771 1409 4827 208 84.2 globlastp eschscholzial 11 vllCD478050_T 84.1

WNU8_H947 1410 4828 208 glotblastn

1 2 primulall lvllSRR098679X1014 84.0

WNU8_H948 1411 4829 208 glotblastn

76_T1 7

WNU8_H105

s witchgras s 112v 1 IDN 142142_P 1 1412 4830 208 83.9 globlastp 8

ambrosial 11 V1 ISRR346935.2587

WNU8_H949 1413 4831 208 83.9 globlastp

94_P1

b Junceal 12v 1 IE6 ANDIZ01 A06 83.8

WNU8_H950 1414 4832 208 glotblastn

P6_T1 9

WNU8_H951 milletllOvl IEB410919_P1 1415 4833 208 83.7 globlastp poppy 111 v 1 ISRR030259.104199

WNU8_H952 1416 4834 208 83.7 globlastp

_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H953 ryell2vllDRR001012.472868 1417 4835 208 83.7 globlastp

WNU8_H954 tobaccolgb 162IEB442628 1418 4836 208 83.7 globlastp ambrosial 11 V1 ISRR346935.2720 83.6

WNU8_H955 1419 4837 208 glotblastn

68_T1 7 phalaenopsisll lvl lSRR125771.1 83.6

WNU8_H956 1420 4838 208 glotblastn

004285_T1 7

83.5

WNU8_H957 canolall lvllEE503309_Tl 1421 4839 208 glotblastn

9

WNU8_H105 poplarll3vl lSRR037106.322926

1422 4840 208 83.5 glotblastn 9 _ 1

utricularial 11 v 11 SRR094438.101

WNU8_H958 1423 4841 208 83.5 globlastp

387

euonymus 111 v 11 SRR070038X11

WNU8_H959 1424 4842 208 83.4 globlastp

029_P1

flaveriall lvl lSRR149232.12187

WNU8_H960 1425 4843 208 83.4 globlastp

5_P1

b Junceal 12v 1 IE6 ANDIZO 1 A3F

WNU8_H961 1426 4844 208 83.3 globlastp

2Z_P1

83.2

WNU8_H962 bananall2vl lES432203_Tl 1427 4845 208 glotblastn

2

83.2

WNU8_H963 wheatll2v3IBQ245085 1428 4846 208 glotblastn

2

WNU8_H106

chickpeal 13v2IGR917090_P1 1429 4847 208 83 globlastp 0

WNU8_H964 ryel 12v 1 IDRR001012.144376 1430 4848 208 83 globlastp

WNU8_H965 ryell2vllDRR001012.167511 1431 4849 208 83 globlastp

WNU8_H966 ryel 12v 1 IDRR001012.727979 1432 4849 208 83 globlastp eschscholzial 11 vl ICD481374_P

WNU8_H967 1433 4850 208 82.8 globlastp

1

primulall lvllSRR098680X1057

WNU8_H968 1434 4851 208 82.8 globlastp

46_P1

ambrosial l lvl lSRR346935.1108 82.7

WNU8_H969 1435 4852 208 glotblastn

94_T1 7 cephalotaxusll lvllSRR064395X

WNU8_H970 1436 4853 208 82.6 globlastp

10013_P1

euonymus 111 v 11 SRR070038X10

WNU8_H971 1437 4854 208 82.6 globlastp

3334_P1

WNU8_H972 pineapplell0vl lDT335789_Pl 1438 4855 208 82.6 globlastp

WNU8_H106 switchgrassll2vl lPVJGIV80510 82.5

1439 4856 208 glotblastn 1 00_T1 5

chelidoniuml 11 vl ISRR084752X

WNU8_H973 1440 4857 208 82.1 glotblastn

107771_T1

WNU8_H974 curcumall0vllDY388837_Pl 1441 4858 208 82.1 globlastp

WNU8_H975 ryel 12vllBF 146130 1442 4859 208 82.1 globlastp

WNU8_H976 vincall lvl lSRR098690X100048 1443 4860 208 82.1 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU8_H106 chickpeall3v2ISRR133517.7283 82.0

1444 4861 208 glotblastn 2 25_T1 3

WNU8_H106 chickpeall3v2ISRR133517.1159 81.9

1445 4862 208 glotblastn 3 _ 1 7

eschscholziall lvllCD476820_P

WNU8_H977 1446 4863 208 81.9 globlastp

1

utricularial 11 v 11 SRR094438.103

WNU8_H978 1447 4864 208 81.9 globlastp

690

81.8

WNU8_H979 ryell2vllDRR001012.558136 1448 4865 208 glotblastn

8

81.8

WNU8_H980 wheatll2v3ICA484380 1449 4866 208 glotblastn

8

WNU8_H981 canolall lvllBNU21744XXl_Pl 1450 4867 208 81.4 globlastp poppyll lvllSRR096789.100249

WNU8_H982 1451 4868 208 81.4 globlastp

_P1

81.2

WNU8_H983 wheatll2v3IAL822116 1452 4869 208 glotblastn

9

81.2

WNU8_H984 cottonll lvllES822536_Tl 1453 4870 208 glotblastn

5

81.2

WNU8_H985 lovegrasslgbl67IEH185033_Tl 1454 4871 208 glotblastn

1 b Junceal 12v 1 IE6 ANDIZO 1 BSC

WNU8_H986 1455 4872 208 81.2 globlastp

GA_P1

WNU8_H987 partheniumi 1 Ov 1 IGW779513_P 1 1456 4873 208 81.2 globlastp orobanchel lOvl ISRR023189S00

WNU8_H988 1457 4874 208 81.1 globlastp

01008_P1

poppy 111 v 1 ISRR030260.128199 81.0

WNU8_H989 1458 4875 208 glotblastn

_ 1 6 flaveriall lvl lSRR149239.16167

WNU8_H990 1459 4876 208 81 globlastp

1_P1

WNU8_H991 marchantialgb 166IB J848715_P 1 1460 4877 208 81 globlastp podocarpusll0vllSRR065014S0

WNU8_H992 1461 4878 208 81 globlastp

001888_P1

80.9

WNU8_H993 canolall lvllEV196524XX2_Tl 1462 4879 208 glotblastn

8 flaveriall lvl lSRR149241.11976 80.7

WNU8_H994 1463 4880 208 glotblastn

7_T1 6 beechl 11 vl ISRR006293.10304_

WNU8_H995 1464 4881 208 80.4 globlastp

PI

canolall lvllSRR019556.19904_

WNU8_H996 1465 4882 208 80.4 globlastp

PI

WNU8_H997 chickpeall lvl lAYl 12726 1466 4883 208 80.4 globlastp

80.3

WNU8_H998 canolall lvllEE405799XX2_Tl 1467 4884 208 glotblastn

1 canolal 11 v 1 ISRR329661.125622 80.3

WNU8_H999 1468 4885 208 glotblastn

_ 1 1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU9_H1 leymuslgbl66IEG398632_Pl 1469 4886 209 95.5 globlastp

WNU9_H2 wheatll2v3IAL822016 1470 4887 209 95.5 globlastp

93.4

WNU9_H3 ryell2vllDRR001012.199117 1471 4888 209 glotblastn

7

WNU9_H4 oatll lvl lGO598730_Pl 1472 4889 209 86.1 globlastp brachypodiumll2vllBRADI3G5

WNU9_H5 1473 4890 209 83.4 globlastp

7060_P1

WNU9_H12 switchgrassll2vl IFE624489_P1 1474 4891 209 82.5 globlastp

WNU9_H6 switchgrasslgbl67IFE624489 1475 4892 209 82.5 globlastp

WNU9_H13 switchgrassll2vl lFE635297_Pl 1476 4893 209 81.5 globlastp

WNU9_H7 maizell0vllAI677093_Pl 1477 4894 209 81.5 globlastp

WNU9_H8 switchgrasslgbl67IFE607705 1478 4895 209 81.5 globlastp

WNU9_H9 sorghuml 12v 11 SB 04G029010 1479 4896 209 81 globlastp

WNU9_H10 ricell lvllAU065182 1480 4897 209 80.4 globlastp foxtail_milletll lv3IPHY7SI0184

WNU9_H11 1481 4898 209 80 globlastp

00M_P1

brachypodiumll2vllBRADI3G5

WNU10_H2 1482 4899 210 88.4 globlastp

8320_P1

WNU10_H11 wheatll2v3IBQ237924 1483 4900 210 88.3 globlastp brachypodiumll2vllBRADI3G5

WNU10_H3 1484 4901 210 86.4 globlastp

8327_P1

WNU10_H5 ricell lvllAA750675 1485 4902 210 83.2 globlastp foxtail_milletll lv3IPHY7SI0165

WNU10_H6 1486 4903 210 81.2 globlastp

81M_P1

WNU10_H8 s witchgras slgbl67IDN141218 1487 4904 210 81.1 globlastp

WNU10_H14 switchgrassll2vl lDN141218_Pl 1488 4905 210 80.9 globlastp

WNU10_H15 switchgrassll2vl IFE632994_P1 1489 4906 210 80.9 globlastp

WNU10_H7 sorghuml 12vllSB04G033850 1490 4907 210 80.8 globlastp

WNU11_H1 wheatll2v3ICA642552 1491 4908 211 92.7 globlastp

WNU11_H2 wheatll2v3IBQ245800 1492 4909 211 91.8 globlastp

WNU11_H3 wheatll2v3IBE419463 1493 4910 211 90.9 globlastp

WNU11_H4 ryell2vllDRR001012.174712 1494 4911 211 90.1 globlastp

WNU11_H5 ryell2vllDRR001012.157939 1495 4912 211 89.2 globlastp

WNU11_H6 loliuml 1 Ov 11 AU247649_P 1 1496 4913 211 86.5 globlastp

WNU11_H7 oatll lvl lCN817037_Pl 1497 4914 211 85.6 globlastp

WNU11_H8 oatll lvl lGR333192_Pl 1498 4914 211 85.6 globlastp brachypodiuml 12v 1 IBRADI4G4 85.1

WNU13_H1 1499 4915 213 glotblastn

4997_T1 6

WNU13_H2 wheatll2v3IAL817063 1500 4916 213 82.5 globlastp

WNU13_H3 ryell2vllDRR001012.156654 1501 4917 213 82.3 globlastp

80.0

WNU13_H4 switchgrassll2vl lDN145145_Tl 1502 4918 213 glotblastn

9

WNU14_H1 wheatll2v3IBI479735 1503 4919 214 97.7 globlastp

WNU14_H2 ryel 12v 1 IDRR001012.102019 1504 4920 214 97.1 globlastp

WNU14_H3 ryell2vl IDRR001012. i l 5426 1505 4921 214 97.1 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

90.0

WNU14_H4 ryell2vllDRR001012.156071 1506 4922 214 glotblastn

8

WNU15_H1 ryel 12v 1 IDRR001012.112543 1507 4923 215 93 globlastp

92.9

WNU15_H2 wheatll2v3IBE404360 1508 4924 215 glotblastn

9

WNU15_H3 wheatll2v3IBE422752 1509 4925 215 92.8 globlastp

WNU15_H4 wheatll2v3IBM134630 1510 4926 215 92.8 glotblastn

WNU15_H5 oatll lvl lCN820180_Pl 1511 4927 215 85.4 globlastp brachypodiumll2vllBRADI2Gl

WNU15_H6 1512 4928 215 83.4 globlastp

7000_P1

WNU16_H1 wheatll2v3ICA501314 1513 4929 216 97.2 globlastp

WNU16_H2 leymuslgbl66IEG390149_Pl 1514 4930 216 92.3 globlastp

WNU16_H4 switchgrassll2vl lFE626303_Pl 1515 4931 216 80.9 globlastp

WNU16_H5 switchgrassll2vl lFL841650_Pl 1516 4932 216 80.3 globlastp

WNU16_H3 switchgrasslgb 167 IFL841650 1517 4933 216 80.3 globlastp

WNU17_H1 wheatll2v3IBE414307 1518 217 217 100 globlastp

WNU17_H2 wheatll2v3IBE427605 1519 217 217 100 globlastp brachypodiumll2vllBRADI2Gl

WNU17_H3 1520 4934 217 99.3 globlastp

6770_P1

WNU17_H4 fescuelgbl61 IDT688428_Pl 1521 4935 217 99.3 globlastp

WNU17_H5 oatll lvl lGR340361_Pl 1522 4935 217 99.3 globlastp

WNU17_H6 oatll lvl lGR349432_Pl 1523 4935 217 99.3 globlastp

WNU17_H7 ryel 12vllDRR001012.157480 1524 4936 217 99.3 globlastp

98.0

WNU17_H8 canolall lvllCN730363_Tl 1525 4937 217 glotblastn

4 b Junceal 12v 1 IE6 ANDIZ02FND

WNU17_H9 1526 4938 217 98 globlastp

41_P1

WNU17_H10 b_rapall lvllCN730363_Pl 1527 4938 217 98 globlastp

WNU17_H11 b_rapall lvllL47869_Pl 1528 4939 217 98 globlastp

WNU17_H12 barleyll2vllBI946826_Pl 1529 4940 217 98 globlastp

WNU17_H13 canolall lvllCN730530_Pl 1530 4939 217 98 globlastp

WNU17_H14 leymuslgbl66IEG374708_Pl 1531 4940 217 98 globlastp milletl 1 Ovl IEVO454PM00314 \_

WNU17_H15 1532 4941 217 98 globlastp

PI

milletll0vl lEVO454PM089657_

WNU17_H16 1533 4941 217 98 globlastp

PI

WNU17_H17 oatll lvl lGR342863_Pl 1534 4940 217 98 globlastp pseudoroegnerialgb 167 IFF34063

WNU17_H18 1535 4940 217 98 globlastp

2

WNU17_H19 ryell2vllBE705287 1536 4940 217 98 globlastp

WNU17_H20 ryell2vllCD453254 1537 4940 217 98 globlastp

WNU17_H21 wheatll2v3IBE402224 1538 4940 217 98 globlastp

WNU17_H22 wheatll2v3IBE404292 1539 4940 217 98 globlastp

WNU17_H43 monkeyflower 112v 1 ID V210516_

1540 4942 217 97.4 globlastp 3 PI Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

arabidopsis_lyratal09vl IJGIALO

WNU17_H23 1541 4942 217 91 A globlastp

01776_P1

arabidopsisll0vl lATlG16890_P

WNU17_H24 1542 4942 217 91 A globlastp

1

b Junceal 12v 1 IE6 ANDIZO 1 A5B

WNU17_H25 1543 4942 217 91 A globlastp

07_P1

b Junceal 12v 1 IE6 ANDIZO 1 B W

WNU17_H26 1544 4942 217 91 A globlastp

YBD_P1

b Junceal 12v 1 IE6 ANDIZO 1 DEB

WNU17_H27 1545 4942 217 91 A globlastp

C1_P1

b Junceal 12v 1 IE6 ANDIZO 1 EH3

WNU17_H28 1546 4942 217 91 A globlastp

VM_P1

WNU17_H29 b_oleracealgb 161 ID Y027215_P 1 1547 4943 217 91 A globlastp

WNU17_H30 b_oleracealgb 161 ID Y027796_P 1 1548 4944 217 91 A globlastp

WNU17_H31 b_rapal 11 v 1 IB Q790813_P1 1549 4945 217 91 A globlastp

WNU17_H32 b_rapall lvllBQ791570_Pl 1550 4944 217 91 A globlastp

WNU17_H33 b_rapall lvllCD817358_Pl 1551 4942 217 91 A globlastp

WNU17_H34 canolall lvllCN730552_Pl 1552 4944 217 91 A globlastp

WNU17_H35 canolall lvllCN731240_Pl 1553 4945 217 91 A globlastp

WNU17_H36 canolal 11 v 1 ID Y024565_P 1 1554 4943 217 91 A globlastp

WNU17_H37 canolall lvllEG020704_Pl 1555 4942 217 91 A globlastp

WNU17_H38 canolall lvllEG021063_Pl 1556 4945 217 91 A globlastp

WNU17_H39 canolall lvllEV012066_Pl 1557 4945 217 91 A globlastp

WNU17_H40 cenchruslgbl66IBM084863_Pl 1558 4946 217 91 A globlastp

WNU17_H41 eggplantl 1 Ovl IFS005444_P 1 1559 4942 217 91 A globlastp euonymus 111 v 11 SRR070038X21

WNU17_H42 1560 4942 217 91 A globlastp

7657_P1

WNU17_H43 fescuelgbl61 IDT685373_Pl 1561 4946 217 91 A globlastp foxtail_milletll lv3IPHY7SI0231

WNU17_H44 1562 4946 217 91 A globlastp

72M_P1

grapel 11 v 1 IGS VIVTO 102070100

WNU17_H45 1563 4942 217 91 A globlastp

1_P1

WNU17_H46 lettucell2vl lDW069539_Pl 1564 4947 217 91 A globlastp

WNU17_H47 lotusl09vl lCB828211_Pl 1565 4944 217 91 A globlastp

WNU17_H48 monkeyflower 11 Ov 1 ID V210516 1566 4942 217 91 A globlastp nasturtiumll lvl lSRR032558.105

WNU17_H49 1567 4948 217 91 A globlastp

835_P1

WNU17_H50 pepperll2vllBM066751_Pl 1568 4942 217 91 A globlastp phylall 1 v2ISRR099037Xl 12851

WNU17_H51 1569 4942 217 91 A globlastp

_P1

WNU17_H52 pigeonpeall lvllGR472520_Pl 1570 4942 217 91 A globlastp

WNU17_H53 radishlgbl64IEV535692 1571 4942 217 91 A globlastp

WNU17_H54 radishlgbl64IEV539302 1572 4942 217 91 A globlastp

WNU17_H55 radishlgbl64IEV567217 1573 4942 217 91 A globlastp

WNU17_H56 radishlgbl64IEW714058 1574 4942 217 91 A globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H57 radishlgbl64IEW726281 1575 4942 217 91 A globlastp

WNU17_H58 radishlgbl64IEX755281 1576 4942 217 91 A globlastp

WNU17_H59 radishlgbl64IEX765304 1577 4942 217 91 A globlastp

WNU17_H60 seneciolgb 170ID Y665106 1578 4949 217 91 A globlastp

WNU17_H61 sugarcanell0vl lAA961288 1579 4946 217 91 A globlastp thellungiella_halophilumll lvl ID

WNU17_H62 1580 4950 217 91 A globlastp

N774469

thellungiella_parvulumll lvllBY

WNU17_H63 1581 4942 217 91 A globlastp

805345

thellungiella_parvuluml 11 v 1 IDN

WNU17_H64 1582 4950 217 91 A globlastp

774469

WNU17_H65 tobaccolgbl62ICV018033 1583 4942 217 91 A globlastp

WNU17_H66 tobaccolgbl62IEB428813 1584 4942 217 91 A globlastp

WNU17_H67 tomatoll lvl lBG126290 1585 4942 217 91 A globlastp

WNU17_H68 triphysariall0vl lEY130377 1586 4951 217 91 A globlastp brachypodiuml 12v 1 IBRADI2G4 96.7

WNU17_H69 1587 4952 217 glotblastn

6290T2_T1 3

96.7

WNU17_H70 centaureall lvllEH737366_Tl 1588 4953 217 glotblastn

3 cirsiumll lvl ISRR346952.10040 96.7

WNU17_H71 1589 4954 217 glotblastn

74_T1 3

96.7

WNU17_H72 cottonl l lvl IDW512153_T 1 1590 4955 217 glotblastn

3 salviall0vl lSRR014553S002930 96.7

WNU17_H73 1591 4956 217 glotblastn

3 3

WNU17_H43 nicotiana_benthamianal 12v 1 IEB

1592 4957 217 96.7 globlastp 4 428813_P1

WNU17_H43 nicotiana_benthamianal 12v 1 IEB

1593 4958 217 96.7 globlastp 5 448956_P1

WNU17_H43

switchgrassll2vl lDN143106_Pl 1594 4959 217 96.7 globlastp 6

WNU17_H43

switchgrassll2vl lFE603001_Pl 1595 4959 217 96.7 globlastp 7

ambrosiall lvl lSRR346935.1691

WNU17_H74 1596 4958 217 96.7 globlastp

12_P1

ambrosial l lvl ISRR346943.1035

WNU17_H75 1597 4958 217 96.7 globlastp

83_P1

amorphophallusll lv2ISRR08935

WNU17_H76 1598 4960 217 96.7 globlastp

1X103836_P1

amsoniall lvllSRR098688X1054

WNU17_H77 1599 4958 217 96.7 globlastp

3_P1

arabidopsis_lyratal09vl IJGIAL0

WNU17_H78 1600 4958 217 96.7 globlastp

08169_P1

arnicall lvl lSRR099034Xl 1511

WNU17_H79 1601 4958 217 96.7 globlastp

0_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H80 avocadoll0vllFD503593_Pl 1602 4961 217 96.7 globlastp blueberryll2vllSRR353282X269

WNU17_H81 1603 4962 217 96.7 globlastp

47D1_P1

WNU17_H82 canolal 11 v 1 ID Y005277_P 1 1604 4963 217 96.7 globlastp

WNU17_H83 catharanthusll lvllEG558230_Pl 1605 4958 217 96.7 globlastp

WNU17_H84 centaureall lvllEH780394_Pl 1606 4958 217 96.7 globlastp chestnutlgbl70ISRR006295S000

WNU17_H85 1607 4964 217 96.7 globlastp

3346_P1

WNU17_H86 cichoriumlgbl71 IEH684694_P1 1608 4958 217 96.7 globlastp

WNU17_H87 cichoriumlgbl71 IEH695309_Pl 1609 4965 217 96.7 globlastp

WNU17_H88 cloverlgbl62IBB935221_Pl 1610 4958 217 96.7 globlastp

WNU17_H89 coffeall0vllDV665508_Pl 1611 4958 217 96.7 globlastp

WNU17_H90 cottonll lvllC0495392XXl_Pl 1612 4958 217 96.7 globlastp cucurbital 11 v 1 ISRR091276X 100

WNU17_H91 1613 4958 217 96.7 globlastp

473_P1

WNU17_H92 cyamopsis 11 Ov 1 IEG979319_P 1 1614 4958 217 96.7 globlastp

WNU17_H93 cynar algb 167 IGE589151 _P 1 1615 4958 217 96.7 globlastp

WNU17_H94 dandelionll0vl lDR398709_Pl 1616 4958 217 96.7 globlastp

WNU17_H95 eggplantll0vl lFS007798_Pl 1617 4958 217 96.7 globlastp euonymus 111 v 11 SRR070038X11

WNU17_H96 1618 4966 217 96.7 globlastp

5123_P1

euonymus 111 v 11 SRR070038X11

WNU17_H97 1619 4967 217 96.7 globlastp

7366_P1

WNU17_H98 euphorbial 11 v 1 ID V 122132_P1 1620 4958 217 96.7 globlastp flaveriall lvl lSRR149229.13432

WNU17_H99 1621 4958 217 96.7 globlastp

8_P1

WNU17_H10 flaveriall lvl lSRR149229.14807

1622 4958 217 96.7 globlastp 0 _P1

WNU17_H10 flaveriall lvl lSRR149229.23144

1623 4958 217 96.7 globlastp 1 _P1

WNU17_H10 flaveriall lvl lSRR149232.11331

1624 4958 217 96.7 globlastp 2 2_P1

WNU17_H10

flaxll lvllJG022693_Pl 1625 4968 217 96.7 globlastp

3

WNU17_H10

flaxll lvllJG035547_Pl 1626 4968 217 96.7 globlastp 4

WNU17_H10 foxtail_milletl 11 v3 IEC613913_P

1627 4959 217 96.7 globlastp 5 1

WNU17_H10 gossypium_raimondiil 12v 11 AI72

1628 4958 217 96.7 globlastp 6 6003_P1

WNU17_H10

guizotiall0vllGE552627_Pl 1629 4965 217 96.7 globlastp 7

WNU17_H10

iceplantlgbl64IAI943435_Pl 1630 4969 217 96.7 globlastp 8 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H10 ipomoea_batatasll0vl lEE876680

1631 4970 217 96.7 globlastp 9 _P1

WNU17_H11

lettucell2vl IDW047293_P1 1632 4958 217 96.7 globlastp 0

WNU17_H11

lotusl09vl lAW719221_Pl 1633 4971 217 96.7 globlastp 1

WNU17_H11

maizell0vllAI621751_Pl 1634 4972 217 96.7 globlastp 2

WNU17_H11

maizell0vllT20360_Pl 1635 4973 217 96.7 globlastp

3

WNU17_H11

medicagoll2vl lAA660332_Pl 1636 4958 217 96.7 globlastp 4

WNU17_H11

nasturtiuml 11 vl IGH 169196_P1 1637 4974 217 96.7 globlastp 5

WNU17_H11

oakll0vl lDN950778_Pl 1638 4964 217 96.7 globlastp 6

WNU17_H11

peanutll0vl lCD038839_Pl 1639 4958 217 96.7 globlastp 7

WNU17_H11

peanut 11 Ov 1 IEE 127715_P 1 1640 4958 217 96.7 globlastp 8

WNU17_H11

periwinklelgbl64IEG558230_Pl 1641 4958 217 96.7 globlastp 9

WNU17_H12

petunialgbl71 IFN000074_P1 1642 4970 217 96.7 globlastp 0

WNU17_H12

potatoll0vllBE919486_Pl 1643 4971 217 96.7 globlastp 1

WNU17_H12

potatoll0vllBG590551_Pl 1644 4975 217 96.7 globlastp 2

WNU17_H12

radishlgbl64IEW733273 1645 4976 217 96.7 globlastp 3

WNU17_H12

radishlgbl64IEY949993 1646 4976 217 96.7 globlastp 4

WNU17_H12

ricell lvllBE228269 1647 4959 217 96.7 globlastp 5

WNU17_H12

safflowerlgbl62IEL398795 1648 4958 217 96.7 globlastp 6

WNU17_H12 solanum_phurejal09vl ISPHBG1

1649 4975 217 96.7 globlastp 7 26290

WNU17_H12 solanum_phurejal09vl ISPHBG1

1650 4971 217 96.7 globlastp 8 34126

WNU17_H12 soybeanll lvl lGLYMA06G3384

1651 4977 217 96.7 globlastp 9 0

WNU17_H12 soybeanll2vl lGLYMA06G3384

1652 4977 217 96.7 globlastp 9 0_P1

WNU17_H13 soybeanll lvl lGLYMA13G3460

1653 4958 217 96.7 globlastp 0 0 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H13 soybeanll2vl lGLYMA13G3460

1654 4958 217 96.7 globlastp 0 0T2_P1

WNU17_H13 soybeanll lvl lGLYMA20G1003

1655 4978 217 96.7 globlastp 1 0

WNU17_H13 soybeanl 12vl IGLYMA20G1003

1656 4978 217 96.7 globlastp 1 0_P1

WNU17_H13

spurgelgbl61IDV122132 1657 4958 217 96.7 globlastp 2

WNU17_H13

sunflowerll2vllCD850417 1658 4958 217 96.7 globlastp 3

WNU17_H13

sunflowerll2vllDY925368 1659 4958 217 96.7 globlastp 4

WNU17_H13

s witchgras slgbl67IDN143106 1660 4959 217 96.7 globlastp 5

WNU17_H13

s witchgras s Igb 167 IFE603001 1661 4959 217 96.7 globlastp 6

WNU17_H13 tabernaemontanall lvl lSRR0986

1662 4958 217 96.7 globlastp 7 89X110278

WNU17_H13

teall0vllFE942783 1663 4965 217 96.7 globlastp 8

WNU17_H13 thellungiella_halophilumll lvl IB

1664 4979 217 96.7 globlastp 9 Y805345

WNU17_H14

tobaccolgb 162IEB427071 1665 4958 217 96.7 globlastp 0

WNU17_H14

triphysarial lOvl IEX985155 1666 4980 217 96.7 globlastp 1

WNU17_H14

triphysariall0vl lEY130295 1667 4981 217 96.7 globlastp 2

WNU17_H14 utricularial 11 v 11 SRR094438.102

1668 4979 217 96.7 globlastp

3 997

WNU17_H14 valerianal 11 vl ISRR099039X 102

1669 4965 217 96.7 globlastp 4 133

WNU17_H14

vincal 1 lvl ISRR098690X112996 1670 4965 217 96.7 globlastp 5

WNU17_H43

castorbeanll2vl lEE255403_Pl 1671 4982 217 96.1 globlastp 8

WNU17_H43

chickpeall3v2IFE668632_Pl 1672 4983 217 96.1 globlastp 9

WNU17_H44 monkeyflowerl 12vl ICV521813_

1673 4984 217 96.1 globlastp 0 PI

WNU17_H44 prunus_mumell3vl lBU042798_

1674 4985 217 96.1 globlastp 1 PI

WNU17_H44 zosterall2vl lSRR057351X11589

1675 4986 217 96.1 globlastp 2 D1_P1

WNU17_H14

antirrhinumlgbl66IAJ788570_Pl 1676 4987 217 96.1 globlastp 6 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H14 arabidopsisll0vl lATlG78870_P

1677 4988 217 96.1 globlastp 7 1

WNU17_H14

artemisial 1 Ovl IEY049658_P 1 1678 4989 217 96.1 globlastp 8

WNU17_H14

avocadoll0vllCK762705_Pl 1679 4990 217 96.1 globlastp 9

WNU17_H15

bananall2vl lFF557470_Pl 1680 4982 217 96.1 globlastp 0

WNU17_H15 beechll lvl lSRR006293.25722_

1681 4982 217 96.1 globlastp 1 PI

WNU17_H15 blueberryll2vllSRR353282X313

1682 4991 217 96.1 globlastp 2 38D1_P1

WNU17_H15 bupleuruml 11 v 1 ISRR301254.13

1683 4992 217 96.1 globlastp 3 7136_P1

WNU17_H15

cacaoll0vllCU475181_Pl 1684 4982 217 96.1 globlastp 4

WNU17_H15

cassaval09vl IDV452105_P1 1685 4982 217 96.1 globlastp 5

WNU17_H15

castorbeanll lvl lEE255403 1686 4982 217 96.1 globlastp 6

WNU17_H15 cedrusl 11 v 1 ISRR065007X 10048

1687 4993 217 96.1 globlastp 7 0_P1

WNU17_H15 centaureal 11 v 1 ISRR346938.102

1688 4994 217 96.1 globlastp 8 12_P1

WNU17_H15 chestnutlgbl70ISRR006295S000

1689 4982 217 96.1 globlastp 9 5351_P1

WNU17_H16

chickpeall lvl lFE668632 1690 4983 217 96.1 globlastp 0

WNU17_H16

clementinel 11 v 1 ICF417240_P 1 1691 4982 217 96.1 globlastp 1

WNU17_H16 cleome_gynandral 1 Ov 1 ISRRO 15

1692 4982 217 96.1 globlastp 2 532S0027837_P1

WNU17_H16 cleome_spinosal 1 Ovl IGR932301

1693 4982 217 96.1 globlastp 3 _P1

WNU17_H16 cleome_spinosall0vl lSRR01553

1694 4982 217 96.1 globlastp 4 1S0013877_P1

WNU17_H16

cottonl 11 v 11 AI726003_P 1 1695 4995 217 96.1 globlastp 5

WNU17_H16

cottonl 11 v 11 AI729870_P 1 1696 4982 217 96.1 globlastp 6

WNU17_H16

cottonl 11 v 1 IDT527415_P 1 1697 4996 217 96.1 globlastp 7

WNU17_H16

cowpeall2vl lFC460687_Pl 1698 4997 217 96.1 globlastp 8

WNU17_H16

cowpeall2vl lFF391401_Pl 1699 4998 217 96.1 globlastp 9 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H17

cucumberl09vllDV632828_Pl 1700 4982 217 96.1 globlastp 0

WNU17_H17

dandelionll0vl lDR398472_Pl 1701 4999 217 96.1 globlastp 1

WNU17_H17 eschscholzial 11 v 1 ICD479283_P

1702 5000 217 96.1 globlastp 2 1

WNU17_H17

euphorbiall lvllBP961080_Pl 1703 4982 217 96.1 globlastp 3

WNU17_H17 flaveriall lvl lSRR149229.12125

1704 5001 217 96.1 globlastp 4 9_P1

WNU17_H17 flaveriall lvl lSRR149244.10904

1705 5002 217 96.1 globlastp 5 3_P1

WNU17_H17

flaxll lvllGW864855_Pl 1706 5003 217 96.1 globlastp 6

WNU17_H17 fraxinusl 11 vl ISRR058827.10366

1707 4982 217 96.1 globlastp 7 3_P1

WNU17_H17 fraxinusl 11 vl ISRR058827.10763

1708 4990 217 96.1 globlastp 8 8_P1

WNU17_H17 gossypium_raimondiil 12v 11 AI72

1709 4982 217 96.1 globlastp 9 9870_P1

WNU17_H18 grapel 11 v 1 IGS VIVTO 101421500

1710 4982 217 96.1 globlastp 0 1_P1

WNU17_H18

guizotiall0vllGE562307_Pl 1711 5001 217 96.1 globlastp 1

WNU17_H18

humulusll lvl lEX518933_Pl 1712 4983 217 96.1 globlastp 2

WNU17_H18 ipomoea_batatasll0vl lEE875329

1713 5004 217 96.1 globlastp 3 _P1

WNU17_H18

ipomoea_nill lOvl ICJ747934_P1 1714 5005 217 96.1 globlastp 4

WNU17_H18

ipomoea_nill lOvl ICJ752578_P1 1715 4982 217 96.1 globlastp 5

WNU17_H18

jatrophal09vl IGT228569_P1 1716 4982 217 96.1 globlastp 6

WNU17_H18

kiwilgbl66IFG423895_Pl 1717 5006 217 96.1 globlastp 7

WNU17_H18

liquoricelgbl71 IFS244937_P1 1718 4982 217 96.1 globlastp 8

WNU17_H18

maizell0vllAA979832_Pl 1719 5007 217 96.1 globlastp 9

WNU17_H19

maizell0vllAW171809_Pl 1720 5008 217 96.1 globlastp 0

WNU17_H19

melonll0vllDV632828_Pl 1721 4982 217 96.1 globlastp 1

WNU17_H19 momordical 1 Ov 1 ISRR071315 SO

1722 4982 217 96.1 globlastp 2 000326_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H19

oakll0vl lFP025798_Pl 1723 4982 217 96.1 globlastp 3

WNU17_H19

oleal 11 v 11 SRRO 14463.21469 1724 4990 217 96.1 globlastp 4

WNU17_H19 oleal 13 v 1 ISRRO 14463X21469D

1725 4990 217 96.1 globlastp 4 1_P1

WNU17_H19

oleal 11 v 11 SRRO 14463.22162 1726 4982 217 96.1 globlastp 5

WNU17_H19 oleal 13 v 1 ISRRO 14463X22162D

1727 4982 217 96.1 globlastp 5 1_P1

WNU17_H19

orange 111 v 1 ICF417240_P 1 1728 4982 217 96.1 globlastp 6

WNU17_H19 orobanchel lOvl ISRR023189S00

1729 5009 217 96.1 globlastp 7 12723_P1

WNU17_H19

papayalgbl65IEX231148_Pl 1730 4982 217 96.1 globlastp 8

WNU17_H19

partheniumi 1 Ov 1 IGW778911 _P 1 1731 5010 217 96.1 globlastp 9

WNU17_H20

pepper 112v 1 IBM066122_P1 1732 5011 217 96.1 globlastp 0

WNU17_H20 phylall 1 v2ISRR099035X100283

1733 4987 217 96.1 globlastp 1 _P1

WNU17_H20 phylall 1 v2ISRR099035X100758

1734 4983 217 96.1 globlastp 2 _P1

WNU17_H20

pigeonpeal 11 v 1 IGR470024_P 1 1735 4998 217 96.1 globlastp 3

WNU17_H20 plantagoll 1 V2ISRR066373X103

1736 4982 217 96.1 globlastp 4 675_P1

WNU17_H20

poppyll lvllFG599569_Pl 1737 5012 217 96.1 globlastp 5

WNU17_H20 poppyll lvllSRR096789.122196

1738 5011 217 96.1 globlastp 6 _P1

WNU17_H20

prunusll0vl lCB822666 1739 5013 217 96.1 globlastp 7

WNU17_H20

rosell2vllBQ103975 1740 5013 217 96.1 globlastp 8

WNU17_H20

silenell lvl lGH292005 1741 5014 217 96.1 globlastp 9

WNU17_H21

silenell lvl lGH294038 1742 5015 217 96.1 globlastp 0

WNU17_H21

sorghumll2vllSB03G030840 1743 5007 217 96.1 globlastp 1

WNU17_H21 soybeanll lvl lGLYMA12G3579

1744 5016 217 96.1 globlastp 2 0

WNU17_H21 soybeanl 12vl IGLYMA 12G3579

1745 5016 217 96.1 globlastp 2 0_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H21

strawberryll lvl lC0817378 1746 5013 217 96.1 globlastp 3

WNU17_H21

sugarcanell0vl lBQ533055 1747 5007 217 96.1 globlastp 4

WNU17_H21

sunflowerll2vllCD850786 1748 5001 217 96.1 globlastp 5

WNU17_H21

s witchgras slgbl67IDN145151 1749 5017 217 96.1 globlastp 6

WNU17_H21 thalictruml 11 vl ISRR096787X11

1750 5018 217 96.1 globlastp 7 7438

WNU17_H21

tomatoll lvl lBG134126 1751 4983 217 96.1 globlastp 8

WNU17_H21 tragopogonll0vllSRR020205S0

1752 5019 217 96.1 globlastp 9 000057

WNU17_H22 trigonellal 11 v 1 ISRR066194X 104

1753 5020 217 96.1 globlastp 0 236

WNU17_H22 tripterygiumll 1 vl ISRR098677X

1754 5021 217 96.1 globlastp 1 10016

WNU17_H22

walnutslgbl66ICB303910 1755 4982 217 96.1 globlastp 2

WNU17_H22

walnutslgbl66ICV198359 1756 4982 217 96.1 globlastp 3

WNU17_H22

watermelonll lvllDV632828 1757 4982 217 96.1 globlastp 4

WNU17_H22 zosteral lOvl ISRR057351 S00007

1758 4986 217 96.1 globlastp 5 33

WNU17_H22 96.0

artemisiall0vl lEY098112_Tl 1759 5022 217 glotblastn 6 8

WNU17_H22 96.0

b_rapall lvllBQ704394_Tl 1760 5023 217 glotblastn 7 8

WNU17_H22 sarracenial 11 v 1 ISRR 192669.103 96.0

1761 5024 217 glotblastn 8 43 8

WNU17_H22 sarracenial 11 v 1 ISRR 192669.105 96.0

1762 5025 217 glotblastn 9 437 8

WNU17_H23 96.0

seneciolgbl70IDY663326 1763 5026 217 glotblastn 0 8

WNU17_H23 96.0

wheatll2v3ICA486470 1764 5027 217 glotblastn 1 8

WNU17_H23 ambrosial 11 vl ISRR346935.1120 95.4

1765 5024 217 glotblastn 2 46_T1 2

WNU17_H23 flaveriall lvl lSRR149232.21234 95.4

1766 5028 217 glotblastn 3 8_T1 2

WNU17_H23 poppy 111 v 1 ISRR030259.119059 95.4

1767 5029 217 glotblastn 4 _ 1 2

WNU17_H44

beanll2v2ICA906757_Pl 1768 5030 217 95.4 globlastp

3 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H23

acaciallOvllFS588158_Pl 1769 5031 217 95.4 globlastp 5

WNU17_H23 amorphophallusll lv2ISRR08935

1770 5032 217 95.4 globlastp 6 1X103308_P1

WNU17_H23

antirrhinumlgbl66IAJ558475_Pl 1771 5033 217 95.4 globlastp 7

WNU17_H23

aristolochiall0vl lFD752041_Pl 1772 5034 217 95.4 globlastp 8

WNU17_H23

bananall2vl lFF559774_Pl 1773 5035 217 95.4 globlastp 9

WNU17_H24

basilicumll0vl lDY340408_Pl 1774 5036 217 95.4 globlastp 0

WNU17_H24

beanll2vllCA906757 1775 5030 217 95.4 globlastp 1

WNU17_H24

beetll2vllEG549424_Pl 1776 5037 217 95.4 globlastp 2

WNU17_H24

beetll2vllEG550821_Pl 1777 5038 217 95.4 globlastp 3

WNU17_H24 blueberryll2vllSRR353282X431

1778 5039 217 95.4 globlastp 4 09D1_P1

WNU17_H24 blueberryll2vllSRR353282X903

1779 5039 217 95.4 globlastp 5 55D1_P1

WNU17_H24

catharanthusll lvllAF091621_Pl 1780 5040 217 95.4 globlastp 6

WNU17_H24

centaureall 1 vl IEH723118_P1 1781 5041 217 95.4 globlastp 7

WNU17_H24

centaureall lvllEH737491_Pl 1782 5041 217 95.4 globlastp 8

WNU17_H24

centaureal 11 v 1 IEH760412_P1 1783 5041 217 95.4 globlastp 9

WNU17_H25 chelidoniuml 11 vl ISRR084752X

1784 5042 217 95.4 globlastp 0 105322_P1

WNU17_H25 cirsiumll lvllSRR346952.10088

1785 5041 217 95.4 globlastp 1 01_P1

WNU17_H25 cirsiumll lvllSRR346952.10260

1786 5043 217 95.4 globlastp 2 9_P1

WNU17_H25

cucurbital 11 v 1 IFG227319_P 1 1787 5044 217 95.4 globlastp 3

WNU17_H25

cynaralgb 167 IGE588125_P 1 1788 5043 217 95.4 globlastp 4

WNU17_H25

eucalyptusll lv2ICD669014_Pl 1789 5045 217 95.4 globlastp 5

WNU17_H25 euonymus 111 v 11 SRR070038X13

1790 5046 217 95.4 globlastp 6 6525_P1

WNU17_H25 fagopyrumll lvl lSRR063689Xl

1791 5047 217 95.4 globlastp 7 02569_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H25 fagopyrumll lvl lSRR063689Xl

1792 5048 217 95.4 globlastp 8 7391_P1

WNU17_H25

flaxll lvllJG133969_Pl 1793 5049 217 95.4 globlastp 9

WNU17_H26 fraxinusll lvl lSRR058827.16910

1794 5050 217 95.4 globlastp 0 9_P1

WNU17_H26

ginsengll0vllDV555857_Pl 1795 5051 217 95.4 globlastp 1

WNU17_H26

guizotiall0vllGE555906_Pl 1796 5052 217 95.4 globlastp 2

WNU17_H26 heritieral 1 Ov 1 ISRR005794S0001

1797 5045 217 95.4 globlastp 3 119_P1

WNU17_H26

iceplantlgbl64IBE034207_Pl 1798 5053 217 95.4 globlastp 4

WNU17_H26 ipomoea_batatasll0vl lDV03534

1799 5054 217 95.4 globlastp 5 0_P1

WNU17_H26

ipomoea_nill lOvl ICJ747207_P1 1800 5055 217 95.4 globlastp 6

WNU17_H26

kiwilgbl66IFG409170_Pl 1801 5056 217 95.4 globlastp 7

WNU17_H26 liriodendronlgb 166IFD488994_P

1802 5057 217 95.4 globlastp 8 1

WNU17_H26

oil_palmll lvl lEL688490_Pl 1803 5034 217 95.4 globlastp 9

WNU17_H27 orobanchel lOvl ISRR023189S00

1804 5058 217 95.4 globlastp 0 06106_P1

WNU17_H27

pinell0v2IAA739766_Pl 1805 5059 217 95.4 globlastp 1

WNU17_H27 plantagoll 1 V2ISRR066373X164

1806 5060 217 95.4 globlastp 2 128_P1

WNU17_H27

poplarll0vl lAI161701 1807 5045 217 95.4 globlastp 3

WNU17_H27

poplarll3vl lAI161701_Pl 1808 5045 217 95.4 globlastp 3

WNU17_H27

poplarll0vl lAI162761 1809 5054 217 95.4 globlastp 4

WNU17_H27

poplarll3vl lAI162761_Pl 1810 5054 217 95.4 globlastp 4

WNU17_H27 poppyll lvllSRR030259.105591

1811 5061 217 95.4 globlastp 5 _P1

WNU17_H27

prunusll0vl lBU042798 1812 5062 217 95.4 globlastp 6

WNU17_H27 pseudotsugal 1 Ov 1 ISRR065119S0

1813 5063 217 95.4 globlastp 7 012686

WNU17_H27

radishlgbl64IEY919768 1814 5064 217 95.4 globlastp 8 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H27

safflowerlgbl62IEL386327 1815 5041 217 95.4 globlastp 9

WNU17_H28 salviall0vl lSRR014553S000060

1816 5065 217 95.4 globlastp 0 9

WNU17_H28 sarracenial 11 v 1 ISRR 192669.117

1817 5066 217 95.4 globlastp 1 327

WNU17_H28 scabiosall lvllSRR063723X109

1818 5067 217 95.4 globlastp 2 94

WNU17_H28

silenell lvl lGH291836 1819 5068 217 95.4 globlastp 3

WNU17_H28

sorghuml 12v 11 SB 02G021080 1820 5069 217 95.4 globlastp 4

WNU17_H28

sprucell lvllES250195 1821 5070 217 95.4 globlastp 5

WNU17_H28

strawberry 111 vl ID Y667301 1822 5071 217 95.4 globlastp 6

WNU17_H28

sugarcanel lOvl ICA066851 1823 5069 217 95.4 globlastp 7

WNU17_H28

sunflower 112v 1 ICF077956 1824 5072 217 95.4 globlastp 8

WNU17_H28 taxusll0vl lSRR032523S000073

1825 5073 217 95.4 globlastp 9 2XX1

WNU17_H29 tragopogonll0vllSRR020205S0

1826 5074 217 95.4 globlastp 0 002138

WNU17_H29 utricularial 11 v 11 SRR094438.100

1827 5075 217 95.4 globlastp 1 07

WNU17_H29 utricularial 11 v 11 SRR094438.109

1828 5076 217 95.4 globlastp 2 222

WNU17_H29 valerianall lvl ISRR099039X114

1829 5067 217 95.4 globlastp 3 224

WNU17_H29 valerianall lvl ISRR099039X806

1830 5077 217 95.4 globlastp 4 81

WNU17_H44

beanll2v2ICA898393_Pl 1831 5078 217 94.8 globlastp 4

WNU17_H44 oleall3vllSRR014463X11653D

1832 5079 217 94.8 globlastp 5 1_P1

WNU17_H44

switchgrassll2vl lDN152618_Pl 1833 5080 217 94.8 globlastp 6

WNU17_H29 abiesll lv2ISRR098676Xl 14290

1834 5081 217 94.8 globlastp 5 _P1

WNU17_H29 ambrosial 1 lvl ISRR346943.1183

1835 5082 217 94.8 globlastp 6 78_P1

WNU17_H29 amorphophallusll lv2ISRR08935

1836 5083 217 94.8 globlastp 7 1X101818_P1

WNU17_H29 arnicall lvl lSRR099034X13600

1837 5082 217 94.8 globlastp 8 0_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H29

artemisiall0vl lGW331403_Pl 1838 5084 217 94.8 globlastp 9

WNU17_H30

bananall2vl lFF560038_Pl 1839 5085 217 94.8 globlastp 0

WNU17_H30 cannabisll2vllSOLX00033268_

1840 5086 217 94.8 globlastp 2 PI

WNU17_H30 cannabisll2vllSOLX00040838_

1841 5086 217 94.8 globlastp 3 PI

WNU17_H30

canolall lvllES899299_Pl 1842 5087 217 94.8 globlastp 4

WNU17_H30 cephalotaxusll lvllSRR064395X

1843 5088 217 94.8 globlastp 5 106265_P1

WNU17_H30 cirsiumll lvllSRR346952.11489

1844 5089 217 94.8 globlastp 6 _P1

WNU17_H30 cleome_gynandral 1 Ov 1 ISRRO 15

1845 5090 217 94.8 globlastp 7 532S0000743_P1

WNU17_H30

cottonl 11 v 11 AY560546_P 1 1846 5091 217 94.8 globlastp 8

WNU17_H30

cottonl 11 v 1 IBF272909_P1 1847 5092 217 94.8 globlastp 9

WNU17_H31

cottonll lvllCO092732_Pl 1848 5093 217 94.8 globlastp 0

WNU17_H31

cottonll lvllDV850261_Pl 1849 5094 217 94.8 globlastp 1

WNU17_H31 cottonll lvllSRR032367.852137

1850 5091 217 94.8 globlastp 2 _P1

WNU17_H31

cycaslgb 166ICB090914_P 1 1851 5095 217 94.8 globlastp 3

WNU17_H31

dandelionll0vl lGO663352_Pl 1852 5096 217 94.8 globlastp 4

WNU17_H31 eschscholziall lvllCK744884_P

1853 5097 217 94.8 globlastp 5 1

WNU17_H31 fagopyrumll lvl lSRR063689Xl

1854 5098 217 94.8 globlastp 6 21403XX1_P1

WNU17_H31

gingerlgbl64IDY369735_Pl 1855 5099 217 94.8 globlastp 7

WNU17_H31

gnetumll0vllDN954342_Pl 1856 5100 217 94.8 globlastp 8

WNU17_H31 gossypium_raimondiil 12v 11 AY5

1857 5091 217 94.8 globlastp 9 60546_P1

WNU17_H32 gossypium_raimondiil 12v 1 IBF27

1858 5093 217 94.8 globlastp 0 2909_P1

WNU17_H32 gossypium_raimondiil 12v 1 IDT5

1859 5094 217 94.8 globlastp 1 27415_P1

WNU17_H32

humulusll lvl lFG345870_Pl 1860 5101 217 94.8 globlastp 2 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H32

humulusll lvl lGD244056_Pl 1861 5101 217 94.8 globlastp 3

WNU17_H32 humulusll lvl lSRR098683X102

1862 5101 217 94.8 globlastp 4 824_P1

WNU17_H32

kiwilgbl66IFG426345_Pl 1863 5102 217 94.8 globlastp 5

WNU17_H32 liriodendronlgbl66ICK745391_P

1864 5103 217 94.8 globlastp 6 1

WNU17_H32 maritime_pinel 1 Ov 11 AL749594_

1865 5104 217 94.8 globlastp 7 PI

WNU17_H32 milletll0vl lEVO454PM030933_

1866 5105 217 94.8 globlastp 8 PI

WNU17_H32

oleall lvllSRR014463.11653 1867 5079 217 94.8 globlastp 9

WNU17_H33 onionl 12v 1 ISRR073446X 118270

1868 5106 217 94.8 globlastp 0 D1_P1

WNU17_H33

periwinklelgb 164IAF091621_P1 1869 5107 217 94.8 globlastp 1

WNU17_H33 phalaenopsisll lvl lSRR125771.1

1870 5108 217 94.8 globlastp 2 002079_P1

WNU17_H33 phalaenopsisll lvl lSRR125771.1

1871 5109 217 94.8 globlastp 3 026536_P1

WNU17_H33 primulall lvllSRR098679X1072

1872 5110 217 94.8 globlastp 4 96_P1

WNU17_H33

radishlgbl64IEV535483 1873 5111 217 94.8 globlastp 5

WNU17_H33

rosell2vllSRR397984.120485 1874 5112 217 94.8 globlastp 6

WNU17_H33 sciadopitysll0vl lSRR065035S00

1875 5113 217 94.8 globlastp 7 12583

WNU17_H33 sciadopitysll0vl lSRR065035S00

1876 5114 217 94.8 globlastp 8 75123

WNU17_H33

s witchgras slgbl67IDN152618 1877 5080 217 94.8 globlastp 9

WNU17_H34 oleall3vllSRR014463X30186D

1878 5115 217 94.8 globlastp 9 1_P1

WNU17_H34 94.7

onionl 12vllFS210737_Tl 1879 5116 217 glotblastn 0 7

WNU17_H34 sarracenial 11 v 1 ISRR 192669.100 94.7

1880 5117 217 glotblastn 1 640 7

WNU17_H34 sarraceniall lvllSRR192669.168 94.7

1881 5118 217 glotblastn 2 63 7

WNU17_H34 tragopogonll0vllSRR020205S0 94.7

1882 5119 217 glotblastn 3 024946 7

WNU17_H34 tripterygiumll 1 vl ISRR098677X 94.7

1883 5120 217 glotblastn 4 104747 7 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H34 aquilegiall0v2IJGIAC026301_P

1884 5121 217 94.2 globlastp 5 1

WNU17_H34 94.1

amborellal 12v3 ICVO 12534_T 1 1885 5122 217 glotblastn 6 2

WNU17_H34 flaverial 11 vl ISRR 149229.29047 94.1

1886 5024 217 glotblastn 7 1XX1_T1 2

WNU17_H34 fraxinusl 1 Ivl ISRR058827.13545 94.1

1887 5123 217 glotblastn 8 8_T1 2

WNU17_H34 94.1

oleall lvllSRR014463.30186 1888 5124 217 glotblastn 9 2

WNU17_H44

switchgrassll2vl lFE600938_Pl 1889 5125 217 94.1 globlastp 7

WNU17_H35 amsoniall lvllSRR098688X1008

1890 5126 217 94.1 globlastp 0 72_P1

WNU17_H35

bananal 12vl IES431646_P1 1891 5127 217 94.1 globlastp 1

WNU17_H35

cichoriumlgbl71 IEH709360_P1 1892 5128 217 94.1 globlastp 2

WNU17_H35 eschscholzial 11 v 11 SRRO 14116.1

1893 5129 217 94.1 globlastp 3 07763_P1

WNU17_H35

pineapplell0vl lDT337097_Pl 1894 5130 217 94.1 globlastp 4

WNU17_H35 platanusll lvl lSRR096786X1043

1895 5131 217 94.1 globlastp 5 89_P1

WNU17_H35 podocarpusll0vllSRR065014S0

1896 5132 217 94.1 globlastp 6 008331_P1

WNU17_H35

sprucell lvllES249358 1897 5133 217 94.1 globlastp 7

WNU17_H35

sprucell lvllEX353857 1898 5133 217 94.1 globlastp 8

WNU17_H35

s witchgras s Igb 167 IFE600938 1899 5125 217 94.1 globlastp 9

WNU17_H36 tabernaemontanall lvl lSRR0986

1900 5134 217 94.1 globlastp 0 89X120633

WNU17_H36

zinnialgbl71 IAU305997 1901 5135 217 94.1 globlastp 1

WNU17_H36 abiesll lv2ISRR098676Xl 11177

1902 5136 217 93.5 globlastp 2 _P1

WNU17_H36

amborellal 12v3 ICK755984_P 1 1903 5137 217 93.5 globlastp 3

WNU17_H36

barleyll2vllBE413397_Pl 1904 5138 217 93.5 globlastp 4

WNU17_H36 distyliumll Ivl ISRR065077X112

1905 5139 217 93.5 globlastp 5 289_P1

WNU17_H36 fagopyruml l lvl ISRR063703X 1

1906 5140 217 93.5 globlastp 6 05646_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H36 foxtail_milletll lv3IPHY7SI0313

1907 5141 217 93.5 globlastp 7 77M_P1

WNU17_H36 maritime_pine 11 Ov 1 IBX000624_

1908 5142 217 93.5 globlastp 8 PI

WNU17_H36

pinell0v2IAW010211_Pl 1909 5142 217 93.5 globlastp 9

WNU17_H37 pseudoroegnerialgb 167 IFF36294

1910 5138 217 93.5 globlastp 0 0

WNU17_H37

ryell2vllDRR001012.127556 1911 5143 217 93.5 globlastp 1

WNU17_H37 sequoiall0vl lSRR065044S0003

1912 5144 217 93.5 globlastp 2 204

WNU17_H37

vincall lvl lSRR098690X184197 1913 5145 217 93.5 globlastp 3

WNU17_H37

wheatll2v3IBM134951 1914 5138 217 93.5 globlastp 4

WNU17_H37

wheatll2v3IBM138072 1915 5138 217 93.5 globlastp 5

WNU17_H37 cedrusl 11 v 1 ISRR065007X 10922 93.4

1916 5146 217 glotblastn 6 3_T1 6

WNU17_H37 gossypium_raimondiil 12v 11 SRR 92.8

1917 5147 217 glotblastn 7 032881.293179_T1 1

WNU17_H37 podocarpusll0vllSRR065014S0 92.8

1918 5148 217 glotblastn 8 040197_T1 1

WNU17_H37

oatll lvl lG0589794_Pl 1919 5149 217 92.8 globlastp 9

WNU17_H38 platanusll lvl lSRR096786X1280

1920 5150 217 92.8 globlastp 0 74_P1

WNU17_H38 rhizophoral 1 Ov 1 ISRR005792S00

1921 5151 217 92.8 globlastp 1 00964

WNU17_H38 ceratodonll0vllSRR074890S001

1922 5152 217 92.3 globlastp 2 5879_P1

WNU17_H38 cephalotaxusll lvllSRR064395X

1923 5153 217 92.2 globlastp 3 305668_P1

WNU17_H38 sequoiall0vl lSRR065044S0044

1924 5154 217 92.2 globlastp 4 135

WNU17_H38 distyliumll lvl ISRR065077X110 92.1

1925 5155 217 glotblastn 5 866_T1 6

WNU17_H38 pteridiumll lvl lSRR043594X10 92.1

1926 5156 217 glotblastn 6 0139 6

WNU17_H38 cryptomerialgbl66IBY887735_P

1927 5157 217 91.5 globlastp 7 1

WNU17_H38

sprucell lvllCO207826 1928 5158 217 91.5 glotblastn 8

WNU17_H38 hornbeaml 12vl ISRR364455.106

1929 - 217 91.5 glotblastn 9 790_T1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H39 b Junceal 12v 1 IE6 ANDIZO 1 AOK

1930 5159 217 90.8 globlastp 0 I8_P1

WNU17_H39 epimediuml 11 vl ISRR013505.12

1931 5160 217 90.8 globlastp 1 485_P1

WNU17_H39 fagopyrumll lvl lSRR063689Xl

1932 5161 217 90.8 globlastp 2 02345_P1

WNU17_H39 rhizophoral 1 Ov 1 ISRR005792S00

1933 5162 217 90.8 globlastp 3 00918

WNU17_H39 physcomitrellall0vllAW599579

1934 5163 217 90.4 globlastp 4 _P1

WNU17_H39 physcomitrellal 1 Ov 1 IB J941521_

1935 5164 217 90.4 globlastp 5 PI

WNU17_H39 ceratodonll0vllSRR074890S002

1936 5165 217 89.9 globlastp 6 8051_P1

WNU17_H39

fernlgbl71IDK943806_Pl 1937 5166 217 89.8 globlastp 7

WNU17_H39 fraxinusll lvl lSRR058827.16194 89.5

1938 5167 217 glotblastn 8 9_T1 4

WNU17_H39

applell lvllCN491361_Pl 1939 5168 217 89.5 globlastp 9

WNU17_H40 eschscholzial 11 v 1 ISRRO 14116.7

1940 5169 217 89.5 globlastp 0 6220_P1

WNU17_H40

vincall lvl lSRR098690X151645 1941 5170 217 89.5 globlastp 1

WNU17_H40

marchantialgbl66IC96568_Pl 1942 5171 217 89.2 globlastp 2

WNU17_H40 pteridiumll lvl lSRR043594X10

1943 5172 217 89.2 globlastp

3 4315

WNU17_H40 arnicall lvl lSRR099034X10569

1944 5173 217 88.9 globlastp 4 8_P1

WNU17_H40

clementinel 11 v 1 IB Q624371 _P 1 1945 5174 217 88.9 globlastp 5

WNU17_H40

orangell lvllBQ624371_Pl 1946 5174 217 88.9 globlastp 6

WNU17_H40 bananal 12vl IMAGEN20120130

1947 5175 217 88.2 globlastp 7 21_P1

WNU17_H40

radishlgbl64IEV540304 1948 5176 217 88.2 globlastp 8

WNU17_H40 cirsiumll lvllSRR346952.10085

1949 5177 217 87.6 globlastp 9 00_P1

WNU17_H41 phylall lv2ISRR099035X34188_ 87.5

1950 5178 217 glotblastn 0 Tl 8

WNU17_H41

ceratodonll0vllAW086960_Pl 1951 5179 217 87.3 globlastp 1

WNU17_H41

leymuslgbl66ICN466070_Pl 1952 5180 217 86.5 globlastp 2 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU17_H41 primulall lvllSRR098679X1732 86.2

1953 5181 217 glotblastn

3 38_T1 7

WNU17_H41 onionl 12v 1 ISRR073446X 111061 85.6

1954 5182 217 glotblastn 4 D1_T1 2

WNU17_H41 bupleuruml 11 v 1 ISRR301254.12

1955 5183 217 85.6 globlastp 5 1896_P1

WNU17_H41 beechll lvl lSRR006293.31159_

1956 5184 217 85 globlastp 6 PI

WNU17_H41 84.9

centaureal 11 v 1 IEH741113_T 1 1957 5185 217 glotblastn 7 7

WNU17_H41

cyamopsisll0vllEG987548_Pl 1958 5186 217 83.8 globlastp 8

WNU17_H41 pteridiuml 11 vl ISRR043594X72

1959 5187 217 83.7 globlastp 9 2320

WNU17_H42 peal 11 v 1 ISRR 176797X 108079_ 83.6

1960 5188 217 glotblastn 0 Tl 6

WNU17_H42 poppyll lvllSRR096789.508923 83.6

1961 5189 217 glotblastn 1 _ 1 6

WNU17_H42 hornbeaml 12vl ISRR364455.129

1962 5190 217 83.5 globlastp 2 906_P1

WNU17_H42

safflowerlgb 162IEL387319 1963 5191 217 83.1 globlastp 3

WNU17_H42 scabiosall lvllSRR063723X128

1964 5192 217 83.1 globlastp 4 201

WNU17_H44 prunus_mumell3vl lCB822666_

1965 5193 217 82.4 globlastp 8 PI

WNU17_H44

volvoxl 12v 1 IFD826225_P 1 1966 5194 217 82.4 globlastp 9

WNU17_H42

bruguieralgbl66IBP941025_Pl 1967 5195 217 82.4 globlastp 5

WNU17_H42 cannabisll2vllSOLX00044970_

1968 5196 217 82.4 globlastp 6 PI

WNU17_H42

volvoxlgb 1621 AW772936 1969 5194 217 82.4 globlastp 7

WNU17_H42 chlamydomonaslgb 1621 AW7729

1970 5197 217 81.8 globlastp 8 35_P1

WNU17_H42

loliuml 1 Ov 11 AU246696_P 1 1971 5198 217 81.7 globlastp 9

WNU17_H43 81.0

avocadoll0vllCK749343_Tl 1972 5199 217 glotblastn 0 5

WNU17_H43 onionll2vllSRR073446X105209

1973 5200 217 80.4 globlastp 1 D1_P1

WNU17_H43 pinel 10v2ISRR036960S0414459 80.3

1974 5201 217 glotblastn 2 _ 1 9

pseudoroegnerialgbl67IFF34359

WNU18_H1 1975 218 218 100 globlastp

7 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU18_H2 ryell2vllBE586989 1976 218 218 100 globlastp

WNU18_H3 ryell2vllBE705680 1977 218 218 100 globlastp

WNU18_H4 ryell2vllDRR001012.106515 1978 218 218 100 globlastp

WNU18_H5 wheatll2v3IBE404152 1979 218 218 100 globlastp brachypodiuml 12v 1 IBRADI4G2

WNU18_H6 1980 5202 218 96.6 globlastp

6140_P1

WNU18_H7 fescuelgbl61 IDT686090_Pl 1981 5203 218 96 globlastp

WNU18_H8 loliuml 1 Ov 11 AU246279_P 1 1982 5203 218 96 globlastp

WNU18_H9 oatll lvl lG0583146_Pl 1983 5204 218 96 globlastp

WNU18_H10 oatll lvl lGO587032_Pl 1984 5204 218 96 globlastp

WNU18_H11 ryel 12v 1 IDRR001012.124006 1985 5205 218 96 globlastp

WNU18_H12 barleyll2vllBI959091_Pl 1986 5206 218 95.3 globlastp foxtail_milletll lv3IPHY7SI0269

WNU18_H13 1987 5207 218 95.3 globlastp

58M_P1

WNU18_H14 wheatll2v3IBE405456 1988 5206 218 95.3 globlastp foxtail_milletll lv3IPHY7SI0117

WNU18_H15 1989 5208 218 94.6 globlastp

04M_P1

milletl 1 Ovl IPMSLX0000156D2_

WNU18_H16 1990 5209 218 94.6 globlastp

PI

WNU18_H17 milletll0vl lPMSLX0033210_Pl 1991 5208 218 94.6 globlastp

WNU18_H18 ricell lvllBE039864 1992 5210 218 94 globlastp

WNU18_H19 ricell lvllRICRPSAAA 1993 5210 218 94 globlastp

93.9

WNU18_H20 ricell lvllBI808225 1994 5211 218 glotblastn

6 brachypodiuml 12v 1 IBRADI4G4

WNU18_H21 1995 5212 218 93.3 globlastp

3980_P1

WNU18_H22 maizell0vllAI920628_Pl 1996 5213 218 93.3 globlastp

WNU18_H23 oatll lvl lGO587074_Pl 1997 5214 218 93.3 globlastp

WNU18_H24 sorghuml 12vl ISB08G001870 1998 5215 218 93.3 globlastp

WNU18_H40 switchgrassll2vl IFE642069_P1 1999 5216 218 92.6 globlastp

WNU18_H41 switchgrassll2vl IFL740608_P1 2000 5216 218 92.6 globlastp

WNU18_H25 sorghumll2vllSB05G001680 2001 5217 218 92.6 globlastp

WNU18_H26 sugarcanell0vl lBQ536327 2002 5218 218 92.6 globlastp

WNU18_H27 sugarcanell0vl lCA066765 2003 5219 218 92.6 globlastp

WNU18_H28 s witchgras s Igb 167 IDN 140806 2004 5216 218 92.6 globlastp

WNU18_H29 switchgrasslgbl67IFE642069 2005 5216 218 92.6 globlastp milletllOvl IEV0454PM242725_

WNU18_H30 2006 5220 218 91.9 globlastp

PI

WNU18_H42 s witchgras s 112v 1 IDN 147240_P 1 2007 5221 218 91.3 globlastp

WNU18_H31 cenchruslgb 166 IEB 657189_P1 2008 5222 218 91.3 globlastp

WNU18_H32 maizell0vllAI395919_Pl 2009 5223 218 91.3 globlastp

WNU18_H33 s witchgras s Igb 167 IDN 147240 2010 5221 218 91.3 globlastp

WNU18_H34 switchgrasslgbl67IFL824347 2011 5221 218 91.3 globlastp

89.2

WNU18_H35 maizell0vllAW126613_Tl 2012 5224 218 glotblastn

6 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU18_H36 maizell0vllAW146945_Pl 2013 5225 218 86.9 globlastp

85.9

WNU18_H37 wheatll2v3ICA617476 2014 5226 218 glotblastn

1

WNU18_H38 cynodonll0vl lES301273_Pl 2015 5227 218 81.9 globlastp

WNU18_H39 fescuelgb 161 ICK801591_P1 2016 5228 218 80 globlastp

WNU19_H1 wheatll2v3IBE403638 2017 5229 219 99.9 globlastp

WNU19_H2 wheatll2v3IBE399910 2018 5230 219 99.8 globlastp

99.6

WNU19_H3 ryell2vllDRR001012.138836 2019 5231 219 glotblastn

4

WNU19_H4 ryell2vllDRR001012.148210 2020 5232 219 99.5 globlastp

WNU19_H5 wheatll2v3IBE400773 2021 5233 219 99.5 globlastp

WNU19_H6 wheatll2v3IBE400818 2022 5234 219 99.4 globlastp

WNU19_H7 wheatll2v3IBQ236190 2023 5235 219 99.4 globlastp

WNU19_H8 wheatll2v3IBF428831 2024 5236 219 99.3 globlastp

WNU19_H9 wheatll2v3IBE400787 2025 5237 219 99.2 globlastp

WNU19_H10 wheatll2v3IBE412230 2026 5238 219 98.8 globlastp

WNU19_H11 wheatll2v3IBE637890 2027 5239 219 98.7 glotblastn

WNU19_H12 ryell2vllBE495456 2028 5240 219 98.6 globlastp

WNU19_H13 ryel 12v 1 IDRROO 1012.102874 2029 5240 219 98.6 globlastp

WNU19_H14 wheatll2v3IBE402187 2030 5240 219 98.6 globlastp

WNU19_H15 wheatll2v3IBE591621 2031 5240 219 98.6 globlastp

WNU19_H16 wheatll2v3IBE400982 2032 5241 219 98.5 globlastp

98.4

WNU19_H17 ryel 12v 1 IDRROO 1012.102774 2033 5242 219 glotblastn

6

98.4

WNU19_H18 ryel 12v 1 IDRROO 1012.106463 2034 5243 219 glotblastn

6

WNU19_H19 barleyll2vllBE412416_Pl 2035 5244 219 96.8 globlastp brachypodiumll2vllBRADI3G4

WNU19_H20 2036 5245 219 96.8 globlastp

4480_P1

brachypodiumll2vllBRADI3G4

WNU19_H21 2037 5246 219 96.7 globlastp

4160_P1

WNU19_H22 wheatll2v3IBE400209 2038 5247 219 95.4 globlastp brachypodiuml 12v 1 IBRADI2G4

WNU19_H23 2039 5248 219 94.9 globlastp

5070_P1

WNU19_H24 oatll lvl lG0583982_Pl 2040 5249 219 94.9 globlastp

WNU19_H25 oatll lvl lG0586975_Pl 2041 5249 219 94.9 globlastp

WNU19_H26 ricell lvllAA749896 2042 5250 219 94.5 globlastp

94.4

WNU19_H27 ryell2vllDRR001012.103583 2043 5251 219 glotblastn

2

WNU19_H26

switchgrassll2vl IFE604024_P1 2044 5252 219 94.4 globlastp 7

foxtail_milletl 11 v3 IEC612202_P

WNU19_H28 2045 5253 219 94.4 globlastp

1

foxtail_milletll lv3IPHY7SI0209

WNU19_H29 2046 5253 219 94.4 globlastp

03M_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU19_H26

switchgrassll2vl lDN151890_Pl 2047 5254 219 94.3 globlastp 8

WNU19_H30 switchgras slgbl67IDN151890 2048 5254 219 94.3 globlastp

WNU19_H31 ricell lvllAA753882 2049 5255 219 94.2 globlastp

WNU19_H32 cenchruslgbl66IBM084104_Pl 2050 5256 219 94.1 globlastp milletllOvl IEVO454PM000899_ 94.0

WNU19_H33 2051 5257 219 glotblastn

Tl 7

WNU19_H34 sorghuml 12vl ISB03G034200 2052 5258 219 94 globlastp

93.9

WNU19_H35 sorghuml 12v 11 SB 01 G002040 2053 5259 219 glotblastn

5

93.8

WNU19_H36 ricell lvllCK032966 2054 5260 219 glotblastn

5

WNU19_H37 maizell0vllAI615128_Pl 2055 5261 219 93.7 globlastp

WNU19_H38 maizell0vllAI438426_Pl 2056 5262 219 93.6 globlastp

WNU19_H39 maizell0vllBE511139_Pl 2057 5262 219 93.6 globlastp

WNU19_H40 maizell0vllAI881430_Pl 2058 5263 219 93.5 globlastp

WNU19_H41 wheatll2v3IBJ244184 2059 5264 219 93.2 globlastp

WNU19_H26

zosterall2vl lAM766155_Pl 2060 5265 219 93.1 globlastp 9

WNU19_H42 zosterall0vl lAM766155 2061 5265 219 93.1 globlastp

WNU19_H43 oakll0vl lCU640356_Pl 2062 5266 219 92.9 globlastp

92.8

WNU19_H44 applell lvllCN544862_Tl 2063 5267 219 glotblastn

8

WNU19_H27 nicotiana_benthamianal 12v 1 IB P

2064 5268 219 92.8 globlastp 0 748244_P1

WNU19_H45 clementinell lvl lBE208967_Pl 2065 5269 219 92.8 globlastp

WNU19_H46 orangell lvllBE208967_Pl 2065 5269 219 92.8 globlastp gossypium_raimondiil 12v 1 IBF26

WNU19_H47 2066 5270 219 92.8 globlastp

8145_P1

WNU19_H48 sugarcanell0vl lBQ535682 2067 5271 219 92.8 globlastp

WNU19_H27

castorbeanll2vl lT15194_Pl 2068 5272 219 92.6 globlastp 1

WNU19_H49 aquilegial 10v2IDT751509_P 1 2069 5273 219 92.6 globlastp

WNU19_H51 cottonll lvllBF268145_Pl 2070 5274 219 92.6 globlastp

WNU19_H52 kiwilgbl66IFG397283_Pl 2071 5275 219 92.6 globlastp

WNU19_H53 kiwilgbl66IFG404148_Pl 2072 5276 219 92.6 globlastp sequoial 1 Ovl ISRR065044S0011 92.5

WNU19_H54 2073 5277 219 glotblastn

432XX1 3 blueberryll2vllSRR353282X126

WNU19_H55 2074 5278 219 92.5 globlastp

15D1_P1

WNU19_H56 cacaoll0vllCA795785_Pl 2075 5279 219 92.5 globlastp tripterygiumll 1 vl ISRR098677X

WNU19_H57 2076 5280 219 92.5 globlastp

100553

WNU19_H27 92.4

castorbeanll2vl lEE255306_Tl 2077 5281 219 glotblastn 2 1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU19_H27 prunus_mumell3vl lBU040103_

2078 5282 219 92.4 globlastp 3 PI

blueberryll2vllSRR353282X101

WNU19_H58 2079 5283 219 92.4 globlastp

483D1_P1

WNU19_H59 castorbeanll lvl lEE255306 2080 5284 219 92.4 globlastp

WNU19_H60 cottonl 11 v 11 AI726506_P 1 2081 5285 219 92.4 globlastp

WNU19_H61 cottonll lvllCO080174_Pl 2082 5286 219 92.4 globlastp gossypium_raimondiil 12v 11 AI05

WNU19_H62 2083 5285 219 92.4 globlastp

4588_P1

tripterygiumll 1 vl ISRR098677X

WNU19_H63 2084 5287 219 92.4 globlastp

100942

chelidoniuml 11 vl ISRR084752X

WNU19_H64 2085 5288 219 92.3 globlastp

101391_P1

chestnutlgbl70ISRR006295S000

WNU19_H65 2086 5289 219 92.3 globlastp

0411_P1

WNU19_H66 cottonll lvllBG442749_Pl 2087 5290 219 92.3 globlastp

WNU19_H67 cucumber I09v 1 IDN910064_P 1 2088 5291 219 92.3 globlastp

WNU19_H68 eucalyptusll lv2ICD668782_Pl 2089 5292 219 92.3 globlastp maritime_pinell0vllBX250736_

WNU19_H69 2090 5293 219 92.3 globlastp

PI

beechl 11 vl ISRR006293.21436_ 92.2

WNU19_H70 2091 5294 219 glotblastn

Tl 9 bananal 12v 1 IMAGEN20120023

WNU19_H71 2092 5295 219 92.2 globlastp

15_P1

WNU19_H72 cottonll lvllAI054588_Pl 2093 5296 219 92.2 globlastp

WNU19_H73 medicagol 12vl IAW256374_P1 2094 5297 219 92.2 globlastp

WNU19_H74 melonll0vllDV631712_Pl 2095 5298 219 92.2 globlastp oiLpalml 11 v 1 ISRR 190698.1279

WNU19_H75 2096 5299 219 92.2 globlastp

55_P1

watermelonll lvllVMEL005577

WNU19_H76 2097 5300 219 92.2 globlastp

38492956

sequoiall0vl lSRR065044S0006 92.1

WNU19_H77 2098 5301 219 glotblastn

876 7

WNU19_H78 coffeall0vllDV665586_Pl 2099 5302 219 92.1 globlastp gossypium_raimondiil 12v 11 AI72

WNU19_H79 2100 5303 219 92.1 globlastp

8565_P1

WNU19_H80 pepperll2vllBM063010_Pl 2101 5304 219 92.1 globlastp phylall 1 v2ISRR099035X100521

WNU19_H81 2102 5305 219 92.1 globlastp

XX1_P1

plantagoll 1 V2ISRR066373X100

WNU19_H82 2103 5306 219 92.1 globlastp

2_P1

WNU19_H83 poplarll0vl lAI165397 2104 5307 219 92.1 globlastp

WNU19_H83 poplarll3vl lAI165397_Pl 2105 5308 219 92.1 globlastp

WNU19_H84 prunusll0vl lBU040103 2106 5309 219 92.1 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

soybeanl 11 vl IGLYMA08G1811

WNU19_H85 2107 5310 219 92.1 globlastp

0

soybeanl 12vl IGLYMA08G1811

WNU19_H85 2108 5310 219 92.1 globlastp

0_P1

WNU19_H86 sprucell lvllES227777 2109 5311 219 92.1 globlastp

WNU19_H87 watermelonl 11 v 1 ICK755729 2110 5312 219 92.1 globlastp

92.0

WNU19_H88 castorbeanl 11 vl IRCPRD038497 2111 5313 219 glotblastn

5 euonymus 111 v 11 SRR070038X10 91.9

WNU19_H89 2112 5314 219 glotblastn

3715_T1 3

WNU19_H27

beanll2v2ICA898094_Pl 2113 5315 219 91.9 globlastp 4

WNU19_H90 bananal 12vl IES433164_P1 2114 5316 219 91.9 globlastp

WNU19_H92 cassaval09vl ICK643184_P1 2115 5317 219 91.9 globlastp maritime_pinel 1 Ov 11 AL751264_

WNU19_H93 2116 5318 219 91.9 globlastp

PI

WNU19_H94 poplarll0vl lBU822969 2117 5319 219 91.9 globlastp

WNU19_H94 poplarll3vl lBU822969_Pl 2118 5319 219 91.9 globlastp

WNU19_H95 potatoll0vllAJ235757_Pl 2119 5320 219 91.9 globlastp solanum_phurejal09vl ISPHAJ23

WNU19_H96 2120 5321 219 91.9 globlastp

5757

soybeanll lvl lGLYMA15G4086

WNU19_H97 2121 5322 219 91.9 globlastp

0

soybeanll2vl lGLYMA15G4086

WNU19_H97 2122 5322 219 91.9 globlastp

0_P1

WNU19_H98 s witchgras s Igb 167 IDN 142408 2123 5323 219 91.9 globlastp

WNU19_H10

poplarll3vl lBI120895_Pl 2124 5324 219 91.9 globlastp 5

91.8

WNU19_H99 pinell0v2IBE123819_Tl 2125 5325 219 glotblastn

3

WNU19_H10 91.8

cottonll lvllEX170767_Tl 2126 5326 219 glotblastn 0 1

WNU19_H10

cassaval09vl ICK644865_P1 2127 5327 219 91.8 globlastp 1

WNU19_H10

cowpeall2vl lFC459752_Pl 2128 5328 219 91.8 globlastp 2

WNU19_H10

oil_palmll lvl lEL682836_Pl 2129 5329 219 91.8 globlastp

3

WNU19_H10

peanutll0vl lES709584_Pl 2130 5330 219 91.8 globlastp 4

WNU19_H10

poplarll0vl lBI120895 2131 5331 219 91.8 globlastp 5

WNU19_H10

prunusll0vl lBU040347 2132 5332 219 91.8 globlastp 6 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU19_H10

strawberry 111 vl 1 AF041392 2133 5333 219 91.8 globlastp 7

WNU19_H10 tabernaemontanall lvl lSRR0986

2134 5334 219 91.8 globlastp 8 89X100806

WNU19_H10 taxusll0vl lSRR032523S000090

2135 5335 219 91.8 globlastp 9 5

WNU19_H27 oleal 13 v 1 ISRRO 14463X 19360D

2136 5336 219 91.7 globlastp 5 1_P1

WNU19_H11 arnicall lvl lSRR099034X10022

2137 5337 219 91.7 globlastp 0 3_P1

WNU19_H11

cycaslgbl66ICB093374_Pl 2138 5338 219 91.7 globlastp 1

WNU19_H11 eschscholzial 11 vl ICD481525_T

2139 5339 219 91.7 glotblastn 2 1

WNU19_H11

lettucell2vl IDW044734_P1 2140 5340 219 91.7 globlastp

3

WNU19_H11

medicagoll2vl lAW698719_Pl 2141 5341 219 91.7 globlastp 4

WNU19_H11 sciadopitysll0vl lSRR065035S00

2142 5342 219 91.7 globlastp 5 02676

WNU19_H11

tomatoll lvl lAJ235757 2143 5343 219 91.7 globlastp 6

WNU19_H27

chickpeall3v2IFL512382_Pl 2144 5344 219 91.6 globlastp 6

WNU19_H27 zosterall2vl lSRR057351X11068

2145 5345 219 91.6 globlastp 7 9D1_P1

WNU19_H11 ambrosial l lvl lSRR346935.1014

2146 5346 219 91.6 globlastp 7 23_P1

WNU19_H11 amorphophallusll lv2ISRR08935

2147 5347 219 91.6 globlastp 8 1X109177_P1

WNU19_H11

cannabisll2vllGR220889_Pl 2148 5348 219 91.6 globlastp 9

WNU19_H12 podocarpusll0vllSRR065014S0

2149 5349 219 91.6 globlastp 0 000383_P1

WNU19_H12 poppyll lvllSRR030259.101698

2150 5350 219 91.6 globlastp 1 _P1

WNU19_H12

rosell2vllBQ105854 2151 5351 219 91.6 globlastp 2

WNU19_H12

sunflower 112v 1 ID Y921242 2152 5352 219 91.6 globlastp 3

WNU19_H12

vincall lvl lSRR098690X104327 2153 5353 219 91.6 globlastp 4

WNU19_H12 zosterall0vl lSRR057351S00055

2154 5345 219 91.6 globlastp 5 94

WNU19_H27

chickpeal 13v2IFL512400_P1 2155 5354 219 91.5 globlastp 8 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU19_H27

chickpeal 13 v2IGR913128_P1 2156 5354 219 91.5 globlastp 9

WNU19_H28

chickpeal 13 v2IGR915293_P1 2157 5354 219 91.5 globlastp 0

WNU19_H28 oleal 13 v 1 ISRRO 14463X 10479D

2158 5355 219 91.5 globlastp 1 1_P1

WNU19_H28 oleal 13 v 1 ISRRO 14463X 11586D

2159 5355 219 91.5 globlastp 2 1_P1

WNU19_H12 amsoniall lvllSRR098688X1061

2160 5356 219 91.5 globlastp 6 09_P1

WNU19_H12

catharanthusll lvllEG555169_Pl 2161 5357 219 91.5 globlastp 7

WNU19_H12

chickpeal 11 vl IGR407290XX1 2162 5354 219 91.5 globlastp 8

WNU19_H12

chickpeal 13v2IGR407290_Pl 2163 5354 219 91.5 globlastp 8

WNU19_H12

clementinell lvl lCB250306_Pl 2164 5358 219 91.5 globlastp 9

WNU19_H13 distyliuml l lvl ISRR065077X 104

2165 5359 219 91.5 globlastp 0 71_P1

WNU19_H13 euphorbiall lvllSRR098678X10

2166 5360 219 91.5 globlastp 1 0925_P1

WNU19_H13

orangell lvllCB250306_Pl 2167 5361 219 91.5 globlastp 2

WNU19_H13 poppyll lvllSRR030259.104984

2168 5362 219 91.5 globlastp 3 XX2_P1

WNU19_H13 pseudotsugal 1 Ov 1 ISRR065119S0

2169 5363 219 91.5 globlastp 4 000457

WNU19_H13

sunflower 112v 1 IBU671851 2170 5364 219 91.5 globlastp 5

WNU19_H13 trigonellal l lvl ISRR066194X 180

2171 5365 219 91.5 globlastp 6 483

WNU19_H13

vincall lvl lSRR098690X101897 2172 5366 219 91.5 globlastp 7

WNU19_H13

watermelonll lvllCK765820 2173 5367 219 91.5 globlastp 8

WNU19_H13 91.4

artemisiall0vl lEY033582_Tl 2174 5368 219 glotblastn 9 6

WNU19_H14 cephalotaxusll lvllSRR064395X 91.4

2175 5369 219 glotblastn 0 100945_T1 6

WNU19_H14 trigonellal l lvl ISRR066194X 100 91.4

2176 5370 219 glotblastn 1 299 6

WNU19_H14

pigeonpeall lvllGR467899_Pl 2177 5371 219 91.4 globlastp 2

WNU19_H28 91.3

chickpeal 13 v2IGR916248_T 1 2178 5372 219 glotblastn 3 4 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU19_H28

chickpeall3v2IGR401562_Pl 2179 5373 219 91.3 globlastp 4

WNU19_H28 monkeyflowerl 12vl IDV205820_

2180 5374 219 91.3 globlastp 5 PI

WNU19_H14 euonymus 111 v 11 SRR070038X10

2181 5375 219 91.3 globlastp

3 546_P1

WNU19_H14 grapel 11 v 1 IGS VIVTO 102040400

2182 5376 219 91.3 globlastp 4 1_P1

WNU19_H14

monkeyflowerl lOvl IDV205820 2183 5374 219 91.3 globlastp 5

WNU19_H14

poppyll lvllFE967696_Pl 2184 5377 219 91.3 globlastp 6

WNU19_H14 amorphophallusll lv2ISRR08935 91.2

2185 5378 219 glotblastn 7 1X105225_T1 2

WNU19_H14 91.2

centaureal 11 v 1 IEH762970_T 1 2186 5379 219 glotblastn 8 2

WNU19_H14 poppy 111 v 1 ISRR030259.104501 91.2

2187 5380 219 glotblastn 9 _ 1 2

WNU19_H15 91.2

sunflower 112v 1 ID Y907212 2188 5381 219 glotblastn 0 2

WNU19_H15

aquilegiall0v2IDR917334_Pl 2189 5382 219 91.2 globlastp 1

WNU19_H15 arabidopsis_lyratal09vl IJGIAL0

2190 5383 219 91.2 globlastp 2 05090_P1

WNU19_H15

b_rapall lvllBG544120_Pl 2191 5384 219 91.2 globlastp 3

WNU19_H15

poppyll lvllFE967193_Pl 2192 5385 219 91.2 globlastp 4

WNU19_H15 poppy 111 v 1 ISRR030264.247963

2193 5386 219 91.2 globlastp 5 _P1

WNU19_H15 poppyll lvllSRR030266.52245_

2194 5387 219 91.2 globlastp 6 PI

WNU19_H15

ryel 12v 1 IDRR001012.110872 2195 5388 219 91.2 globlastp 7

WNU19_H15 valerianal 11 vl ISRR099039X 100

2196 5389 219 91.2 globlastp 8 187

WNU19_H15 abiesll lv2ISRR098676X100456

2197 5390 219 91.1 globlastp 9 _P1

WNU19_H16

canolal 11 v 1 IEV010917_P 1 2198 5391 219 91.1 globlastp 0

WNU19_H16 cedrusl 11 v 1 ISRR065007X 10065

2199 5392 219 91.1 globlastp 1 7_P1

WNU19_H16 oiLpalml 11 vl ISRR 190698.1676

2200 5393 219 91.1 globlastp 2 21XX1_P1

WNU19_H16 poppy 111 v 1 ISRR030259.122349

2201 5394 219 91.1 glotblastn 3 _ 1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU19_H16

sunflower 112v 1 ID Y906203 2202 5395 219 91.1 globlastp 4

WNU19_H16

canolall lvllCN734558_Pl 2203 5396 219 91 globlastp 5

WNU19_H16

canolall lvllDY010660_Pl 2204 5397 219 91 globlastp 6

WNU19_H16 grapel 11 v 1 IGS VIVTO 102040500

2205 5398 219 91 glotblastn 7 1_T1

WNU19_H16 thellungiella_halophilumll lvl ID

2206 5399 219 91 globlastp 8 N774158

WNU19_H16 90.9

dandelionl 1 Ovl ID Y819449_T 1 2207 5400 219 glotblastn 9 8

WNU19_H17 poppyll lvllSRR030259.293113 90.9

2208 5401 219 glotblastn 0 _ 1 8

WNU19_H17 amorphophallusll lv2ISRR08935

2209 5402 219 90.9 globlastp 1 1X101426_P1

WNU19_H17

canolall lvllDY003089_Pl 2210 5403 219 90.9 globlastp 2

WNU19_H17 gossypium_raimondiil 12v 11 SRR

2211 5404 219 90.9 globlastp 3 032367.160520_P1

WNU19_H17

silenell lvl lGH294619 2212 5405 219 90.9 globlastp 4

WNU19_H17 phalaenopsisll lvl lCB033076XX 90.8

2213 5406 219 glotblastn 5 1_T1 7

WNU19_H17

aquilegiall0v2IDR944068_Pl 2214 5407 219 90.8 globlastp 6

WNU19_H17 90.7

b_rapall lvllBG544324_Tl 2215 5408 219 glotblastn 7 7

WNU19_H17 90.7

b_rapall lvllCA992361_Tl 2216 5409 219 glotblastn 8 5

WNU19_H17 90.7

canolall lvllEE451187_Tl 2217 5410 219 glotblastn 9 5

WNU19_H18 canolall lvllSRR019559.14594_ 90.7

2218 5411 219 glotblastn 0 Tl 5

WNU19_H18 pinell0v2ISRR036960S0020056 90.7

2219 5412 219 glotblastn 1 _ 1 5

WNU19_H18

amborellal 12v3 ICK743454_P 1 2220 5413 219 90.7 globlastp 2

WNU19_H18 arabidopsisll0vl lATlG56070_P

2221 5414 219 90.7 globlastp 3 1

WNU19_H18 arnicall lvl lSRR099034X10148

2222 5415 219 90.7 globlastp 4 _P1

WNU19_H18

b_rapall lvllCD816353_Pl 2223 5416 219 90.7 globlastp 5

WNU19_H18 fiaverial 11 vl ISRR 149229.20922

2224 5417 219 90.7 globlastp 6 3_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU19_H18 podocarpusll0vllSRR065014S0

2225 5418 219 90.7 globlastp 7 003736_P1

WNU19_H18 ambrosial l lvl ISRR346935.1025 90.6

2226 5419 219 glotblastn 8 33_T1 3

WNU19_H18 flaveriall lvl lSRR149229.19714 90.6

2227 5420 219 glotblastn 9 _ 1 3

WNU19_H19

beetl 12v 11 AW777202_P 1 2228 5421 219 90.6 globlastp 0

WNU19_H19 pigeonpeal l lvl ISRR054580X 12

2229 5422 219 90.6 globlastp 1 7546_P1

WNU19_H19 thellungiella_halophilumll lvl IE 90.5

2230 5423 219 glotblastn 2 HPRD038761 3

WNU19_H19 gnetumi 1 Ov 1 ISRR064399S00006 90.5

2231 5424 219 glotblastn 3 63_T1 1

WNU19_H19 barleyl 12v 1 IHV 12v 1 PRD005943

2232 5425 219 90.5 globlastp 4 _P1

WNU19_H19

silenell lvl lSRR096785X102916 2233 5426 219 90.5 globlastp 5

WNU19_H28 monkeyflowerl 12vl IGR149027_

2234 5427 219 90.4 globlastp 6 PI

WNU19_H19 amsoniall lvllSRR098688X1011

2235 5428 219 90.4 globlastp 6 9_P1

WNU19_H19 eschscholzial l lvl ICD478945_P

2236 5429 219 90.4 globlastp 7 1

WNU19_H19 90.1

sunflower 112v 1 ID Y932904 2237 5430 219 glotblastn 9 5

WNU19_H20 eschscholzial l lvllCD480167_T 90.0

2238 5431 219 glotblastn 0 1 4

WNU19_H20

lettucell2vl lDW121631_Pl 2239 5432 219 90 globlastp 1

WNU19_H20 thellungiella_parvuluml 11 v 1 IDN

2240 5433 219 90 globlastp 2 774158

WNU19_H20

ryel 12v 1 IDRR001012.232598 2241 5434 219 89.9 globlastp 3

WNU19_H20

fernlgbl71IBP911956_Pl 2242 5435 219 89.8 globlastp 4

WNU19_H20 pteridiumll lvl lSRR043594X10 89.6

2243 5436 219 glotblastn 5 0314 8

WNU19_H20 ceratodonll0vllSRR074890S003

2244 5437 219 89.4 globlastp 6 2700_P1

WNU19_H20 ceratodonll0vllSRR074890S004

2245 5437 219 89.4 globlastp 7 4795_P1

WNU19_H20 ceratodonll0vllSRR074890S034

2246 5437 219 89.4 globlastp 8 0761_P1

WNU19_H20 ceratodonll0vllSRR074890S058

2247 5437 219 89.4 globlastp 9 1270_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU19_H21 ceratodonl 1 Ov 1 ISRR074891 SOOO

2248 5437 219 89.4 globlastp 0 0040_P1

WNU19_H21 phalaenopsisll lvl lCB032840_T 89.3

2249 5438 219 glotblastn 1 1 2

WNU19_H21

applell lvllMDP0000362791_Pl 2250 5439 219 89.3 globlastp 2

WNU19_H21

ryel 12v 1 IDRR001012.192575 2251 5440 219 89.3 globlastp 3

WNU19_H21 foxtail_milletll lv3IEC612436_T 89.2

2252 5441 219 glotblastn 4 1 4

WNU19_H28 nicotiana_benthamianal 12v 1 IB P

2253 5442 219 89.2 globlastp 7 747399_P1

WNU19_H21

iceplantlgbl64IBE033655_Pl 2254 5443 219 89.2 globlastp 5

WNU19_H21 physcomitrellal 1 Ov 1 IB J 160823_

2255 5444 219 89.2 globlastp 6 PI

WNU19_H21 physcomitrellal 1 Ov 1 IB J 170123_

2256 5444 219 89.2 globlastp 7 PI

WNU19_H21 cirsiumll lvllSRR346952.10843

2257 5445 219 89.1 globlastp 8 8_P1

WNU19_H21 euonymus 111 v 11 SRR070038X10

2258 5446 219 89 globlastp 9 5533_P1

WNU19_H22 poppy 111 v 1 ISRR030263.471933 88.6

2259 5447 219 glotblastn 0 _ 1 1

WNU19_H22 physcomitrellal 1 Ov 11 AJ225456_

2260 5448 219 88.6 globlastp 1 PI

WNU19_H22 physcomitrellal 1 Ov 11 AW699268

2261 5448 219 88.6 globlastp 2 _P1

WNU19_H22

marchantialgb 1661 AU081662_P 1 2262 5449 219 88.5 globlastp 3

WNU19_H22

triphysarial lOvl IBE574729 2263 5450 219 88.5 globlastp 4

WNU19_H22 aristolochiall0vl lSRR039082S0

2264 5451 219 88.3 globlastp 5 012185_P1

WNU19_H22 thellungiella_parvuluml 11 v 1 IEP

2265 5452 219 88.2 globlastp 6 PRD007851

WNU19_H22 88.0

ryell2vllBE494935 2266 5453 219 glotblastn 7 2

WNU19_H22

ricell lvllCA758982 2267 5454 219 87.9 globlastp 8

WNU19_H22 87.7

b_rapal 11 v 1 IDN960595_T 1 2268 5455 219 glotblastn 9 8

WNU19_H23 poppy 111 v 1 ISRR030259.100177 87.7

2269 5456 219 glotblastn 0 _ 1 8

WNU19_H23 arabidopsisll0vl lAT3G12915_T 87.5

2270 5457 219 glotblastn 1 1 4 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU19_H23 87.2

canolal l lvl IEE482007_T 1 22 Ί 5458 219 glotblastn 2 9

WNU19_H23 arabidopsis_lyratal09vl IJGIALO

2272 5459 219 87.1 globlastp 3 09721_P1

WNU19_H23 flaveriall lvl lSRR149229.31159

2273 5460 219 87 globlastp 4 5_P1

WNU19_H23 86.9

ryel 12v 1 IDRR001012.112903 2274 5461 219 glotblastn 5 5

WNU19_H23

milletll0vl lCD726649_Pl 2275 5462 219 86.1 globlastp 6

WNU19_H23

ryel 12v 1 IDRROO 1012.106277 2276 5463 219 86.1 globlastp 7

WNU19_H23 poppy 1 l lvl ISRR030259.124447 85.8

2277 5464 219 glotblastn 8 _ 1 8

WNU19_H23 85.5

ryel 12v 1 IDRROO 1012.190424 2278 5465 219 glotblastn 9 3

WNU19_H24

pinell0v2IAL751264_Pl 2279 5466 219 85.3 globlastp 0

WNU19_H24 85.2

millet 11 Ov 1 ICD726405_T 1 2280 5467 219 glotblastn 1 9

WNU19_H24 poppy 1 l lvl ISRR030259.104877

2281 5468 219 85.2 globlastp 2 _P1

WNU19_H24

canolal l lvl ID Y030623_P 1 2282 5469 219 84.8 globlastp 3

WNU19_H24 cirsiumll lvllSRR346952.12208

2283 5470 219 84.7 glotblastn 4 4_T1

WNU19_H24 platanusll lvl lSRR096786X1026

2284 5471 219 84.7 globlastp 5 81_P1

WNU19_H24

ryell2vllBE495426 2285 5472 219 84.7 glotblastn 6

WNU19_H24 thellungiella_parvuluml 11 v 1 IEP

2286 5473 219 84.7 globlastp 7 CRP021744

WNU19_H24

sugarcanell0vl lBQ534204 2287 5474 219 84.6 globlastp 8

WNU19_H24

medicagoll2vl lAL385115_Pl 2288 5475 219 84.5 globlastp 9

WNU19_H25

ryel 12vllDRR001012.119895 2289 5476 219 84.4 globlastp 0

WNU19_H25

aris tolochial 1 Ov 1 IFD748819_P 1 2290 5477 219 84.3 globlastp 1

WNU19_H25 83.8

pinell0v2IAW290225_Tl 2291 5478 219 glotblastn 2 7

WNU19_H25 83.8

wheatll2v3ICA499280 2292 5479 219 glotblastn 3 7

WNU19_H25

cottonll lvllAI728565_Pl 2293 5480 219 83.3 globlastp 4 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU19_H25 trigonellal 11 v 1 ISRR066194X 118

2294 5481 219 83.3 globlastp 5 373

WNU19_H25 83.0

ryell2vllDRR001012.198013 2295 5482 219 glotblastn 6 6

WNU19_H25

cucumberl09vllCV003974_Pl 2296 5483 219 82.8 globlastp 7

WNU19_H25 82.2

ryell2vllBF145953 2297 5484 219 glotblastn 8 1

WNU19_H25 81.9

canolall lvllCN731489_Tl 2298 5485 219 glotblastn 9 7

WNU19_H26 poppyll lvllSRR030259.106828

2299 5486 219 81.7 globlastp 0 _P1

WNU19_H26 poppyll lvllSRR030259.151268 81.6

2300 5487 219 glotblastn 1 _ 1 1

WNU19_H26 pigeonpeal 11 v 1 ISRR054580X 13

2301 5488 219 81.5 globlastp 2 2043_P1

WNU19_H26

ryell2vllBE705036 2302 5489 219 80.8 globlastp 3

WNU19_H28 beanl 12v2ISRR090491.1128737

2303 5490 219 80.7 globlastp 8 _P1

WNU19_H26 poppy 111 v 1 ISRR030259.110118 80.4

2304 5491 219 glotblastn 4 _ 1 3

WNU19_H26

beanll2vllSRR001335.271437 2305 5492 219 80.2 globlastp 5

WNU19_H26 pteridiumll lvl lSRR043594X10 80.0

2306 5493 219 glotblastn 6 372 7

WNU20_H1 wheatll2v3IBE500467 2307 5494 220 99.4 globlastp

WNU20_H2 ryell2vllDRR001012.111146 2308 5495 220 98.9 globlastp

WNU20_H3 wheatll2v3ICD902583 2309 5496 220 98.9 globlastp

WNU20_H4 wheatll2v3IBE405418 2310 5497 220 98.7 globlastp

WNU20_H5 wheatll2v3ICD936120 2311 5498 220 98.7 globlastp brachypodiumll2vllBRADI3G4

WNU20_H6 2312 5499 220 95.5 globlastp

2010_P1

WNU20_H7 oatll lvl lGO590260_Pl 2313 5500 220 94.5 globlastp

WNU20_H8 ricell lvllAA749701 2314 5501 220 90.9 globlastp

WNU20_H9 sorghuml 12vl ISB07G025240 2315 5502 220 89.2 globlastp

WNU20_H10 sorghuml 12vl ISB02G030270 2316 5503 220 88.9 globlastp

WNU20_H11 sugarcanell0vl lBQ533680 2317 5504 220 88.9 globlastp foxtail_milletll lv3IPHY7SI0297

WNU20_H12 2318 5505 220 88.7 globlastp

36M_P1

WNU20_H26 switchgrassll2vl lDN146648_Pl 2319 5506 220 88.5 globlastp

WNU20_H13 maizell0vllAI491230_Pl 2320 5507 220 88.3 globlastp

WNU20_H14 sugarcanell0vl lCA131260 2321 5508 220 88.3 globlastp

WNU20_H15 switchgrasslgbl67IFL694429 2322 5509 220 88.3 globlastp

LYD75_H35 switchgrassll2vl lFE638577_Pl 2323 5510 220 87.9 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

milletl 1 Ovl IEVO454PM001616_

WNU20_H16 2324 5511 220 87.9 globlastp

PI

87.2

WNU20_H17 cenchruslgbl66IEB656001_Tl 2325 5512 220 glotblastn

3

WNU20_H18 ricell lvllAU082931 2326 5513 220 87 globlastp

WNU20_H19 switchgrasslgbl67IFE610787 2327 5514 220 80.7 globlastp

WNU20_H27 switchgrassll2vl lFE610787_Pl 2328 5515 220 80.5 globlastp brachypodiumll2vllBRADIlG7

WNU20_H20 2329 5516 220 80.5 globlastp

7290_P1

foxtail_milletll lv3IPHY7SI0355

WNU20_H21 2330 5517 220 80.5 globlastp

65M_P1

WNU20_H22 ricell lvllBI796408 2331 5518 220 80.3 globlastp

WNU20_H23 sorghuml 12v 11 SB 01 G049310 2332 5519 220 80.3 globlastp

WNU20_H24 oil_palmll lvl lEL691753_Pl 2333 5520 220 80.2 globlastp

WNU20_H25 maizell0vllAW052854_Pl 2334 5521 220 80 globlastp

WNU22_H2 ryel 12v 1 IDRR001012.160458 2335 5522 222 90.8 globlastp

WNU22_H3 oatll lvl lGR353093_Pl 2336 5523 222 81.5 globlastp

WNU23_H1 barleyl 12v 11 AK367025_P 1 2337 5524 223 99.8 globlastp

WNU23_H2 ryell2vllBE586979 2338 5525 223 97.8 globlastp

97.5

WNU23_H3 wheatll2v3IBE401772 2339 5526 223 glotblastn

1 pseudoroegnerialgb 167 IFF35026

WNU23_H4 2340 5527 223 97.5 globlastp

2

brachypodiumi 12v 1 IBRADI4G2

WNU23_H5 2341 5528 223 93.3 globlastp

7550_P1

WNU23_H6 oatll lvl lCN814765_Pl 2342 5529 223 92.8 globlastp

WNU23_H7 sorghuml 12vl ISB02G020360 2343 5530 223 82.8 globlastp

WNU23_H8 sugarcanell0vl lCA067379 2344 5531 223 81.3 globlastp

WNU23_H9 ricell lvllAA231803 2345 5532 223 81.2 globlastp

WNU23_H15 switchgrassll2vl lFE603748_Pl 2346 5533 223 80.9 globlastp

WNU23_H10 maizel lOvl IZMU66403_P1 2347 5534 223 80.9 globlastp

WNU23_H11 switchgrasslgbl67IFE603748 2348 5535 223 80.4 globlastp

WNU23_H12 maizel lOvl IZMU66404_P1 2349 5536 223 80.2 globlastp milletllOvl IEVO454PM003523_

WNU23_H13 2350 5537 223 80.2 globlastp

PI

foxtail_milletll lv3IEC613874_P

WNU23_H14 2351 5538 223 80.1 globlastp

1

WNU25_H1 wheatll2v3IBE399516 2352 224 224 100 globlastp

WNU25_H2 ryel 12vllDRR001012.10261 2353 5539 224 99.1 globlastp

WNU25_H3 oatll lvl lG0582349_Pl 2354 5540 224 97.3 globlastp

WNU25_H4 oatll lvl lG0586833_Pl 2355 5541 224 97.3 globlastp

WNU25_H5 loliuml 1 Ov 11 AU250680_P 1 2356 5542 224 96.4 globlastp

WNU25_H6 oatll lvl lGR318164_Pl 2357 5543 224 96.4 globlastp brachypodiumll2vllBRADI3G6

WNU25_H7 2358 5544 224 94.6 globlastp

0180_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU25_H8 cynodonll0vl lES293470_Pl 2359 5545 224 91.1 globlastp

WNU25_H9 cenchruslgbl66IEB654878_Pl 2360 5546 224 90.2 globlastp foxtail_milletll lv3IPHY7SI0193

WNU25_H10 2361 5546 224 90.2 globlastp

43M_P1

WNU25_H11 milletll0vl lCD726269_Pl 2362 5546 224 90.2 globlastp milletllOvl IEVO454PM078222_

WNU25_H12 2363 5546 224 90.2 globlastp

PI

WNU25_H24

switchgrassll2vl lDN144110_Pl 2364 5547 224 89.3 globlastp 3

WNU25_H13 lovegrasslgbl67IEH184754_Pl 2365 5548 224 89.3 globlastp

WNU25_H14 maizell0vllAI586898_Pl 2366 5549 224 89.3 globlastp

WNU25_H15 maizel lOvl IAI920462_P1 2367 5550 224 89.3 globlastp

WNU25_H16 sorghumll2vllSB04G035260 2368 5551 224 89.3 globlastp

WNU25_H17 sugarcanell0vl lCA085045 2369 5551 224 89.3 globlastp

WNU25_H18 switchgrasslgbl67IDN144110 2370 5547 224 89.3 globlastp

WNU25_H19 switchgrasslgbl67IFE605308 2371 5552 224 89.3 globlastp

WNU25_H24 89.2

switchgrassll2vl lFE605308_Tl 2372 5553 224 glotblastn 4 9

WNU25_H20 barleyll2vllBF621135_Pl 2373 5554 224 88.4 globlastp foxtail_milletll lv3IEC613076_P

WNU25_H21 2374 5555 224 88.4 globlastp

1

WNU25_H22 maizell0vllAI861705_Pl 2375 5555 224 88.4 globlastp

WNU25_H23 oatll lvl lG0585912_Pl 2376 5556 224 88.4 globlastp

WNU25_H24 sorghuml 12vl ISB02G022800 2377 5555 224 88.4 globlastp

WNU25_H25 sorghuml 12v 11 SB 10G006160 2378 5555 224 88.4 globlastp

WNU25_H26 sugarcanell0vl lCA073479 2379 5555 224 88.4 globlastp

WNU25_H27 sugarcanell0vl lCA080489 2380 5555 224 88.4 globlastp

WNU25_H28 s witchgras s Igb 167 IDN 144952 2381 5555 224 88.4 globlastp

WNU25_H29 wheatll2v3ICA617426 2382 5557 224 88.4 globlastp

WNU25_H24

switchgrassll2vl lDN144952_Pl 2383 5558 224 87.5 globlastp 5

brachypodiumll2vllBRADIlG4

WNU25_H30 2384 5559 224 87.5 globlastp

6840T2_P1

WNU25_H31 maizel lOvl IAI649449_P1 2385 5560 224 87.5 globlastp

WNU25_H32 oatll lvl lG0587688_Pl 2386 5561 224 87.5 globlastp pseudoroegnerialgb 167 IFF34044

WNU25_H33 2387 5562 224 87.5 globlastp

4

WNU25_H34 ricell lvllBI798607 2388 5563 224 87.5 globlastp

WNU25_H35 wheatll2v3ICA484758 2389 5564 224 87.5 globlastp

WNU25_H24

switchgrassll2vl lFE598493_Pl 2390 5565 224 86.6 globlastp 6

brachypodiumll2vllBRADI4Gl

WNU25_H36 2391 5566 224 86.6 globlastp

6690T3_P1

WNU25_H37 ryell2vllBE587162 2392 5567 224 86.6 globlastp

WNU25_H38 ryel 12v 1 IDRR001012.117644 2393 5567 224 86.6 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU25_H39 ryell2vllDRR001012.126188 2394 5567 224 86.6 globlastp

WNU25_H40 ryel 12v 1 IDRR001013.116024 2395 5567 224 86.6 globlastp

WNU25_H41 switchgrasslgbl67IFE598493 2396 5565 224 86.6 globlastp

WNU25_H42 wheatll2v3IBE398239 2397 5568 224 86.6 globlastp

WNU25_H43 wheatll2v3IBE415850 2398 5568 224 86.6 globlastp

WNU25_H24

switchgrassll2vl lFE612122_Pl 2399 5569 224 84.8 globlastp 7

WNU25_H24

switchgrassll2vl lFL823395_Pl 2400 5570 224 84.8 globlastp 8

milletllOvl IEVO454PM026346_

WNU25_H44 2401 5569 224 84.8 globlastp

PI

WNU25_H45 s witchgras s Igb 167 IFE612122 2402 5570 224 84.8 globlastp thellungiella_parvuluml 11 v 1 IEC 83.9

WNU25_H46 2403 5571 224 glotblastn

599854 3 foxtail_milletll lv3IPHY7SI0236

WNU25_H47 2404 5572 224 83.9 globlastp

90M_P1

WNU25_H48 sugarcanell0vl lCA280291 2405 5573 224 83.9 globlastp

83.0

WNU25_H49 oiLpalml 11 vl IEL682917_T 1 2406 5574 224 glotblastn

4

WNU25_H50 cenchruslgb 166 IEB 652816_P1 2407 5575 224 83 globlastp

WNU25_H51 oil_palmll lvl lEL683598_Pl 2408 5576 224 83 globlastp

WNU25_H52 oiLpalml 11 vl IEL693872_P 1 2409 5576 224 83 globlastp oiLpalml l lvl lSRR190698.1902

WNU25_H53 2410 5576 224 83 globlastp

67_P1

phalaenopsisll lvl lCK856294_P

WNU25_H54 2411 5577 224 83 globlastp

1

WNU25_H55 pineapplell0vl lDT336564_Pl 2412 5578 224 83 globlastp

WNU25_H56 sorghuml 12vl ISB09G027930 2413 5579 224 83 globlastp tripterygiumll 1 vl ISRR098677X

WNU25_H57 2414 5580 224 83 globlastp

101244

onionll2vllSRR073446X10568 82.1

WNU25_H58 2415 5581 224 glotblastn

D1_T1 4 ambrosial 11 vl ISRR346943.1423

WNU25_H59 2416 5582 224 82.1 globlastp

68_P1

ambrosial 11 V1 ISRR346943.2177

WNU25_H60 2417 5582 224 82.1 globlastp

LPl

amorphophallusll lv2ISRR08935

WNU25_H61 2418 5583 224 82.1 globlastp

1X101954_P1

arabidopsis_lyratal09vl IJGIAL0

WNU25_H62 2419 5584 224 82.1 globlastp

07699_P1

arabidopsisll0vl lATlG74270_P

WNU25_H63 2420 5584 224 82.1 globlastp

1

arnicall lvl lSRR099034X10860

WNU25_H64 2421 5585 224 82.1 globlastp

7_P1

WNU25_H65 bananall2vl lFL646653_Pl 2422 5586 224 82.1 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU25_H66 bananall2vl lFL657827_Pl 2423 5587 224 82.1 globlastp

WNU25_H67 bananall2vl lFL658310_Pl 2424 5588 224 82.1 globlastp brachypodiumll2vllBRADI2Gl

WNU25_H68 2425 5589 224 82.1 globlastp

7180_P1

epimediuml 11 vl ISRR013502.11

WNU25_H69 2426 5590 224 82.1 globlastp

986_P1

fagopyruml 11 vl ISRR063703X 1

WNU25_H70 2427 5591 224 82.1 globlastp

32083_P1

flaveriall lvl lSRR149229.21079

WNU25_H71 2428 5592 224 82.1 globlastp

6_P1

WNU25_H72 oiLpalml 11 vl IEL681302_P1 2429 5593 224 82.1 globlastp

WNU25_H73 oiLpalml 11 vl IEL690268_P1 2430 5593 224 82.1 globlastp oiLpalml 11 vl ISRR 190698.1637

WNU25_H74 2431 5593 224 82.1 globlastp

75_P1

oiLpalml 11 vl ISRR 190698.4718

WNU25_H75 2432 5593 224 82.1 globlastp

23_P1

oiLpalml 11 vl ISRR 190700.3144

WNU25_H76 2433 5593 224 82.1 globlastp

11_P1

onionll2vllSRR073446X102051

WNU25_H77 2434 5594 224 82.1 globlastp

D1_P1

primulall lvllSRR098679X1000

WNU25_H78 2435 5595 224 82.1 globlastp

31_P1

primulall lvllSRR098679X1017

WNU25_H79 2436 5595 224 82.1 globlastp

14_P1

primulall lvllSRR098679X1216

WNU25_H80 2437 5595 224 82.1 globlastp

07_P1

primulall lvllSRR098679X1318

WNU25_H81 2438 5595 224 82.1 globlastp

15_P1

thellungiella_halophilumll lvl IE

WNU25_H82 2439 5596 224 82.1 globlastp

HJGI 11002045

thellungiella_parvuluml 11 v 1 IEP

WNU25_H83 2440 5597 224 82.1 globlastp

CRP000289

81.2

WNU25_H84 b_rapall lvllBG545012_Tl 2441 5598 224 glotblastn

5 heritieral 1 Ov 1 ISRR005795S0038 81.2

WNU25_H85 2442 5599 224 glotblastn

179_T1 5 primulall lvllSRR098679Xl 142 81.2

WNU25_H86 2443 5600 224 glotblastn

57_T1 5 primulall lvllSRR098679X1303 81.2

WNU25_H87 2444 5601 224 glotblastn

78_T1 5

81.2

WNU25_H88 ryel 12v 1 IDRR001013.103374 2445 5602 224 glotblastn

5 thellungiella_halophilumll lvl IE 81.2

WNU25_H89 2446 5603 224 glotblastn

C599854 5

WNU25_H24

zosterall2vl IAM766870_P1 2447 5604 224 81.2 globlastp 9 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU25_H90 amborellal 12v3 IFD442449_P 1 2448 5605 224 81.2 globlastp ambrosiall lvl lSRR346943.2158

WNU25_H91 2449 5606 224 81.2 globlastp

55_P1

amorphophallusll lv2ISRR08935

WNU25_H92 2450 5607 224 81.2 globlastp

1X100036_P1

amsoniall lvllSRR098688X1045

WNU25_H93 2451 5608 224 81.2 globlastp

52_P1

WNU25_H94 antirrhinumlgbl66IAJ558790_Pl 2452 5609 224 81.2 globlastp

WNU25_H95 antirrhinumlgbl66IAJ559611_P1 2453 5609 224 81.2 globlastp aquilegial 10v2IJGIAC007651_P

WNU25_H96 2454 5610 224 81.2 globlastp

1

arabidopsis_lyratal09vl IJGIALO

WNU25_H97 2455 5611 224 81.2 globlastp

00666_P1

arabidopsisll0vl lATlG07070_P

WNU25_H98 2456 5611 224 81.2 globlastp

1

b Junceal 12v 1 IE6 ANDIZO 1 AH3

WNU25_H99 2457 5612 224 81.2 globlastp

RZ_P1

WNU25_H10 b Junceal 12v 1 IE6 ANDIZO 1 AL5

2458 5612 224 81.2 globlastp 0 IF_P1

WNU25_H10 b Junceal 12v 1 IE6 ANDIZO 1 AM

2459 5612 224 81.2 globlastp 1 ZL3_P1

WNU25_H10 b Junceal 12v 1 IE6 ANDIZO 1 AZ4

2460 5612 224 81.2 globlastp 2 GX_P1

WNU25_H10 b Junceal 12v 1 IE6 ANDIZO 1BFB

2461 5612 224 81.2 globlastp 3 B2_P1

WNU25_H10 b Junceal 12v 1 IE6 ANDIZO 1 BGX

2462 5613 224 81.2 globlastp 4 W0_P1

WNU25_H10 b Junceal 12v 1 IE6 ANDIZO 1 C4R

2463 5612 224 81.2 globlastp 5 0X_P1

WNU25_H10

b_oleracealgb 161 ID Y027311_P 1 2464 5612 224 81.2 globlastp 6

WNU25_H10

b_oleracealgb 161 ID Y028809_P 1 2465 5612 224 81.2 globlastp 7

WNU25_H10

b_oleracealgb 161 ID Y029302_P 1 2466 5612 224 81.2 globlastp 8

WNU25_H10

b_rapall lvllBG544760_Pl 2467 5612 224 81.2 globlastp 9

WNU25_H11

b_rapall lvllCD822482_Pl 2468 5612 224 81.2 globlastp 0

WNU25_H11

bananall2vl lES432695_Pl 2469 5614 224 81.2 globlastp 1

WNU25_H11 beechl l lvl ISRR006293.11373_

2470 5615 224 81.2 globlastp 2 PI

WNU25_H11 beechl 11 vl lSRR006293.24985_

2471 5616 224 81.2 globlastp 3 PI Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU25_H11

bruguieralgbl66IBP941824_Pl 2472 5617 224 81.2 globlastp 4

WNU25_H11

canolall lvllCN725900_Pl 2473 5612 224 81.2 globlastp 5

WNU25_H11

canolall lvllCN730046_Pl 2474 5612 224 81.2 globlastp 6

WNU25_H11

canolall lvllCN730557_Pl 2475 5612 224 81.2 globlastp 7

WNU25_H11

canolall lvllCN731259_Pl 2476 5612 224 81.2 globlastp 8

WNU25_H11

canolall lvllCN732999_Pl 2477 5612 224 81.2 globlastp 9

WNU25_H12 canolall lvllSRR019556.44642_

2478 5612 224 81.2 globlastp 0 PI

WNU25_H12

cassaval09vl lCK651690_Pl 2479 5618 224 81.2 globlastp 1

WNU25_H12 chelidoniuml 11 vl ISRR084752X

2480 5619 224 81.2 globlastp 2 103833_P1

WNU25_H12 cleome_spinosal lOvl IGR932649

2481 5620 224 81.2 globlastp 3 _P1

WNU25_H12 cleome_spinosall0vl lSRR01553

2482 5620 224 81.2 globlastp 4 1S0108810_P1

WNU25_H12 fagopyrumll lvl lSRR063689Xl

2483 5621 224 81.2 globlastp 5 06014_P1

WNU25_H12 fagopyrumll lvl lSRR063689Xl

2484 5622 224 81.2 globlastp 6 11531_P1

WNU25_H12 flaverial 11 vl ISRR 149229.17927

2485 5623 224 81.2 globlastp 7 9_P1

WNU25_H12 flaverial l lvl lSRR149232.14436

2486 5623 224 81.2 globlastp 8 3_P1

WNU25_H12 flaverial 11 V1 ISRR149232.24740

2487 5623 224 81.2 globlastp 9 6_P1

WNU25_H13

ipomoea_nilll0vl lBJ558540_Pl 2488 5624 224 81.2 globlastp 0

WNU25_H13

lettucell2vl lDW050731_Pl 2489 5625 224 81.2 globlastp 1

WNU25_H13

onionll2vllBQ579934_Pl 2490 5626 224 81.2 globlastp 2

WNU25_H13 poppyll lvllSRR096789.144347

2491 5619 224 81.2 globlastp 3 _P1

WNU25_H13 primulall lvllSRR098679X1052

2492 5627 224 81.2 globlastp 4 3_P1

WNU25_H13 primulall lvllSRR098679X1061

2493 5627 224 81.2 globlastp 5 62_P1

WNU25_H13

radishlgbl64IEV528423 2494 5612 224 81.2 globlastp 6 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU25_H13

radishlgbl64IEV535096 2495 5612 224 81.2 globlastp 7

WNU25_H13

radishlgbl64IEV536363 2496 5612 224 81.2 globlastp 8

WNU25_H13

radishlgbl64IEV538123 2497 5612 224 81.2 globlastp 9

WNU25_H14

radishlgbl64IEV566939 2498 5612 224 81.2 globlastp 0

WNU25_H14

radishlgbl64IFD538891 2499 5612 224 81.2 globlastp 1

WNU25_H14

ricell lvllAU063148 2500 5628 224 81.2 globlastp 2

WNU25_H14

ricell lvllBE040487 2501 5628 224 81.2 globlastp 3

WNU25_H14

ryell2vllBE494253 2502 5629 224 81.2 globlastp 4

WNU25_H14

ryell2vllDRR001012.183966 2503 5630 224 81.2 globlastp 5

WNU25_H14

ryell2vllDRR001013.308355 2504 5630 224 81.2 globlastp 6

WNU25_H14 tabernaemontanall lvl lSRR0986

2505 5631 224 81.2 globlastp 7 89X128000

WNU25_H14

zosterall0vl lAM766870 2506 5604 224 81.2 globlastp 8

WNU25_H25 oleall3vllSRR014463X3883Dl

2507 5632 224 80.4 globlastp 0 _P1

WNU25_H25 oleall3vllSRR014464X66765D

2508 5633 224 80.4 globlastp 1 1_P1

WNU25_H25 oleall3vllSRR592583X243645

2509 5632 224 80.4 globlastp 2 D1_P1

WNU25_H14

acaciall0vllFS584555_Pl 2510 5634 224 80.4 globlastp 9

WNU25_H15

ambrosial 11 vl lGR935755_Pl 2511 5635 224 80.4 globlastp 0

WNU25_H15 ambrosial l lvl ISRR346943.1146

2512 5636 224 80.4 globlastp 1 88_P1

WNU25_H15

antirrhinumlgb 1661 AJ559172_P1 2513 5637 224 80.4 globlastp 2

WNU25_H15

bruguieralgbl66IBP942309_Pl 2514 5638 224 80.4 globlastp 3

WNU25_H15

bupleuruml l lvl IFG341999_P 1 2515 5639 224 80.4 globlastp 4

WNU25_H15

cannabisll2vllJK496655_Pl 2516 5640 224 80.4 globlastp 5

WNU25_H15 cannabisl 12v 1 ISOLX00016128_

2517 5640 224 80.4 globlastp 6 PI Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU25_H15

canolall lvllCN730086_Pl 2518 5641 224 80.4 globlastp 7

WNU25_H15

cassaval09vl IBM259993_P1 2519 5642 224 80.4 globlastp 8

WNU25_H15

clementinel 11 v 1 IB Q622914_P 1 2520 5643 224 80.4 globlastp 9

WNU25_H16 cleome_gynandral 1 Ov 1 ISRRO 15

2521 5644 224 80.4 globlastp 0 532S0016650_P1

WNU25_H16 cleome_spinosall0vl lSRR01553

2522 5645 224 80.4 globlastp 1 1S0002868_P1

WNU25_H16 cleome_spinosall0vl lSRR01553

2523 5646 224 80.4 globlastp 2 1S0012716_P1

WNU25_H16

cottonll lvllAI728911_Pl 2524 5642 224 80.4 globlastp 3

WNU25_H16

cottonl 11 v 1 IBE053043_P 1 2525 5642 224 80.4 globlastp 4

WNU25_H16

cottonll lvllBF275635_Pl 2526 5642 224 80.4 globlastp 5

WNU25_H16

cottonll lvllBG440681_Pl 2527 5642 224 80.4 globlastp 6

WNU25_H16

cottonl 11 v 1 ICO097269_Pl 2528 5642 224 80.4 globlastp 7

WNU25_H16

cottonll lvllDR452454_Pl 2529 5642 224 80.4 globlastp 8

WNU25_H16 epimediuml 11 vl ISRR013502.14

2530 5647 224 80.4 globlastp 9 401_P1

WNU25_H17

eucalyptusll lv2ICT986860_Pl 2531 5648 224 80.4 globlastp 0

WNU25_H17 euonymus 111 v 11 SRR070038X10

2532 5649 224 80.4 globlastp 1 7385_P1

WNU25_H17

euphorbiall lvllBP958921_Pl 2533 5650 224 80.4 globlastp 2

WNU25_H17

euphorbial 11 v 1 ID V 144443_P1 2534 5651 224 80.4 globlastp 3

WNU25_H17

spurgelgbl61IDV144443 2534 5651 224 80.4 globlastp 4

WNU25_H17 fagopyrumll lvl lSRR063689X8

2535 5652 224 80.4 globlastp 5 7577_P1

WNU25_H17 flaveriall lvl lSRR149232.18467

2536 5653 224 80.4 globlastp 6 0XX1_P1

WNU25_H17 flaveriall lvl lSRR149232.24600

2537 5653 224 80.4 globlastp 7 3_P1

WNU25_H17 flaveriall lvl lSRR149241.13386

2538 5654 224 80.4 globlastp 8 2_P1

WNU25_H17 fraxinusl 11 vl ISRR058827.10355

2539 5632 224 80.4 globlastp 9 3_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU25_H18 fraxinusl 11 vl ISRR058827.11380

2540 5632 224 80.4 globlastp 0 _P1

WNU25_H18 fraxinusl 11 vl ISRR058827.11673

2541 5655 224 80.4 globlastp 1 2_P1

WNU25_H18 gossypium_raimondiil 12v 11 AI72

2542 5642 224 80.4 globlastp 2 8911_P1

WNU25_H18 gossypium_raimondiil 12v 1 IBEO

2543 5642 224 80.4 globlastp 3 53043_P1

WNU25_H18 gossypium_raimondiil 12v 1 IBF27

2544 5642 224 80.4 globlastp 4 5635_P1

WNU25_H18 gossypium_raimondiil 12v 1 IBG4

2545 5642 224 80.4 globlastp 5 40681_P1

WNU25_H18 heritieral 1 Ov 1 ISRR005794S0005

2546 5656 224 80.4 globlastp 6 077_P1

WNU25_H18

heveall0vl lEC606310_Pl 2547 5642 224 80.4 globlastp 7

WNU25_H18 hornbeaml 12vl ISRR364455.104

2548 5657 224 80.4 globlastp 8 699_P1

WNU25_H18

humulusll lvl lES655136_Pl 2549 5658 224 80.4 globlastp 9

WNU25_H19

humulusll lvl lES658210_Pl 2550 5659 224 80.4 globlastp 0

WNU25_H19 ipomoea_batatasll0vl lBU69061

2551 5660 224 80.4 globlastp 1 8_P1

WNU25_H19

ipomoea_nill lOvl IB J562851_P1 2552 5661 224 80.4 globlastp 2

WNU25_H19

kiwilgbl66IFG456793_Pl 2553 5662 224 80.4 globlastp 3

WNU25_H19

kiwilgbl66IFG480841_Pl 2554 5663 224 80.4 globlastp 4

WNU25_H19

kiwilgbl66IFG499198_Pl 2555 5663 224 80.4 globlastp 5

WNU25_H19

lettucell2vl lDW051774_Pl 2556 5664 224 80.4 globlastp 6

WNU25_H19

liquoricelgb 171 IFS250698_P 1 2557 5665 224 80.4 globlastp 7

WNU25_H19

oakll0vl lDN950044_Pl 2558 5666 224 80.4 globlastp 8

WNU25_H19 oakll0vl lSRR006307S0004443_

2559 5666 224 80.4 globlastp 9 PI

WNU25_H20

oleal 11 v 1 ISRR014463.28420 2560 5632 224 80.4 globlastp 0

WNU25_H20 oleal 13 v 1 ISRR014463X28420D

2561 5632 224 80.4 globlastp 0 1_P1

WNU25_H20

oleal 11 v 11 SRR014463.55804 2562 5667 224 80.4 globlastp 1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU25_H20 oleall3vllSRR014463X55804D

2563 5632 224 80.4 globlastp 1 1_P1

WNU25_H20

oleall lvllSRR014463.6958 2564 5668 224 80.4 globlastp 2

WNU25_H20 oleall3vllSRR014463X6958Dl

2565 5668 224 80.4 globlastp 2 _P1

WNU25_H20 onionl 12v 1 ISRR073446X 110592

2566 5669 224 80.4 globlastp 3 D1_P1

WNU25_H20 onionl 12v 1 ISRR073446X 116492

2567 5669 224 80.4 globlastp 4 D1_P1

WNU25_H20 onionl 12v 1 ISRR073447X 101052

2568 5670 224 80.4 globlastp 5 D1_P1

WNU25_H20

orangell lvllBQ622914_Pl 2569 5643 224 80.4 globlastp 6

WNU25_H20 orobanchel lOvl ISRR023189S00

2570 5671 224 80.4 globlastp 7 06021_P1

WNU25_H20 orobanchel lOvl ISRR023189S00

2571 5671 224 80.4 globlastp 8 33892_P1

WNU25_H20

papayalgbl65IEX241854_Pl 2572 5672 224 80.4 globlastp 9

WNU25_H21 plantagoll 1 V2ISRR066373X102

2573 5673 224 80.4 globlastp 0 923_P1

WNU25_H21 plantagoll 1 v2ISRR066373X104

2574 5674 224 80.4 globlastp 1 364_P1

WNU25_H21 plantagoll 1 v2ISRR066373X105

2575 5673 224 80.4 globlastp 2 650_P1

WNU25_H21 platanusll lvl lSRR096786X1008

2576 5675 224 80.4 globlastp 3 09_P1

WNU25_H21 platanusll lvl lSRR096786X1094

2577 5676 224 80.4 globlastp 4 35_P1

WNU25_H21

poplarll0vl lAI166233 2578 5677 224 80.4 globlastp 5

WNU25_H21

poplarll3vl lAI166233_Pl 2579 5677 224 80.4 globlastp 5

WNU25_H21

poplarll0vl lBU814801 2580 5678 224 80.4 globlastp 6

WNU25_H21

poplarll3vl lAI161628_Pl 2581 5678 224 80.4 globlastp 6

WNU25_H21 poppy 111 v 1 ISRR030259.179909

2582 5679 224 80.4 globlastp 7 _P1

WNU25_H21

potatoll0vllAJ489116_Pl 2583 5680 224 80.4 globlastp 8

WNU25_H21

rosell2vllBI977765 2584 5681 224 80.4 globlastp 9

WNU25_H22 scabiosall lvllSRR063723X104

2585 5682 224 80.4 globlastp 0 01 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU25_H22 scabiosall lvllSRR063723X104

2586 5682 224 80.4 globlastp 1 236

WNU25_H22 scabiosall lvllSRR063723X104

2587 5682 224 80.4 globlastp 2 248

WNU25_H22

sesamell2vllBU669934 2588 5683 224 80.4 globlastp 3

WNU25_H22 solanum_phurejal09vl ISPHBG1

2589 5680 224 80.4 globlastp 4 26911

WNU25_H22

strawberry 111 vl IC0379975 2590 5684 224 80.4 globlastp 5

WNU25_H22

sunflowerll2vllCD852047 2591 5685 224 80.4 globlastp 6

WNU25_H22

sunflower 112v 1 ID Y930840 2592 5685 224 80.4 globlastp 7

WNU25_H22

sunflower 112v 1 IEE654475 2593 5685 224 80.4 globlastp 8

WNU25_H22

sunflower 112v 1 IEL487963 2594 5685 224 80.4 globlastp 9

WNU25_H23

tamarixlgbl66ICN605565 2595 5686 224 80.4 globlastp 0

WNU25_H23 thellungiella_parvulumll lvllBY

2596 5687 224 80.4 globlastp 1 823299

WNU25_H23

tobaccolgbl62ICV016860 2597 5688 224 80.4 globlastp 2

WNU25_H23 tripterygiumll 1 vl ISRR098677X

2598 5689 224 80.4 globlastp 3 101214

WNU25_H23 valerianal 11 vl ISRR099039X 139

2599 5690 224 80.4 globlastp 4 272

WNU25_H23

watermelonll lvllAM726796 2600 5651 224 80.4 globlastp 5

WNU25_H15

cannabisl 12v 1 ISOLX00016128 2601 - 224 80.4 globlastp 6

WNU25_H23 amborellall2v3ISRR038635.869 80.3

2602 5691 224 glotblastn 6 06_T1 6

WNU25_H23 chelidoniuml 11 vl ISRR084752X 80.3

2603 5692 224 glotblastn 7 110041XX1_T1 6

WNU25_H23 fraxinusl 11 vl ISRR058827.11262 80.3

2604 5693 224 glotblastn 8 8XX1_T1 6

WNU25_H23 onionl 12v 1 ISRR073446X323707 80.3

2605 5694 224 glotblastn 9 D1_T1 6

WNU25_H24 orobanchel lOvl ISRR023189S00 80.3

2606 5695 224 glotblastn 0 11510_T1 6

WNU25_H24 80.3

tamarixlgb 166 IEH054247 2607 5696 224 glotblastn 1 6

WNU25_H24 80.3

tomatoll lvl lAF014810 2608 5697 224 glotblastn 2 6 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU26_H1 wheatll2v3IBE406211 2609 5698 225 98.4 globlastp

WNU26_H2 ryell2vllDRR001012.126564 2610 5699 225 96.8 globlastp

WNU26_H3 wheatll2v3IBE400479 2611 5700 225 96.8 globlastp brachypodiumll2vllBRADIlGl

WNU26_H4 2612 5701 225 96 globlastp

4290_P1

WNU26_H5 wheatll2v3IBF484088 2613 5702 225 94.4 globlastp

WNU26_H24 switchgrassll2vl lFL933393_Pl 2614 5703 225 93.7 globlastp

WNU26_H6 switchgrasslgb 167 IDN 140893 2615 5703 225 93.7 globlastp

WNU26_H7 switchgrasslgbl67IFL933393 2616 5703 225 93.7 globlastp

WNU26_H25 switchgrassll2vl lDN140893_Pl 2617 5704 225 92.9 globlastp

WNU26_H8 maizell0vllAI714588_Pl 2618 5705 225 92.9 globlastp

WNU26_H9 oatll lvl lCN814979_Pl 2619 5706 225 92.9 globlastp

WNU26_H10 sorghumll2vllSB01G014170 2620 5705 225 92.9 globlastp

WNU26_H11 sugarcanel lOvl IBQ531137 2621 5705 225 92.9 globlastp

WNU26_H12 cenchruslgbl66IEB654230_Pl 2622 5707 225 92.1 globlastp

WNU26_H13 cynodonllOvl IES292027_P1 2623 5708 225 91.3 globlastp foxtail_milletll lv3IPHY7SI0380

WNU26_H14 2624 5709 225 91.3 globlastp

38M_P1

WNU26_H15 maizell0vllBG841652_Pl 2625 5710 225 91.3 globlastp milletll0vl lEVO454PM036675_

WNU26_H16 2626 5711 225 91.3 globlastp

PI

WNU26_H17 ricell lvllAU029299 2627 5712 225 91.3 globlastp

WNU26_H18 bananall2vl lBBS2223T3_Pl 2628 5713 225 81.7 globlastp amorphophallusll lv2ISRR08935

WNU26_H19 2629 5714 225 81 globlastp

1X107417_P1

WNU26_H20 oiLpalml 11 vl IEL930593_P 1 2630 5715 225 81 globlastp aristolochiall0vl lSRR039082S0

WNU26_H21 2631 5716 225 80.2 globlastp

000924_P1

WNU26_H22 fescuelgb 161 IDT702314_P1 2632 5717 225 80.2 globlastp

WNU26_H23 gingerlgbl64IDY353684_Pl 2633 5718 225 80.2 globlastp

WNU27_H10 ricell lvllD45954 2634 5719 226 80.5 globlastp

82.8

WNU28_H10 ryell2vllBE587449 2635 5720 227 glotblastn

4

82.8

WNU28_H11 ryel 12v 1 IDRR001012.309192 2636 5721 227 glotblastn

4

82.0

WNU28_H14 wheatll2v3ICA602648 2637 5722 227 glotblastn

9

WNU28_H18 wheatll2v3IBE445687 2638 5723 227 81 globlastp

WNU28_H19 wheatll2v3IBE406147 2639 5724 227 80.9 globlastp

WNU28_H20 ryell2vllDRR001013.219293 2640 5725 227 80.3 globlastp

WNU29_H1 wheatll2v3IBE406488 2641 5726 228 93 globlastp

WNU29_H2 wheatll2v3IBE403792 2642 5727 228 91.8 globlastp

WNU29_H3 leymuslgbl66IEG397801_Pl 2643 5728 228 91.4 globlastp pseudoroegnerialgb 167 IFF34269

WNU29_H4 2644 5729 228 91.4 globlastp

8 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU29_H5 ryell2vllBF145411 2645 5730 228 90.7 globlastp

WNU29_H6 ryell2vllBF145631 2646 5731 228 90.7 globlastp

WNU29_H7 ryell2vllDRR001012.113133 2647 5732 228 90.7 globlastp

WNU29_H8 ryell2vllDRR001012.152886 2648 5732 228 90.7 globlastp

WNU29_H9 ryell2vllBF146193 2649 5733 228 89.9 globlastp

87.9

WNU29_H10 ryell2vllCD453333 2650 5734 228 glotblastn

4

WNU29_H11 loliuml 1 Ov 1 IDT671714_P 1 2651 5735 228 86 globlastp

WNU29_H12 oatll lvl lCN820724_Pl 2652 5736 228 86 globlastp

WNU29_H13 oatll lvl lGO591470_Pl 2653 5736 228 86 globlastp brachypodiumll2vllBRADI2Gl

WNU29_H14 2654 5737 228 85.2 globlastp

9230_P1

84.4

WNU29_H15 ryell2vllBE438598 2655 5738 228 glotblastn

4

WNU29_H16 switchgrasslgbl67IFE646280 2656 5739 228 81.5 globlastp

WNU29_H17 cenchruslgbl66IEB652567_Pl 2657 5740 228 81.4 globlastp foxtail_milletll lv3IPHY7SI0224

WNU29_H18 2658 5741 228 81.2 globlastp

65M_P1

WNU29_H22 switchgrassll2vl lDN152053_Pl 2659 5742 228 81.1 globlastp

WNU29_H19 switchgrasslgbl67IDN152053 2660 5742 228 81.1 globlastp

WNU29_H20 sugarcanel 1 Ovl ICA072716 2661 5743 228 80.8 globlastp milletllOvl IEVO454PM032994_

WNU29_H21 2662 5744 228 80.1 globlastp

PI

WNU30_H1 wheatll2v3IBE418237 2663 5745 229 96.1 globlastp

WNU30_H2 ryel 12v 1 IDRROO 1012.105664 2664 5746 229 95.7 globlastp

WNU30_H3 wheatll2v3IBE591687 2665 5747 229 94.7 globlastp brachypodiumll2vllBRADI3G2

WNU30_H4 2666 5748 229 88.2 globlastp

9797_P1

WNU30_H5 oatll lvl lGR320126_Pl 2667 5749 229 87.5 globlastp milletl lOvl IPMSLX0005022D 1_

WNU30_H6 2668 5750 229 82.1 globlastp

PI

foxtail_milletll lv3IPHY7SI0359

WNU30_H7 2669 5751 229 81.7 globlastp

04M_P1

WNU30_H8 maizell0vllAI920364_Pl 2670 5752 229 81.7 globlastp

WNU30_H9 ricell lvllCA757830 2671 5753 229 80.6 globlastp

WNU30_H10 sorghumll2vllSB01G018410 2672 5754 229 80.4 globlastp

WNU31_H1 ryel 12vllDRR001012.813021 2673 5755 230 93.3 globlastp

WNU31_H2 ryel 12v 1 IDRROO 1012.207578 2674 5756 230 92.7 globlastp brachypodiumll2vllBRADIlGl

WNU31_H3 2675 5757 230 82.6 globlastp

8130_P1

WNU32_H1 ryell2vllDRR001012.118312 2676 5758 231 94 globlastp

WNU32_H2 wheatll2v3IBE516348 2677 5759 231 94 globlastp

85.5

WNU32_H3 oatll lvl lAF140553_Tl 2678 5760 231 glotblastn

7 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

brachypodiumll2vllBRADIlG7

WNU32_H4 2679 5761 231 83.4 globlastp

1570_P1

WNU33_H1 wheatll2v3IBE637743 2680 5762 232 95.7 globlastp

WNU33_H2 ryell2vllDRR001012.113659 2681 5763 232 94.2 globlastp

WNU33_H3 ryell2vllDRR001012.7421 2682 5764 232 94.2 globlastp brachypodiumi 12v 1 IBRADI4G4

WNU33_H4 2683 5765 232 91.3 globlastp

4832_P1

WNU33_H19 switchgrassll2vl IFL897048_P1 2684 5766 232 87 globlastp

WNU33_H20 switchgrassll2vl lGD035382_Pl 2685 5766 232 87 globlastp foxtail_milletll lv3IPHY7SI0125

WNU33_H5 2686 5766 232 87 globlastp

51M_P1

WNU33_H6 switchgrasslgbl67IFL897048 2687 5766 232 87 globlastp

86.9

WNU33_H7 ricell lvllCF325265 2688 5767 232 glotblastn

6

85.9

WNU33_H8 fescuelgb 161 IDT705155_T 1 2689 5768 232 glotblastn

2

85.5

WNU33_H9 ricell lvllAU166875 2690 5769 232 glotblastn

1 foxtail_milletll lv3ISOLX00022

WNU33_H10 2691 5770 232 85.5 globlastp

948_P1

WNU33_H11 sorghumll2vllSB08G000650 2692 5771 232 85.5 globlastp

WNU33_H12 maizell0vllDW530314_Pl 2693 5772 232 84.5 globlastp

WNU33_H13 maizel 1 Ov 1 IBE225167_P 1 2694 5773 232 84.3 globlastp

WNU33_H14 sorghuml 12vl ISB05G000620 2695 5774 232 84.1 globlastp

WNU33_H15 switchgrasslgbl67IFL886195 2696 5775 232 84.1 globlastp

84.0

WNU33_H16 maizel 10vllDW898426_Tl 2697 5776 232 glotblastn

6

WNU33_H17 sugarcanell0vl lCF575834 2698 5777 232 83.1 globlastp milletll0vl lPMSLX0075855D2_

WNU33_H18 2699 5778 232 81.2 globlastp

PI

WNU34_H1 wheatll2v3IBU101180 2700 5779 233 91.8 globlastp

WNU35_H1 wheatll2v3IBG605144 2701 5780 234 95.1 globlastp

WNU35_H2 wheatll2v3ICJ587392 2702 5781 234 92.3 globlastp

WNU35_H3 ryell2vllDRR001012.119573 2703 5782 234 92 globlastp

WNU35_H4 barleyll2vllEX583178_Pl 2704 5783 234 91.4 globlastp

WNU35_H5 wheatll2v3IBF202649 2705 5784 234 90.7 globlastp

WNU35_H6 wheatll2v3ICA599142 2706 5785 234 90.6 globlastp

WNU35_H7 ryell2vllDRR001012.166983 2707 5786 234 90.1 globlastp

WNU35_H8 ryell2vllDRR001012.123100 2708 5787 234 89.7 globlastp

WNU35_H9 wheatll2v3IBE401525 2709 5788 234 88.3 globlastp

WNU35_H10 oatll lvl lGR316665_Pl 2710 5789 234 87.7 globlastp brachypodiumi 12v 1 IBRADI2G0

WNU35_H11 2711 5790 234 87.4 globlastp

7160_P1

85.0

WNU35_H12 sugarcanell0vl lCA119713 2712 5791 234 glotblastn

7 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU35_H13 ricell lvllAA753081 2713 5792 234 83.7 globlastp foxtail_milletll lv3IEC612259_P

WNU35_H14 2714 5793 234 83.3 globlastp

1

foxtail_milletll lv3IPHY7SI0365

WNU35_H15 2715 5794 234 83.3 globlastp

63M_P1

WNU35_H21 switchgrassll2vl lDN145422_Pl 2716 5795 234 82.9 globlastp milletl 1 Ovl IEVO454PM030513_

WNU35_H16 2717 5796 234 82.6 globlastp

PI

WNU35_H22 switchgrassll2vl lDN145373_Pl 2718 5797 234 82.4 globlastp

WNU35_H17 maizell0vllAI964587_Pl 2719 5798 234 82.4 globlastp

WNU35_H18 sorghumll2vllSB03G001550 2720 5799 234 82.4 globlastp

WNU35_H19 switchgrasslgbl67IDN145373 2721 5800 234 82.1 globlastp

WNU35_H20 maizell0vllCF244168_Pl 2722 5801 234 81.5 globlastp

WNU36_H1 wheatll2v3IBE443031 2723 5802 235 95.6 globlastp

95.1

WNU36_H5 wheatll2v3IBQ789293 2724 5803 235 glotblastn

4

WNU36_H3 ryell2vllBE586716 2725 5804 235 95.1 globlastp

WNU36_H4 wheatll2v3IBE517286 2726 5805 235 95.1 globlastp

93.6

WNU36_H2 wheatll2v3IBF202371 2727 5806 235 glotblastn

9 brachypodiumll2vllBRADI3G5

WNU36_H8 2728 5807 235 85.7 globlastp

3420_P1

WNU37_H1 wheatll2v3IBE606832 2729 5808 236 97.9 globlastp

WNU37_H2 wheatll2v3IBF483879 2730 5809 236 97.8 globlastp

WNU37_H3 wheatll2v3IBG262647 2731 5810 236 97.8 globlastp

WNU37_H4 ryell2vllDRR001012.103169 2732 5811 236 97.5 globlastp

97.1

WNU37_H5 wheatll2v3IBE606184 2733 5812 236 glotblastn

9 foxtail_milletll lv3IPHY7SI0213

WNU37_H7 2734 5813 236 92.4 globlastp

51M_P1

WNU37_H8 ricell lvllBI811423 2735 5814 236 92.3 globlastp

92.1

WNU37_H25 switchgrassll2vl lDN142304_Tl 2736 5815 236 glotblastn

5

92.1

WNU37_H9 s witchgras s Igb 167 IDN 142304 2737 5816 236 glotblastn

5

WNU37_H26 switchgrassl 12vl IFE628118_P1 2738 5817 236 92 globlastp milletl 1 Ovl IEVO454PM014456_

WNU37_H10 2739 5818 236 92 globlastp

PI

WNU37_H11 sorghuml 12v 1 ISB08G018440 2740 5819 236 92 globlastp

WNU37_H12 sugarcanell0vl lCA068434 2741 5820 236 92 globlastp

WNU37_H13 maizell0vllAW330878_Pl 2742 5821 236 91 globlastp

WNU37_H14 maizell0vllAI615160_Pl 2743 5822 236 89.9 globlastp

WNU37_H15 bananall2vl lFL649484_Pl 2744 5823 236 83.8 globlastp

WNU37_H19 oakll0vl lFP034259_Pl 2745 5824 236 81.4 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

amorphophallusll lv2ISRR08935

WNU37_H21 2746 5825 236 80.5 globlastp

1X160169_P1

WNU37_H22 amborellal 12v3 IFD432214_P 1 2747 5826 236 80.2 globlastp

WNU37_H23 aquilegial 10v2IDR927606_Pl 2748 5827 236 80.1 globlastp

WNU38_H1 ryell2vllBE704959 2749 5828 237 98.8 globlastp

WNU38_H2 wheatll2v3ICA607240 2750 5829 237 98.5 globlastp

WNU38_H3 wheatll2v3IBF484914 2751 5830 237 98.4 globlastp

WNU38_H4 wheatll2v3IDR732969 2752 5830 237 98.4 globlastp brachypodiumll2vllBRADI3G3

WNU38_H5 2753 5831 237 95 globlastp

2210T2_P1

WNU38_H6 oatll lvl lCN815630_Pl 2754 5832 237 94.6 globlastp

WNU38_H7 ricell lvllU38167 2755 5833 237 89.9 globlastp

WNU38_H8 sorghuml 12v 11 SB 01 G030430 2756 5834 237 89.5 globlastp

WNU38_H9 s witchgras slgbl67IDN143112 2757 5835 237 88.9 globlastp foxtail_milletll lv3IPHY7SI0344

WNU38_H10 2758 5836 237 88.7 globlastp

11M_P1

WNU38_H11 maizell0vllAW267461_Pl 2759 5837 237 86.2 globlastp

85.0

WNU38_H12 ryell2vllDRR001012.507695 2760 5838 237 glotblastn

8

81.5

WNU38_H13 barleyl 12v 11 AJ534446_T 1 2761 5839 237 glotblastn

8

WNU39_H1 ryell2vllDRR001012.179118 2762 5840 238 98 globlastp

96.9

WNU39_H2 ryell2vllBQ160098 2763 5841 238 glotblastn

7

WNU39_H3 wheatll2v3IAL826350 2764 5842 238 96.8 globlastp brachypodiumll2vllBRADIlG0

WNU39_H4 2765 5843 238 94.2 globlastp

1140_P1

WNU39_H5 barleyl 12vllBU988855_Pl 2766 5844 238 93.8 globlastp brachypodiumll2vllBRADIlG0

WNU39_H6 2767 5845 238 93.7 globlastp

1200_P1

WNU39_H7 wheatll2v3ICA688079 2768 5846 238 93.4 globlastp

WNU39_H8 wheatll2v3ICN011782 2769 5847 238 91.6 globlastp

90.9

WNU39_H9 ryell2vllDRR001012.265039 2770 5848 238 glotblastn

1 wheatll2v3ISRR073322X11349

WNU39_H10 2771 5849 238 90.8 globlastp

0D1

WNU39_H11 maizell0vllAI612324_Pl 2772 5850 238 90.5 globlastp

WNU39_H12 ricell lvllBI798293 2773 5851 238 90.1 globlastp

WNU39_H13 sorghuml 12vllSB01G000850 2774 5852 238 89.8 globlastp

WNU39_H24 switchgrassll2vl lFE639701_Pl 2775 5853 238 89.1 globlastp foxtail_milletll lv3IPHY7SI0344

WNU39_H14 2776 5854 238 88.9 globlastp

95M_P1

WNU39_H25 switchgrassll2vl lFL833868_Pl 2777 5855 238 88.8 globlastp

WNU39_H26 switchgrassll2vl lFL719668_Pl 2778 5856 238 88.5 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

milletll0vl lEVO454PM002688_

WNU39_H15 2779 5857 238 88.3 globlastp

PI

WNU39_H16 maizell0vllAI947725_Pl 2780 5858 238 88.2 globlastp

WNU39_H17 s witchgras slgbl67IFE639701 2781 5859 238 88.2 glotblastn

WNU39_H18 oil_palmll lvl lEL683203_Pl 2782 5860 238 84.9 globlastp wheatll2v3ISRR400820X10358 83.9

WNU39_H19 2783 5861 238 glotblastn

70D1 8

WNU39_H20 ryell2vllBE438514 2784 5862 238 83.2 globlastp

WNU39_H21 bananall2vl lBBS2636T3_Pl 2785 5863 238 82.2 globlastp phalaenopsisll lvl lSRR125771.1 81.2

WNU39_H22 2786 5864 238 glotblastn

017165_T1 9 grapel 11 v 1 IGS VIVTO 102335100

WNU39_H23 2787 5865 238 80.6 globlastp

1_P1

WNU40_H1 ryell2vllDRR001012.93341 2788 5866 239 91.1 globlastp

WNU40_H2 ryel 12v 1 IDRROO 1012.297746 2789 5867 239 90.5 globlastp

WNU41_H2 wheatll2v3IBQ804367 2790 5868 240 89.6 globlastp

WNU42_H1 ryel 12v 1 IDRROO 1012.112433 2791 5869 241 96.1 globlastp

WNU42_H2 wheatll2v3ICA728904 2792 5870 241 96.1 globlastp

WNU42_H3 wheatll2v3IBE400749 2793 5871 241 93.1 globlastp brachypodiumll2vllBRADI5Gl

WNU42_H4 2794 5872 241 88.1 globlastp

3120_P1

WNU42_H5 ricell lvllCA765423 2795 5873 241 82.8 globlastp

WNU43_H1 wheatll2v3IBQ744365 2796 5874 242 87.6 globlastp

85.7

WNU43_H2 ryel 12v 1 IGFXEU 194240X 1 2797 5875 242 glotblastn

8

WNU43_H3 ricell lvllAY114110 2798 5876 242 82.2 globlastp

WNU44_H1 ryell2vllDRR001012.32802 2799 5877 243 94 globlastp

WNU44_H2 wheatll2v3IBF483666 2800 5878 243 94 globlastp

WNU46_H1 leymuslgbl66IEG400893_Pl 2801 5879 245 92.8 globlastp

WNU46_H2 wheatll2v3IBE446543 2802 5880 245 92.2 globlastp

WNU46_H3 wheatll2v3IBE404251 2803 5881 245 91.6 globlastp

WNU46_H4 ryell2vllBE495560 2804 5882 245 91.2 globlastp

WNU46_H5 ryel 12v 1 IDRROO 1012.276818 2805 5883 245 90.9 globlastp

WNU46_H6 barleyll2vllBG366599_Pl 2806 5884 245 89.6 globlastp

WNU46_H7 ricell lvllBI806398 2807 5885 245 85.9 globlastp

WNU46_H8 maizell0vllAW055419_Pl 2808 5886 245 82.9 globlastp

WNU46_H9 maizel lOvl IAI964620_P1 2809 5887 245 82.2 globlastp

WNU46_H10 sorghuml 12vl ISB02G000400 2810 5888 245 82.2 globlastp

WNU46_H11 sugarcanell0vl lCA090267 2811 5889 245 82.2 globlastp

WNU46_H15 switchgrassll2vl lDN144132_Pl 2812 5890 245 81.7 globlastp foxtail_milletl 11 v3 IEC612167_P

WNU46_H12 2813 5891 245 81.7 globlastp

1

WNU46_H13 s witchgras s Igb 167 IDN 144132 2814 5890 245 81.7 globlastp

WNU46_H14 switchgrasslgbl67IFE599308 2815 5892 245 80.7 globlastp

WNU47_H1 barleyll2vllAV833350_Pl 2816 5893 246 84.6 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU47_H2 ryell2vllDRR001012.111891 2817 5894 246 83.7 globlastp

WNU47_H3 wheatll2v3IBE516917 2818 5895 246 83.7 globlastp

WNU51_H1 wheatll2v3IBQ903841 2819 5896 249 86.7 globlastp

WNU51_H5 switchgrassll2vl lFE619109_Pl 2820 5897 249 82.7 globlastp foxtail_milletll lv3IPHY7SI0006

WNU51_H2 2821 5898 249 82.3 globlastp

37M_P1

WNU51_H3 ricell lvllAA753089 2822 5899 249 81.9 globlastp

WNU51_H4 sorghumll2vllSB03G029870 2823 5900 249 81.9 globlastp

87.0

WNU53_H2 switchgrassll2vl lFE620835_Tl 2824 5901 251 glotblastn

4

80.6

WNU53_H1 sorghuml 12v 11 SB 02G030160 2825 5902 251 glotblastn

4

WNU54_H1 switchgrasslgb 167 IDN 143732 2826 5903 252 89.9 globlastp

WNU54_H5 switchgrassll2vl lDN143732_Pl 2827 5904 252 89.6 globlastp

WNU54_H2 s witchgras slgbl67IFE621086 2828 5905 252 87.9 globlastp milletllOvl IEVO454PM077732_

WNU54_H3 2829 5906 252 81.3 globlastp

PI

WNU54_H4 sugarcanell0vl lBQ535885 2830 5907 252 80.2 globlastp

WNU55_H1 cenchruslgbl66IBM084440_Pl 2831 5908 253 97.6 globlastp

WNU55_H17 switchgrassll2vl lFE626008_Pl 2832 5909 253 92.4 globlastp

WNU55_H18 switchgrassll2vl lFL733655_Pl 2833 5910 253 91.7 globlastp

WNU55_H2 switchgrasslgbl67IFE626008 2834 5911 253 91.7 globlastp milletllOvl IEVO454PM020798_

WNU55_H3 2835 5912 253 91.4 globlastp

PI

WNU55_H4 maizell0vllAW052935_Pl 2836 5913 253 89.3 globlastp

WNU55_H5 sugarcanell0vl lAI105581 2837 5914 253 88.7 globlastp

WNU55_H6 oatll lvl lCN819661_Pl 2838 5915 253 87.9 globlastp

WNU55_H7 wheatll2v3IBE398870 2839 5916 253 87.6 globlastp

WNU55_H8 ryel 12v 1 IDRROO 1012.112998 2840 5917 253 86.9 globlastp

WNU55_H9 sorghuml 12vl ISB03G045400 2841 5918 253 86.9 globlastp

WNU55_H10 fescuelgb 161 IDT674680_P1 2842 5919 253 86.6 globlastp

WNU55_H11 leymuslgbl66IEG384989_Pl 2843 5920 253 86.6 globlastp pseudoroegnerialgb 167 IFF34924

WNU55_H12 2844 5921 253 86.6 globlastp

2

brachypodiumi 12v 1 IBRADI2G6

WNU55_H13 2845 5922 253 86.3 globlastp

0400_P1

WNU55_H14 ryell2vllBQ160176 2846 5923 253 85.5 globlastp

WNU55_H15 ryel 12v 1 IDRROO 1012.136908 2847 5924 253 83.6 globlastp

WNU55_H16 ryell2vllDRR001012.10881 2848 5925 253 82.1 globlastp milletl 1 Ovl IEVO454PM009410_

WNU56_H1 2849 5926 254 97.5 globlastp

PI

WNU56_H19 switchgrassll2vl IFL822962_P1 2850 5927 254 95.4 globlastp

WNU56_H2 sorghuml 12vl ISB06G000370 2851 5928 254 92.3 globlastp

WNU56_H3 maizell0vllAI615164_Pl 2852 5929 254 89.1 globlastp

WNU56_H4 maizel 1 Ov 11 AW054516_P 1 2853 5930 254 88.4 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU56_H5 wheatll2v3IBE414924 2854 5931 254 85.9 globlastp

WNU56_H6 barleyl 12v 1 IBE420715_P 1 2855 5932 254 85.6 globlastp brachypodiumll2vllBRADI5G0

WNU56_H7 2856 5933 254 85.6 globlastp

2400T3_P1

WNU56_H8 ryell2vllDRR001012.14123 2857 5934 254 84.2 globlastp

WNU56_H9 ryell2vllDRR001013.248475 2858 5935 254 84.2 globlastp

WNU56_H10 wheatll2v3IBE418367 2859 5936 254 84.2 globlastp

WNU56_H11 wheatll2v3IBE400635 2860 5937 254 83.8 globlastp

WNU56_H12 ryel 12v 1 IDRROO 1012.126292 2861 5938 254 83.5 globlastp

WNU56_H13 ryell2vllDRR001012.131238 2862 5939 254 83.5 globlastp

WNU56_H14 ricell lvllBI798616 2863 5940 254 82.9 globlastp

WNU56_H15 s witchgras s Igb 167 IFE610544 2864 5941 254 82 globlastp

WNU56_H16 wheatll2v3ICA678232 2865 5942 254 82 globlastp

WNU56_H20 switchgrassll2vl IFE600029_T1 2866 5943 254 80.7 glotblastn

WNU56_H17 switchgrasslgbl67IFE600029 2867 5943 254 80.7 glotblastn

WNU56_H18 sugarcanell0vl lBU102873 2868 5944 254 80.3 globlastp milletll0vl lEVO454PM018435_

WNU57_H1 2869 5945 255 96.2 globlastp

PI

WNU57_H13 s witchgras s 112v 1 IDN 141209_P 1 2870 5946 255 95.1 globlastp

WNU57_H2 s witchgras slgbl67IDN151901 2871 5947 255 95.1 globlastp

WNU57_H3 maizellOvllAI600883_Pl 2872 5948 255 92 globlastp

WNU57_H4 maizellOvllAI855375_Pl 2873 5949 255 91.1 globlastp

WNU57_H5 sorghuml 12vl ISB04G006620 2874 5950 255 90.7 globlastp

WNU57_H6 sugarcanell0vl lBQ533748 2875 5951 255 90.5 globlastp

WNU57_H7 ricell lvllBI305818 2876 5952 255 88.1 globlastp

WNU57_H8 barleyl 12vllBE437885_Pl 2877 5953 255 86.9 globlastp

WNU57_H9 ryell2vllBE493839 2878 5954 255 86.9 globlastp

WNU57_H10 wheatll2v3IBE403012 2879 5955 255 86.9 globlastp

WNU57_H11 oatll lvl lCN820052_Pl 2880 5956 255 86.4 globlastp brachypodiumll2vllBRADI3G0

WNU57_H12 2881 5957 255 85.9 globlastp

7130_P1

milletl lOvl IPMSLX0007469D 1_

WNU58_H1 2882 5958 256 93.1 globlastp

PI

WNU58_H3 switchgrassll2vl lFL798481_Pl 2883 5959 256 91.9 globlastp

WNU58_H2 switchgrasslgbl67IFL798481 2884 5960 256 91.5 globlastp

WNU60_H3 switchgrassll2vl lFE618777_Pl 2885 5961 257 95.1 globlastp

WNU60_H4 switchgrassll2vl lFL848693_Pl 2886 5962 257 93.9 globlastp

WNU60_H1 sorghuml 12vllSB03G035380 2887 5963 257 91.1 globlastp

WNU60_H2 maize 11 Ov 1 ICD947094_P 1 2888 5964 257 89.5 globlastp

94.1

WNU65_H4 switchgrassll2vl lDN151191_Tl 2889 5965 260 glotblastn

6

WNU65_H1 maizell0vllEC882969_Pl 2890 5966 260 90.6 globlastp

WNU65_H2 ricell lvllAU101102 2891 5967 260 86.1 globlastp

WNU65_H3 sorghuml 12v 11 SB 06G019660 2892 5968 260 82 globlastp

WNU65_H5 switchgrassll2vl lFE648952_Pl 2893 5969 260 81.4 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

milletllOvl IEVO454PM003908_

WNU66_H1 2894 5970 261 91 A globlastp

PI

foxtail_milletll lv3IPHY7SI0348

WNU66_H2 2895 5971 261 96.7 globlastp

76M_P1

WNU66_H14 switchgrassll2vl IFE624920_P1 2896 5972 261 95 globlastp

WNU66_H15 switchgrassll2vl IFL743094_P1 2897 5973 261 94.8 globlastp

WNU66_H3 sorghuml 12vllSB08G004950 2898 5974 261 92.8 globlastp

WNU66_H4 maizell0vllAI667773_Pl 2899 5975 261 92.4 globlastp

90.3

WNU66_H5 ricell lvllD40964 2900 - 261 glotblastn

1 brachypodiuml 12v 1 IBRADI2G3 88.2

WNU66_H6 2901 5976 261 glotblastn

1260_T1 4

WNU66_H7 barleyll2vllBI953051_Pl 2902 5977 261 87.7 globlastp brachypodiumll2vllBRADIlG7

WNU66_H8 2903 5978 261 87.7 globlastp

6820_P1

87.0

WNU66_H9 ryell2vllDRR001012.101674 2904 5979 261 glotblastn

2

WNU66_H10 wheatll2v3IBE515409 2905 5980 261 86.5 globlastp

WNU66_H11 wheatll2v3IBF484306 2906 5981 261 86 globlastp

WNU66_H12 sugarcanell0vl lCA084686 2907 5982 261 83.2 globlastp

WNU66_H13 wheatll2v3IBI750854 2908 5983 261 82 globlastp

WNU67_H11 switchgrassll2vl IFL749950_P1 2909 5984 262 98.8 globlastp

WNU67_H1 s witchgras s Igb 167 IDN 141403 2910 5985 262 98.2 globlastp

WNU67_H12 s witchgras s 112v 1 IDN 141403_P 1 2911 5986 262 97.8 globlastp

WNU67_H2 sorghuml 12vl ISB04G036240 2912 5987 262 95.8 globlastp

WNU67_H3 sugarcanell0vl lBU102542 2913 5988 262 95.2 globlastp

WNU67_H4 maizell0vllAW562559_Pl 2914 5989 262 94.6 globlastp milletl 1 Ovl IEVO454PM095165_ 93.3

WNU67_H5 2915 5990 262 glotblastn

Tl 1

WNU67_H6 ricell lvllBI306271 2916 5991 262 93.3 globlastp brachypodiumll2vllBRADI3G5

WNU67_H7 2917 5992 262 91.5 globlastp

4387_P1

WNU67_H8 barleyll2vllBF621231_Pl 2918 5993 262 89.7 globlastp

88.9

WNU67_H9 ryell2vllDRR001012.125551 2919 5994 262 glotblastn

3

WNU67_H10 wheatll2v3IBE424759 2920 5995 262 85.1 globlastp

WNU68_H5 switchgrassll2vl lFE605833_Pl 2921 5996 263 87.9 globlastp

WNU68_H1 switchgrasslgbl67IFE605833 2922 5997 263 87.8 globlastp

WNU68_H2 ricell lvllAU033236 2923 5998 263 83.4 globlastp milletl 1 Ovl IPMSLX0015205D 1_

WNU68_H3 2924 5999 263 83.2 globlastp

PI

WNU68_H4 sorghuml 12vl ISB04G027630 2925 6000 263 82.6 globlastp brachypodiuml 12v 1 IBRADI2G3

WNU69_H1 2926 6001 264 83.1 globlastp

3487_P1

WNU69_H2 ricell lvllAA753248 2927 6002 264 83.1 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU69_H3 sorghumll2vllSB09G005780 2928 6003 264 80.8 globlastp

WNU70_H1 switchgrassll2vl IFL702936_P1 2929 6004 265 89.1 globlastp

WNU70_H2 switchgrassll2vl lFL714970_Pl 2930 6005 265 84.9 globlastp

WNU71_H26 switchgrassll2vl lFL855287_Pl 2931 6006 266 97.1 globlastp

96.3

WNU71_H1 switchgrasslgbl67IFL745977 2932 6007 266 glotblastn

6

WNU71_H2 sorghumll2vllSB02G033430 2933 6008 266 95.6 globlastp

WNU71_H27 switchgrassll2vl IFL745977_P1 2934 6009 266 94.9 globlastp

WNU71_H3 sugarcanel 1 Ovl ICA 107770 2935 6010 266 94.9 globlastp pseudoroegnerialgb 167 IFF34574

WNU71_H4 2936 6011 266 93 globlastp

4

WNU71_H5 ryel 12v 1 IDRR001012.120492 2937 6012 266 92.5 globlastp

WNU71_H6 ryell2vllBE494187 2938 6013 266 91.8 globlastp

WNU71_H7 ryell2vllDRR001012.301737 2939 6014 266 91.8 globlastp milletl 1 Ovl IEVO454PM016198_

WNU71_H8 2940 6015 266 91.7 globlastp

PI

WNU71_H9 barleyll2vllBE413186_Pl 2941 6016 266 91.5 globlastp

WNU71_H10 wheatll2v3IBE414569 2942 6017 266 91.5 globlastp

WNU71_H11 leymuslgbl66IEG385262_Pl 2943 6018 266 91.3 globlastp

WNU71_H12 fescuelgb 161 IDT674288_P1 2944 6019 266 90.6 globlastp

WNU71_H13 ricell lvllBI797791 2945 6020 266 90.3 globlastp brachypodiumll2vllBRADIlG2

WNU71_H14 2946 6021 266 89.9 globlastp

7460_P1

WNU71_H15 oatll lvl lAA231752_Pl 2947 6022 266 89.6 globlastp

81.1

WNU71_H16 bananall2vl lFF557606_Tl 2948 6023 266 glotblastn

9 hornbeaml 12vl ISRR364455.110 81.0

WNU71_H17 2949 6024 266 glotblastn

930_T1 7

80.8

WNU71_H18 maize 11 Ov 11 AI920419_T 1 2950 6025 266 glotblastn

3

WNU71_H19 cacaoll0vllCU471506_Pl 2951 6026 266 80.5 globlastp

80.3

WNU71_H20 cottonll lvllCO089937_Tl 2952 6027 266 glotblastn

4

80.3

WNU71_H21 ipomoea_nilll0vl lBJ565253_Tl 2953 6028 266 glotblastn

4

WNU71_H22 bananal 12vl IBBS 184T3_P1 2954 6029 266 80.1 globlastp

WNU71_H23 cottonll lvllBE055094_Tl 2955 6030 266 80.1 glotblastn flaveriall lvl lSRR149229.12341

WNU71_H24 2956 6031 266 80.1 glotblastn

0_T1

WNU71_H25 strawberry 111 vl IGT 151387 2957 6032 266 80.1 globlastp milletllOvl IEVO454PM004850_

WNU72_H1 2958 6033 267 94.3 globlastp

PI

WNU72_H14 switchgrassll2vl IFE609299_P1 2959 6034 267 93.3 globlastp

WNU72_H2 switchgrasslgbl67IFE609299 2960 6035 267 93.1 globlastp

WNU72_H3 maizell0vllAI943960_Pl 2961 6036 267 90.1 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU72 _. -H4 sorghuml 12v 11 SB 01 G000600 2962 6037 267 89.9 globlastp

WNU72 _. -H5 maizell0vllW49430_Pl 2963 6038 267 88.9 globlastp brachypodiumll2vllBRADIlG0

WNU72 _. -H6 2964 6039 267 85.1 globlastp

0990_P1

WNU72 _. -H7 ricell lvllBE229715 2965 6040 267 83.7 globlastp

WNU72 _. -H8 wheatll2v3IBE498573 2966 6041 267 83.2 globlastp

WNU72 _. -H9 wheatll2v3IBE591785 2967 6042 267 83 globlastp

82.9

WNU72 _. _H10 ryell2vllBE587577 2968 6043 267 glotblastn

7

WNU72 _. -Hl l ryell2vllBF145793 2969 6044 267 82.8 globlastp

WNU72 _. _H12 barleyll2vllBF625365_Pl 2970 6045 267 82.6 globlastp wheatll2v3ISRR073321X11644

WNU72 _. _H13 2971 6046 267 81.2 globlastp

9D1

WNU73 _{. .} HI milletll0vl lEB411032_Pl 2972 6047 268 92.2 globlastp

WNU73 _. -H2 s witchgras slgbl67IDN143721 2973 6048 268 91.2 globlastp

WNU73 _. -H3 sorghuml 12vllSB01G038500 2974 6049 268 89.4 globlastp

WNU73 _. -H4 maizell0vllAI943624_Pl 2975 6050 268 88.1 globlastp

WNU73 _. -H9 switchgrassll2vl lFE628623_Pl 2976 6051 268 83 globlastp

WNU73 _. -H5 ricell lvllBE230020 2977 6052 268 81.8 globlastp

WNU73 _. _H10 switchgrassll2vl lDN143721_Pl 2978 6053 268 81.6 globlastp brachypodiumll2vllBRADIlG6

WNU73 _. -H6 2979 6054 268 80.4 globlastp

5580_P1

WNU73 _. -H7 barleyll2vllBE216681_Pl 2980 6055 268 80.2 globlastp

WNU73 _. -H8 wheatll2v3IBF478638 2981 6056 268 80 globlastp

WNU74 _. Hl l switchgrassll2vl lFE597705_Pl 2982 6057 269 96.8 globlastp

WNU74 _. HI s witchgras slgbl67IDN143125 2983 6058 269 96.8 globlastp

WNU74 -H2 sorghuml 12v 11 SB 01 G026590 2984 6059 269 94.1 globlastp

WNU74 _. -H3 maizell0vllAI941583_Pl 2985 6060 269 92.9 globlastp

WNU74 _. -H4 ricell lvllCA998124 2986 6061 269 89.2 globlastp brachypodiumll2vllBRADI3G2

WNU74 _. -H5 2987 6062 269 85.9 globlastp

1180_P1

WNU74 _. -H6 ryell2vllBE587915 2988 6063 269 84.1 globlastp

WNU74 _. -H7 sugarcanell0vl lCA066393XX2 2989 6064 269 84.1 globlastp

WNU74 _. -H8 wheatll2v3IBQ161332 2990 6065 269 84.1 globlastp

WNU74 _. -H9 wheatll2v3IBE443378 2991 6066 269 83.5 globlastp

WNU74 _. _H10 barleyll2vllAV836614_Pl 2992 6067 269 82.6 globlastp

WNU75 _{. .} HI sorghuml 12vllSB06G030330 2993 6068 270 97.1 globlastp

WNU75 _. -H2 sugarcanel lOvl ICA087831 2994 6069 270 96.3 globlastp

WNU75 _. -H3 maizell0vllT18425_Pl 2995 6070 270 93 globlastp

WNU75 _. -H4 switchgrasslgbl67IFL741557 2996 6071 270 87.3 globlastp

WNU75 _. -H8 switchgrassll2vl IFE603022_P1 2997 6072 270 86.5 globlastp foxtail_milletll lv3IPHY7SI0109

WNU75 _. -H5 2998 6073 270 86.5 globlastp

09M_P1

WNU75 _. -H6 switchgrasslgbl67IFE603022 2999 6074 270 85.7 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

milletllOvl IEVO454PM000097_

WNU75_H7 3000 6075 270 85.3 globlastp

PI

WNU76_H1 sorghuml 12vl ISB02G042930 3001 6076 271 93.1 globlastp foxtail_milletll lv3IPHY7SI0289

WNU76_H2 3002 6077 271 90 globlastp

82M_P1

89.4

WNU76_H3 switchgrasslgbl67IFE629549 3003 6078 271 glotblastn

5

84.0

WNU76_H4 ricell lvllBI798105 3004 - 271 glotblastn

5

WNU76_H5 barleyll2vllBI952099_Pl 3005 6079 271 81.4 globlastp

WNU76_H6 wheatll2v3IBG604709 3006 6080 271 81.4 globlastp

WNU76_H7 ryell2vllBE705594 3007 6081 271 81 globlastp

WNU77_H1 sugarcanell0vl lCA082006 3008 6082 272 86 globlastp

WNU77_H2 switchgrasslgbl67IDN145582 3009 6083 272 81 globlastp

WNU77_H3 switchgrassll2vl lDN143279_Pl 3010 6084 272 80.8 globlastp

WNU82_H3 maizell0vllEY952669_Pl 3011 6085 276 83.9 globlastp foxtail_milletll lv3IEC613694_P

WNU85_H1 3012 6086 278 86.4 globlastp

1

WNU85_H2 leymuslgbl66IEG386550_Pl 3013 6087 278 84.1 globlastp

WNU85_H3 maizell0vllBI273418_Pl 3014 6088 278 83.7 globlastp brachypodiuml 12v 1 IBRADI2G0

WNU85_H4 3015 6089 278 83.6 globlastp

7510_P1

WNU85_H5 sorghuml 12v 11 SB 03G001140 3016 6090 278 83.6 globlastp

WNU85_H6 maizel lOvl IAI622003_P1 3017 6091 278 83 globlastp

WNU85_H7 sugarcanel 1 Ovl ICA077199 3018 6092 278 82.9 globlastp

WNU85_H8 wheatll2v3IBE407080 3019 6093 278 82.2 globlastp pseudoroegnerialgb 167 IFF34644

WNU85_H9 3020 6094 278 81.5 globlastp

0

WNU91_H1 sugarcanel 10vl lBQ529697 3021 6095 281 95.1 globlastp

WNU91_H2 maizell0vllAI714451_Pl 3022 6096 281 91.9 globlastp

WNU91_H3 cenchruslgbl66IEB659537_Pl 3023 6097 281 87 globlastp foxtail_milletll lv3IPHY7SI0362

WNU91_H4 3024 6098 281 86.5 globlastp

79M_P1

milletl 1 Ovl IEVO454PM061725_

WNU91_H5 3025 6099 281 86.5 globlastp

PI

WNU91_H6 switchgrasslgb 167IFL718671 3026 6100 281 86.5 globlastp

WNU91_H7 s witchgras slgbl67IDN146028 3027 6101 281 86.2 globlastp

WNU91_H8 maizel 10vllBG841044_Pl 3028 6102 281 85.6 globlastp

WNU91_H9 switchgrassll2vl lDN146028_Pl 3029 6103 281 85.4 globlastp

WNU92_H1 sugarcanell0vl lCA115395 3030 6104 282 98.7 globlastp

WNU92_H2 maizel 10vllBG842702_Pl 3031 6105 282 94.8 globlastp foxtail_milletll lv3IPHY7SI0367

WNU92_H3 3032 6106 282 91.3 globlastp

35M_P1

WNU92_H11 switchgrassll2vl lFL787392_Pl 3033 6107 282 90.6 globlastp

WNU92_H4 switchgrasslgbl67IFL787392 3034 6108 282 90.6 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

milletl 1 Ovl IEVO454PM039193_

WNU92_H5 3035 6109 282 88.6 globlastp

PI

WNU92_H6 ricell lvllGFXAC079890X38 3036 6110 282 82.7 globlastp

WNU92_H7 wheatll2v3IBE401563 3037 6111 282 82.2 globlastp pseudoroegnerialgb 167 IFF34012

WNU92_H8 3038 6112 282 81.9 globlastp

7

brachypodiumll2vllBRADI3G3 81.7

WNU92_H9 3039 6113 282 glotblastn

3500_T1 3

WNU92_H10 ryel 12v 1 IDRR001012.184640 3040 6114 282 81.7 globlastp

90.3

WNU93_H1 sorghuml 12v 11 SB 03G008170 3041 6115 283 glotblastn

5

WNU93_H2 maizell0vllEG041304_Pl 3042 6116 283 86.9 globlastp

WNU94_H1 maizell0vllAI712018_Pl 3043 6117 284 89.2 globlastp

WNU96_H1 sugarcanell0vl lBQ533215 3044 6118 285 99.3 globlastp

WNU96_H37

switchgrassll2vl lDN145903_Pl 3045 6119 285 97.3 globlastp 8

foxtail_milletll lv3IPHY7SI0195

WNU96_H2 3046 6120 285 97.3 globlastp

35M_P1

WNU96_H3 s witchgras slgbl67IDN145903 3047 6119 285 97.3 globlastp milletl 1 Ovl IEVO454PM012266_

WNU96_H4 3048 6121 285 96.6 globlastp

PI

WNU96_H37

switchgrassll2vl lDN143392_Pl 3049 6122 285 95.2 globlastp 9

WNU96_H5 switchgrasslgbl67IDN143392 3050 6122 285 95.2 globlastp

WNU96_H38

switchgrassll2vl lFE642253_Pl 3051 6123 285 94.6 globlastp 0

WNU96_H6 maizell0vllAI677028_Pl 3052 6124 285 93.8 globlastp

WNU96_H7 sorghuml 12vl ISB02G039090 3053 6125 285 93.2 globlastp

WNU96_H8 sugarcanell0vl lBQ533371 3054 6125 285 93.2 globlastp

WNU96_H9 sugarcanell0vl lBQ537159 3055 6125 285 93.2 globlastp foxtail_milletll lv3IPHY7SI0314

WNU96_H10 3056 6126 285 92.5 globlastp

25M_P1

WNU96_H11 maizell0vllAI649418_Pl 3057 6127 285 92.5 globlastp

WNU96_H12 maizell0vllAI861105_Pl 3058 6128 285 92.5 globlastp

WNU96_H38

switchgrassll2vl lDN143058_Pl 3059 6129 285 91.8 globlastp 1

WNU96_H13 ricell lvllBI305765 3060 6130 285 91.8 globlastp brachypodiumll2vllBRADIlG2

WNU96_H14 3061 6131 285 91.1 globlastp

1630_P1

milletllOvl IEVO454PM006047_

WNU96_H15 3062 6132 285 91.1 globlastp

PI

WNU96_H38

switchgrassll2vl lDN145269_Pl 3063 6133 285 90.4 globlastp 2

brachypodiumll2vllBRADIlG6

WNU96_H16 3064 6134 285 89.9 globlastp

0160_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H17 fescuelgbl61 IDT685989_Pl 3065 6135 285 89.7 globlastp

WNU96_H18 oatll lvl lGO586704_Pl 3066 6135 285 89.7 globlastp

WNU96_H19 oatll lvl lG0586971_Pl 3067 6135 285 89.7 globlastp

WNU96_H20 oatll lvl lGR342940_Pl 3068 6135 285 89.7 globlastp

WNU96_H21 oatll lvl lGR356048_Pl 3069 6135 285 89.7 globlastp

WNU96_H22 ricell lvllBE039823 3070 6136 285 89.1 globlastp

WNU96_H23 barleyll2vllBF625537_Pl 3071 6137 285 89 globlastp

WNU96_H24 oatll lvl lG0588962_Pl 3072 6138 285 88.5 globlastp

88.4

WNU96_H25 cynodonl 1 Ovl IB Q825915_T 1 3073 6139 285 glotblastn

4

WNU96_H26 cenchruslgbl66IEB658948_Pl 3074 6140 285 88.4 globlastp

WNU96_H27 ryel 12v 1 IDRR001012.102215 3075 6141 285 88.4 globlastp

WNU96_H28 ryell2vllDRR001012.24513 3076 6142 285 88.4 globlastp pseudoroegnerialgb 167 IFF34807 88.3

WNU96_H29 3077 6143 285 glotblastn

7 6

WNU96_H30 wheatll2v3IBE419409 3078 6144 285 87.7 globlastp

WNU96_H31 loliuml 1 Ov 11 AU249100_P 1 3079 6145 285 87.2 globlastp

87.0

WNU96_H32 switchgrasslgbl67IFE628032 3080 6146 285 glotblastn

7

WNU96_H33 fescuelgb 161 IDT694422_P1 3081 6147 285 86.5 globlastp

WNU96_H38 switchgrassll2vl lSRR187765.11

3082 6148 285 86.4 globlastp 3 8162_P1

WNU96_H34 ricell lvllAF074733 3083 6149 285 86.4 globlastp

86.3

WNU96_H35 ricell lvllAU101070 3084 6150 285 glotblastn

9 catharanthusll lvllEG557678XX

WNU96_H36 3085 6151 285 85.7 globlastp

1_P1

chelidoniuml 11 vl ISRR084752X

WNU96_H37 3086 6152 285 85.7 globlastp

100509_P1

WNU96_H38 periwinklelgbl64IEG557678_Pl 3087 6151 285 85.7 globlastp

85.6

WNU96_H39 lovegrasslgb 167 IEH 195517_T 1 3088 6153 285 glotblastn

2

WNU96_H40 wheatll2v3ICA485730 3089 6154 285 85.6 globlastp

WNU96_H41 oiLpalmll 1 vl IEL682473_P1 3090 6155 285 85.2 globlastp phalaenopsisll lvl lCB032680_P

WNU96_H42 3091 6156 285 85.2 globlastp

1

WNU96_H43 artemisial 1 Ovl IEY032469_P 1 3092 6157 285 85 globlastp artemisial 1 Ovl ISRR019254S008

WNU96_H44 3093 6157 285 85 globlastp

9735_P1

eschscholzial 11 vl ICD481334XX

WNU96_H45 3094 6158 285 85 globlastp

1_P1

eschscholzial 11 v 11 SRR014116.1

WNU96_H46 3095 6158 285 85 globlastp

06420_P1

flaveriall lvl lSRR149229.10610

WNU96_H47 3096 6159 285 85 globlastp

5_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H48 lettucell2vl lDW056578_Pl 3097 6160 285 85 globlastp plantagoll 1 V2ISRR066373X112

WNU96_H49 3098 6161 285 84.9 globlastp

538_P1

WNU96_H50 bananal 12vl IES433157_P1 3099 6162 285 84.6 globlastp

WNU96_H51 oil_palmll lvl lEL682536_Pl 3100 6163 285 84.6 globlastp amorphophallusll lv2ISRR08935

WNU96_H52 3101 6164 285 84.5 globlastp

1X111826_P1

WNU96_H53 basilicumll0vl lDY331064_Pl 3102 6165 285 84.4 globlastp cirsiumll lvllSRR346952.14311

WNU96_H54 3103 6166 285 84.4 globlastp

4_P1

cirsiumll lvllSRR349641.67178

WNU96_H55 3104 6167 285 84.4 globlastp

6_P1

eschscholzial l lvl ICK746606_P

WNU96_H56 3105 6168 285 84.4 globlastp

1

eschscholzial 11 v 11 SRRO 14116.1

WNU96_H57 3106 6169 285 84.4 globlastp

21035_P1

WNU96_H58 eucalyptusll lv2ICU399079_Pl 3107 6170 285 84.4 globlastp fagopyrumll lvl lSRR063689Xl

WNU96_H59 3108 6171 285 84.4 globlastp

03613_P1

fagopyruml l lvl ISRR063703X 1

WNU96_H60 3109 6172 285 84.4 globlastp

12774XX1_P1

flaveriall lvl lSRR149229.13060

WNU96_H61 3110 6173 285 84.4 globlastp

5_P1

flaveriall lvl lSRR149229.19286

WNU96_H62 3111 6174 285 84.4 globlastp

2_P1

flaveriall lvl lSRR149232.10738

WNU96_H63 3112 6175 285 84.4 globlastp

_P1

flaveriall lvl lSRR149232.17823

WNU96_H64 3113 6176 285 84.4 globlastp

5_P1

flaveriall lvl lSRR149241.11115

WNU96_H65 3114 6175 285 84.4 globlastp

5_P1

WNU96_H66 gerberal09vllAJ750765_Pl 3115 6177 285 84.4 globlastp grapel 11 v 1 IGS VIVTO 103240500

WNU96_H67 3116 6178 285 84.4 globlastp

1_P1

WNU96_H68 poplarll0vl lBI131568 3117 6179 285 84.4 globlastp

WNU96_H68 poplarll3vl lBI131568_Pl 3118 6179 285 84.4 globlastp

WNU96_H69 poplarll0vl lBU824189 3119 6180 285 84.4 globlastp

WNU96_H69 poplarll3vl lBU824189_Pl 3120 6180 285 84.4 globlastp poppy 1 l lvl ISRR030259.101588

WNU96_H70 3121 6181 285 84.4 globlastp

_P1

utricularial 11 v 11 SRR094438.113 84.3

WNU96_H71 3122 6182 285 glotblastn

490 5

WNU96_H38 prunus_mumel 13 vl ICB 820134_

3123 6183 285 84 globlastp 4 PI

WNU96_H72 prunusll0vl lCB820134 3124 6184 285 84 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H73 bananall2vl lES433372_Pl 3125 6185 285 83.9 globlastp

WNU96_H74 bananall2vl lES437435_Pl 3126 6186 285 83.9 globlastp

WNU96_H75 bananall2vl lFL664940_Pl 3127 6187 285 83.9 globlastp

WNU96_H76 oiLpalmll 1 vl IEY403792_P1 3128 6188 285 83.9 globlastp

WNU96_H38

castorbeanll2vl lEV521260_Pl 3129 6189 285 83.7 globlastp 5

amsoniall lvllSRR098688X1032

WNU96_H77 3130 6190 285 83.7 globlastp

53_P1

arnicall lvl lSRR099034X10019

WNU96_H78 3131 6191 285 83.7 globlastp

6_P1

arnicall lvl lSRR099034X10979

WNU96_H79 3132 6192 285 83.7 globlastp

5_P1

WNU96_H80 cannabis 112v 1 IEW701714_P 1 3133 6193 285 83.7 globlastp

WNU96_H81 castorbeanll lvl lEV521260 3134 6189 285 83.7 globlastp catharanthusll lvllEG557805XX

WNU96_H82 3135 6194 285 83.7 globlastp

1_P1

cleome_gynandral 1 Ov 1 ISRRO 15

WNU96_H83 3136 6195 285 83.7 globlastp

532S0032808_P1

cucurbital l lvl ISRR091276X 130

WNU96_H84 3137 6196 285 83.7 globlastp

567_P1

WNU96_H85 euphorbiall lvllDVl 12950_P1 3138 6197 285 83.7 globlastp flaveriall lvl lSRR149232.10865

WNU96_H86 3139 6198 285 83.7 globlastp

7_P1

flaveriall lvl lSRR149241.10147

WNU96_H87 3140 6199 285 83.7 globlastp

9_P1

flaveriall lvl lSRR149241.11628

WNU96_H88 3141 6200 285 83.7 globlastp

1_P1

flaveriall lvl lSRR149241.16389

WNU96_H89 3142 6200 285 83.7 globlastp

1_P1

hornbeaml 12vl ISRR364455.101

WNU96_H90 3143 6201 285 83.7 globlastp

82_P1

phylall 1 v2ISRR099035X102200

WNU96_H91 3144 6202 285 83.7 globlastp

_P1

plantagoll 1 V2ISRR066373X103

WNU96_H92 3145 6203 285 83.7 globlastp

518_P1

WNU96_H93 poplarll0vl lAI162838 3146 6204 285 83.7 globlastp

WNU96_H93 poplarll3vl lAI162838_Pl 3147 6204 285 83.7 globlastp

WNU96_H94 poppyll lvllFE964351_Pl 3148 6205 285 83.7 globlastp sarracenial 11 v 1 ISRR 192669.161

WNU96_H95 3149 6206 285 83.7 globlastp

055

WNU96_H96 sunflowerll2vllCD848611XXl 3150 6207 285 83.7 globlastp

WNU96_H97 sunflower 112v 1 IEL432812 3151 6207 285 83.7 globlastp tragopogonll0vllSRR020205S0

WNU96_H98 3152 6208 285 83.7 globlastp

003341 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

utricularial 11 v 11 SRR094438.101

WNU96_H99 3153 6209 285 83.7 globlastp

639

WNU96_H10 pseudotsugal 1 Ov 1 ISRR065119S0

3154 6210 285 83.6 globlastp 0 009880

WNU96_H10

ryell2vllDRR001012.3832 3155 6211 285 83.6 globlastp 1

WNU96_H10 cedrusll lvllSRR065007X10035 83.5

3156 6212 285 glotblastn 2 4_T1 6

WNU96_H10

applell lvllCN489950_Pl 3157 6213 285 83.2 globlastp 3

WNU96_H10 pepperll2vllSRR203275X41866

3158 6213 285 83.2 globlastp 4 D1_P1

WNU96_H38

beanll2v2ICA897774_Pl 3159 6214 285 83 globlastp 6

WNU96_H38 monkeyflowerl 12vl IDV20695 \_

3160 6215 285 83 globlastp 7 PI

WNU96_H38 monkeyflowerl 12vl ID V211975_

3161 6216 285 83 globlastp 8 PI

WNU96_H38 prunus_mumell3vl lBU039430_

3162 6217 285 83 globlastp 9 PI

WNU96_H10 ambrosial 11 vl lFG943037XXl_P

3163 6218 285 83 globlastp 5 1

WNU96_H10 ambrosial 11 V1 ISRR346935.3342

3164 6218 285 83 globlastp 6 29_P1

WNU96_H10 ambrosial 11 vl ISRR346943.1225

3165 6219 285 83 globlastp 7 13XX1_P1

WNU96_H10 aquilegial 10v2IJGIAC006234_P

3166 6220 285 83 globlastp 8 1

WNU96_H10 b Junceal 12v 1 IE6 ANDIZ01 A5B

3167 6221 285 83 globlastp 9 9Z_P1

WNU96_H11 b Junceal 12v 1 IE6 ANDIZ01 AU7

3168 6222 285 83 globlastp 0 ID_P1

WNU96_H11 b Junceal 12v 1 IE6 ANDIZ01 C4N

3169 6223 285 83 globlastp 1 DD_P1

WNU96_H11

b_oleracealgb 161 ID Y026186_P 1 3170 6224 285 83 globlastp 2

WNU96_H11

b_rapall lvllBG544961_Pl 3171 6224 285 83 globlastp 3

WNU96_H11

b_rapall lvllCD812537_Pl 3172 6221 285 83 globlastp 4

WNU96_H11

b_rapall lvllCD816901_Pl 3173 6225 285 83 globlastp 5

WNU96_H11

b_rapall lvllL33536_Pl 3174 6223 285 83 globlastp 6

WNU96_H11

canolall lvllCN728700XXl_Pl 3175 6223 285 83 globlastp 8 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H11

canolall lvllCN731386XXl_Pl 3176 6223 285 83 globlastp 9

WNU96_H12

canolall lvllCN731668XXl_Pl 3177 6223 285 83 globlastp 0

WNU96_H12

canolall lvllCN732454XXl_Pl 3178 6224 285 83 globlastp 1

WNU96_H12

canolal 11 v 1 IDW997477_P 1 3179 6224 285 83 globlastp 2

WNU96_H12 chelidoniuml 11 vl ISRR084752X

3180 6226 285 83 globlastp 3 110318_P1

WNU96_H12 cleome_spinosall0vl lGR934804

3181 6227 285 83 globlastp 4 XX1_P1

WNU96_H12 cleome_spinosall0vl lSRR01553

3182 6228 285 83 globlastp 5 1S0005856_P1

WNU96_H12

cottonll lvllBE052151_Pl 3183 6229 285 83 globlastp 6

WNU96_H12

cucumberl09vllCK085637_Pl 3184 6230 285 83 globlastp 7

WNU96_H12 euonymus 111 v 11 SRR070038X12

3185 6231 285 83 globlastp 8 2109_P1

WNU96_H12 euonymus 111 v 11 SRR070038X18

3186 6232 285 83 globlastp 9 8652_P1

WNU96_H13 flaveriall lvl lSRR149232.11262

3187 6233 285 83 globlastp 0 4_P1

WNU96_H13 gossypium_raimondiil 12v 1 IBEO

3188 6229 285 83 globlastp 1 52151_P1

WNU96_H13 grapel 11 v 1 IGS VIVTO 100766700

3189 6234 285 83 globlastp 2 1_P1

WNU96_H13

kiwilgbl66IFG425898_Pl 3190 6235 285 83 globlastp 3

WNU96_H13

lettucell2vl lDW044410_Pl 3191 6236 285 83 globlastp 4

WNU96_H13

lettucell2vl lDW047896_Pl 3192 6237 285 83 globlastp 5

WNU96_H13

monkeyflowerl lOvl IDV206951 3193 6215 285 83 globlastp 6

WNU96_H13

monkeyflowerl 1 Ovl ID V211975 3194 6216 285 83 globlastp 7

WNU96_H13

partheniuml 1 Ov 1 IGW779132_P 1 3195 6238 285 83 globlastp 8

WNU96_H13 platanusll lvl lSRR096786X1043

3196 6239 285 83 globlastp 9 7_P1

WNU96_H14

poplarll0vl lAI164349 3197 6240 285 83 globlastp 0

WNU96_H14

poplarll3vl lAI164349_Pl 3198 6240 285 83 globlastp 0 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H14

prunusll0vl lBU039430 3199 6217 285 83 globlastp 1

WNU96_H14

rosell2vllSRR397984.100042 3200 6241 285 83 globlastp 2

WNU96_H14

seneciolgbl70IDY661161 3201 6242 285 83 globlastp 3

WNU96_H14

silenell lvl lSRR096785X100751 3202 6243 285 83 globlastp 4

WNU96_H14

spurgelgbl61IDV112950 3203 6244 285 83 globlastp 5

WNU96_H14

spurgelgbl61IDVl 13682 3204 6245 285 83 globlastp 6

WNU96_H14 tragopogonll0vllSRR020205S0

3205 6246 285 83 globlastp 7 012356

WNU96_H14 tragopogonll0vllSRR020205S0

3206 6247 285 83 globlastp 8 135148

WNU96_H14 tripterygiumll 1 vl ISRR098677X

3207 6248 285 83 globlastp 9 107685XX1

WNU96_H15 euphorbiall lvllDV113682XXl_ 82.9

3208 6249 285 glotblastn 0 Tl 9

WNU96_H15 flaveriall lvl lSRR149241.18414 82.9

3209 6250 285 glotblastn 1 3_T1 9

WNU96_H15 82.9

strawberryll 1 vl IEX672486 3210 6251 285 glotblastn 2 9

WNU96_H15 cedrusll lvllSRR065007X13309

3211 6252 285 82.9 globlastp 3 5_P1

WNU96_H15

cycaslgbl66ICB092905_Pl 3212 6253 285 82.9 globlastp 4

WNU96_H15

sprucell lvllAF051252 3213 6254 285 82.9 globlastp 5

WNU96_H15

sprucell lvllES252863 3214 6254 285 82.9 globlastp 6

WNU96_H15

sprucell lvllES259552XX2 3215 6254 285 82.9 globlastp 7

WNU96_H15

sprucell lvllEX331635XXl 3216 6254 285 82.9 globlastp 8

WNU96_H15 spruce 111 v 11 SRR064180X 14900

3217 6254 285 82.9 globlastp 9 6

WNU96_H16 spruce 111 v 11 SRR064180X 16201 82.8

3218 6255 285 glotblastn 0 4 8

WNU96_H39 zosterall2vl lSRR057351X10442

3219 6256 285 82.7 globlastp 0 2D1_P1

WNU96_H16 zosterall0vl lSRR057351S00168

3220 6256 285 82.7 globlastp 1 69

WNU96_H39

zosterall2vl lAM770335_Pl 3221 6257 285 82.6 globlastp 1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H16

zosterall0vl lAM770335 3222 6257 285 82.6 globlastp 2

WNU96_H16 amorphophallusll lv2ISRR08935

3223 6258 285 82.4 globlastp 3 1X101338_P1

WNU96_H16

cacaoll0vllCU473578_Pl 3224 6259 285 82.4 globlastp 4

WNU96_H16 82.3

canolall lvllCN726672XXl_Tl 3225 6260 285 glotblastn 5 1

WNU96_H16 cirsiumll lvllSRR346952.10086 82.3

3226 6261 285 glotblastn 6 46_T1 1

WNU96_H16 fagopyrumll lvl lSRR063689Xl 82.3

3227 6262 285 glotblastn 7 17854_T1 1

WNU96_H16 thalictruml 11 v 11 SRR096787X 10 82.3

3228 6263 285 glotblastn 8 2875 1

WNU96_H16 thalictruml 11 vl ISRR096787X11 82.3

3229 6264 285 glotblastn 9 5641 1

WNU96_H39

castorbeanll2vl lT15058_Pl 3230 6265 285 82.3 globlastp 2

WNU96_H39 monkeyflowerl 12vl IDV206555_

3231 6266 285 82.3 globlastp 3 PI

WNU96_H17 ambrosiall lvl lSRR346935.1015

3232 6267 285 82.3 globlastp 0 75_P1

WNU96_H17 ambrosial l lvl lSRR346935.1057

3233 6268 285 82.3 globlastp 1 96_P1

WNU96_H17 aquilegial 10v2IJGIAC009870_P

3234 6269 285 82.3 globlastp 2 1

WNU96_H17 b J unceal 12v 1 IE6 ANDIZ01 A36

3235 6270 285 82.3 globlastp 3 34_P1

WNU96_H17 b Junceal 12v 1 IE6 ANDIZ01 A4E

3236 6271 285 82.3 globlastp 4 LM_P1

WNU96_H17

b Junceal 12v 1 IEF165000_P 1 3237 6272 285 82.3 globlastp 5

WNU96_H17

b_oleracealgb 161 ID Y025832_P 1 3238 6273 285 82.3 globlastp 6

WNU96_H17

b_oleracealgb 161 ID Y026153_P 1 3239 6274 285 82.3 globlastp 7

WNU96_H17

basilicumll0vl lDY337098_Pl 3240 6275 285 82.3 globlastp 8

WNU96_H17

cacaoll0vllEH057746_Pl 3241 6276 285 82.3 globlastp 9

WNU96_H18

canolall lvllCN725957XXl_Pl 3242 6273 285 82.3 globlastp 0

WNU96_H18

canolall lvllCN730422_Pl 3243 6274 285 82.3 globlastp 1

WNU96_H18

canolall lvllCN732102_Pl 3244 6277 285 82.3 globlastp 2 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H18

cassaval09vl lCK641581_Pl 3245 6278 285 82.3 globlastp 3

WNU96_H18 chestnutlgbl70ISRR006295S000

3246 6279 285 82.3 globlastp 5 3019_P1

WNU96_H18 cleome_gynandral 1 Ov 1 ISRRO 15

3247 6280 285 82.3 globlastp 6 532S0002168_P1

WNU96_H18 cleome_spinosal 1 Ovl IGR932217

3248 6280 285 82.3 globlastp 7 XX1_P1

WNU96_H18

cottonll lvllBG443711_Pl 3249 6281 285 82.3 globlastp 8

WNU96_H18 eucalyptusll lv2ISRR001659X12

3250 6282 285 82.3 globlastp 9 9057_P1

WNU96_H19 fagopyrumll 1 vl ISRR063689X5

3251 6283 285 82.3 globlastp 0 808_P1

WNU96_H19 gossypium_raimondiil 12v 1 IBG4

3252 6281 285 82.3 globlastp 1 43711_P1

WNU96_H19 humulusl 11 vl IEX519727XX 1_P

3253 6284 285 82.3 globlastp 2 1

WNU96_H19 humulusl 11 vl IEX519727XX2_P

3254 6284 285 82.3 globlastp 3 1

WNU96_H19

ipomoea_nill lOvl ICJ740287_P1 3255 6285 285 82.3 globlastp 4

WNU96_H19 nasturtiumll lvl lSRR032558.125

3256 6286 285 82.3 globlastp 6 661_P1

WNU96_H19

oakll0vl lFP024996_Pl 3257 6279 285 82.3 globlastp 7

WNU96_H19

pigeonpeall lvllGR465377_Pl 3258 6287 285 82.3 globlastp 8

WNU96_H19 platanusll lvl lSRR096786X1001

3259 6288 285 82.3 globlastp 9 40_P1

WNU96_H20

radishlgbl64IEV525531 3260 6289 285 82.3 globlastp 0

WNU96_H20

radishlgbl64IEV527006 3261 6290 285 82.3 globlastp 1

WNU96_H20

radishlgbl64IEV538492 3262 6291 285 82.3 globlastp 2

WNU96_H20

radishlgbl64IEV542487 3263 6292 285 82.3 globlastp 3

WNU96_H20

radishlgbl64IFD950409 3264 6293 285 82.3 globlastp 4

WNU96_H20 seneciolgb 170ISRR006592S0001

3265 6294 285 82.3 globlastp 5 217

WNU96_H20

sunflower 112v 1 ICD 851129XX 1 3266 6295 285 82.3 globlastp 6

WNU96_H20

sunfiowerll2vllCD853270XXl 3267 6268 285 82.3 globlastp 7 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H20

sunflower 112v 1 ICF076631 3268 6295 285 82.3 globlastp 8

WNU96_H20

sunflower 112v 1 ID Y928155 3269 6295 285 82.3 globlastp 9

WNU96_H21

sunflower 112v 1 ID Y930550 3270 6295 285 82.3 globlastp 0

WNU96_H21

sunflower 112v 1 ID Y955104 3271 6268 285 82.3 globlastp 1

WNU96_H21

sunfiowerll2vllDY958350 3272 6268 285 82.3 globlastp 2

WNU96_H21

sunflower 112v 1 ID Y958886 3273 6295 285 82.3 globlastp 3

WNU96_H21

sunfiowerll2vllEE656653 3274 6295 285 82.3 globlastp 4

WNU96_H21 tabernaemontanall lvl lSRR0986

3275 6296 285 82.3 globlastp 5 89X104457

WNU96_H21 thalictruml 11 v 11 SRR096787X 10

3276 6297 285 82.3 globlastp 6 4709

WNU96_H21

triphysarial lOvl ICB815236 3277 6298 285 82.3 globlastp 7

WNU96_H21

watermelonl l lvl IAM719795 3278 6299 285 82.3 globlastp 8

WNU96_H21 abiesll lv2ISRR098676Xl 11808

3279 6300 285 82.2 globlastp 9 _P1

WNU96_H22 abiesll lv2ISRR098676X13377_

3280 6301 285 82.2 globlastp 0 PI

WNU96_H22

cycaslgbl66IEX920982_Pl 3281 6302 285 82.2 globlastp 1

WNU96_H22 maritime_pinell0vllAL750653_

3282 6303 285 82.2 globlastp 2 PI

WNU96_H22

nasturtiuml 11 vl IGH 161772_P1 3283 6304 285 82.2 globlastp 3

WNU96_H22

pinell0v2IAA556393_Pl 3284 6305 285 82.2 globlastp 4

WNU96_H22

sprucell lvllES248525XXl 3285 6306 285 82.2 globlastp 5

WNU96_H22 82.1

pinel 10v2l AI812874XX 1_T 1 3286 6307 285 glotblastn 6 9

WNU96_H22 82.1

pinell0v2IAW985265_Tl 3287 6307 285 glotblastn 7 9

WNU96_H22 82.1

sprucel 11 v 1 IFD734799XX 1 3288 6308 285 glotblastn 8 9

WNU96_H22

petunialgb 1711 AF088913_P1 3289 6309 285 82 globlastp 9

WNU96_H23 euonymus 111 v 11 SRR070038X21

3290 6310 285 81.9 globlastp 0 8801_P1

Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H25 cirsiumll lvllSRR346952.11058

3314 6332 285 81.6 globlastp 2 5_P1

WNU96_H25

clementinel 11 vl ICB291758_P1 3315 6333 285 81.6 globlastp 3

WNU96_H25

clementinel 11 v 1 IC V886204_P 1 3316 6334 285 81.6 globlastp 4

WNU96_H25 cleome_gynandral 1 Ov 1 ISRRO 15

3317 6335 285 81.6 globlastp 5 532S0041884_P1

WNU96_H25

cottonl 11 v 1 IBE052292XX 1_P1 3318 6336 285 81.6 globlastp 6

WNU96_H25

cucumber I09v 1 ICF674910_P1 3319 6337 285 81.6 globlastp 7

WNU96_H25 cucurbital 11 v 1 ISRR091276X 104

3320 6337 285 81.6 globlastp 8 293_P1

WNU96_H25 cucurbital 11 v 1 ISRR091276X 107

3321 6338 285 81.6 globlastp 9 888_P1

WNU96_H26 cucurbital 11 v 1 ISRR091276X 108

3322 6337 285 81.6 globlastp 0 131_P1

WNU96_H26

cynar algb 167 IGE586291 _P 1 3323 6332 285 81.6 globlastp 1

WNU96_H26 euonymus 111 v 11 SRR070038X11

3324 6339 285 81.6 globlastp 2 2272_P1

WNU96_H26 euonymusi 11 v 1 ISRR070038X32

3325 6339 285 81.6 globlastp 3 2834_P1

WNU96_H26 flaveriall lvl lSRR149232.12785

3326 6340 285 81.6 globlastp 4 3_P1

WNU96_H26 gossypium_raimondiil 12v 1 IBE0

3327 6336 285 81.6 globlastp 5 52292_P1

WNU96_H26

guizotiall0vllGE559073_Pl 3328 6341 285 81.6 globlastp 6

WNU96_H26 hornbeamll2vl lSRR364455.118

3329 6342 285 81.6 globlastp 7 56_P1

WNU96_H26

melonl 1 Ov 1 ICF674910_P1 3330 6337 285 81.6 globlastp 8

WNU96_H26 orobanchel lOvl ISRR023189S00

3331 6343 285 81.6 globlastp 9 01498_P1

WNU96_H27 orobanchel lOvl ISRR023189S00

3332 6343 285 81.6 globlastp 0 80494_P1

WNU96_H27

papayalgb 165 IEX291945_P 1 3333 6344 285 81.6 globlastp 1

WNU96_H27

peanutll0vl lCD038392_Pl 3334 6345 285 81.6 globlastp 2

WNU96_H27 physcomitrellal 1 Ov 1 IB J 161027_

3335 6346 285 81.6 globlastp 3 PI

WNU96_H27

radishlgbl64IEV545037 3336 6347 285 81.6 globlastp 4 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H27

radishlgbl64IEW725335 3337 6348 285 81.6 globlastp 5

WNU96_H27

radishlgbl64IFD529248 3338 6349 285 81.6 globlastp 6

WNU96_H27

rosell2vllBQ106054XXl 3339 6350 285 81.6 globlastp 7

WNU96_H27 soybeanll lvl lGLYMA05G0257

3340 6351 285 81.6 globlastp 8 0

WNU96_H27 soybeanll2vl lGLYMA05G0257

3341 6351 285 81.6 globlastp 8 0_P1

WNU96_H27

strawberryll lvl lDV438988 3342 6352 285 81.6 globlastp 9

WNU96_H28

strawberryll lvl lEX657357 3343 6353 285 81.6 globlastp 0

WNU96_H28 tabernaemontanall lvl lSRR0986

3344 6354 285 81.6 globlastp 1 89X104588

WNU96_H28

triphysarial 1 Ov 1 IEX984214 3345 6355 285 81.6 globlastp 2

WNU96_H28

triphysarial lOvl IEY008346 3346 6355 285 81.6 globlastp 3

WNU96_H28

walnutslgbl66ICV195836 3347 6356 285 81.6 globlastp 4

WNU96_H28

watermelonll lvllDV632841 3348 6337 285 81.6 globlastp 5

WNU96_H28

gnetumll0vllDN955837_Pl 3349 6357 285 81.5 globlastp 6

WNU96_H28

ryel 12v 1 IDRROO 1012.12244 3350 6358 285 81.5 globlastp 7

WNU96_H28

tamarixlgb 166 ICF200068 3351 6359 285 81.5 globlastp 8

WNU96_H28 euonymus 111 v 11 SRR070038X11

3352 6360 285 81.3 globlastp 9 633_P1

WNU96_H29 euonymus 111 v 11 SRR070038X13

3353 6361 285 81.3 globlastp 0 9772_P1

WNU96_H29

pepperll2vllAA840728_Pl 3354 6362 285 81.3 globlastp 1

WNU96_H29 tripterygiumll 1 vl ISRR098677X

3355 6363 285 81.3 globlastp 2 105260

WNU96_H29

chickpeal 11 vl IGR402447XX1 3356 6364 285 81.2 globlastp 3

WNU96_H29

chickpeal 13v2IES560331_P1 3357 6364 285 81.2 globlastp 3

WNU96_H29

oil_palmll lvl lEL684166_Pl 3358 6365 285 81.2 globlastp 4

WNU96_H29

ipomoea_nilll0vl lBJ564015_Pl 3359 6366 285 81.1 globlastp 5 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H29 soybeanl 11 vl IGLYMAO 1 G0318

3360 6367 285 81.1 globlastp 6 0

WNU96_H29 soybeanl 12vl IGLYMAO 1 G0318

3361 6367 285 81.1 globlastp 6 0_P1

WNU96_H39 soybeanl 12vl lGLYMA17G0928

3362 6368 285 81 globlastp 5 0_P1

WNU96_H29 ambrosial 11 vl ISRR346943.1044

3363 6369 285 81 globlastp 7 66_P1

WNU96_H29 arabidopsis_lyratal09vl IBQ8345

3364 6370 285 81 globlastp 8 38_P1

WNU96_H29 arabidopsis_lyratal09vl IJGIALO

3365 6371 285 81 globlastp 9 07298_P1

WNU96_H30 arabidopsisll0vl lATlG23290_P

3366 6372 285 81 globlastp 0 1

WNU96_H30 arabidopsisll0vl lATlG70600_P

3367 6371 285 81 globlastp 1 1

WNU96_H30 aristolochiall0vl lSRR039082S0

3368 6373 285 81 globlastp 2 197812_P1

WNU96_H30 aristolochiall0vl lSRR039082S0

3369 6374 285 81 globlastp 3 498980_P1

WNU96_H30 arnicall lvl lSRR099034X17087

3370 6375 285 81 globlastp 4 3_P1

WNU96_H30 b Junceal 12v 1 IE6 ANDIZO 1 ASP

3371 6376 285 81 globlastp 5 S4_P1

WNU96_H30

b_rapall lvllBQ791115_Pl 3372 6377 285 81 globlastp 6

WNU96_H30

b_rapall lvllCD812260_Pl 3373 6378 285 81 globlastp 7

WNU96_H30 beechl 11 vl ISRR006294.10896_

3374 6379 285 81 globlastp 8 PI

WNU96_H30 blueberryll2vllSRR353282X159

3375 6380 285 81 globlastp 9 99D1_P1

WNU96_H31

cannabisl 12v 1 IGR221832_P 1 3376 6381 285 81 globlastp 0

WNU96_H31

cassaval09vl lDV441380_Pl 3377 6382 285 81 globlastp 1

WNU96_H31

centaureal 11 v 1 IEH751538_P1 3378 6383 285 81 globlastp 2

WNU96_H31 cirsiumll lvllSRR346952.10237

3379 6383 285 81 globlastp 3 44_P1

WNU96_H31 cirsiumll lvllSRR349641.45777

3380 6383 285 81 globlastp 4 3_P1

WNU96_H31 flaveriall lvl lSRR149241.19163

3381 6384 285 81 globlastp 5 6_P1

WNU96_H31 grapel 11 v 1 IGS VIVTO 100407500

3382 6385 285 81 globlastp 6 1_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H31

kiwilgbl66IFG432617_Pl 3383 6386 285 81 globlastp 7

WNU96_H31

orangell lvllCB291758_Pl 3384 6387 285 81 globlastp 8

WNU96_H31 orobanchel lOvl ISRR023189S00

3385 6388 285 81 globlastp 9 28718_P1

WNU96_H32

peanutll0vl lEG373102XXl_Pl 3386 6389 285 81 globlastp 0

WNU96_H32

peanutll0vl lES717832_Pl 3387 6390 285 81 globlastp 1

WNU96_H32

prunusll0vl lCN445705 3388 6391 285 81 globlastp 2

WNU96_H32 soybeanll lvl lGLYMA17G0928

3389 6368 285 81 globlastp 3 0

WNU96_H32 soybeanll2vl lGLYMA17G0928

3390 6368 285 81 globlastp 3 0T2_P1

WNU96_H32

sunflower 112v 1 IEL430773 3391 6392 285 81 globlastp 4

WNU96_H32 thellungiella_halophilumll lvl ID

3392 6371 285 81 globlastp 5 N773413

WNU96_H32 thellungiella_halophilumll lvl ID

3393 6393 285 81 globlastp 6 N773986

WNU96_H32 thellungiella_parvuluml 11 v 1 IDN

3394 6394 285 81 globlastp 7 773413

WNU96_H32 thellungiella_parvuluml 11 v 1 IDN

3395 6395 285 81 globlastp 8 773986

WNU96_H32

triphysariall0vl lBE574800 3396 6396 285 81 globlastp 9

WNU96_H33 valerianal 11 vl ISRR099039X 109

3397 6397 285 81 globlastp 0 958

WNU96_H33 80.9

radishlgbl64IEX772405 3398 6398 285 glotblastn 1 5

WNU96_H33 spruce 111 v 11 SRR064180X 11844 80.8

3399 6399 285 glotblastn 2 0 2

WNU96_H33 fagopyruml 11 vl ISRR063703X 1

3400 6400 285 80.8 globlastp 3 02046_P1

WNU96_H33

fernlgbl71IBP916009_Pl 3401 6401 285 80.8 globlastp 4

WNU96_H33

marchantialgbl66IBJ843643_Pl 3402 6402 285 80.8 globlastp 5

WNU96_H33

marchantialgb 166IC95754_P 1 3403 6403 285 80.8 globlastp 6

WNU96_H33 taxusll0vl lSRR032523S000404

3404 6404 285 80.8 globlastp 7 2

WNU96_H33

curcumall0vllDY383806_Pl 3405 6405 285 80.7 globlastp 8 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H33

ginger Igb 164ID Y348420_P 1 3406 6405 285 80.7 globlastp 9

WNU96_H34

clover Igb 162IBB931377_P1 3407 6406 285 80.5 globlastp 0

WNU96_H34 blueberryll2vllSRR353282X402

3408 6407 285 80.4 globlastp 1 02D1_P1

WNU96_H34

eggplantl 1 Ovl IFS001347_P 1 3409 6408 285 80.4 globlastp 2

WNU96_H34 ipomoea_batatasll0vl lBU69014

3410 6409 285 80.4 globlastp 3 8_P1

WNU96_H34

pigeonpeal 11 v 1 IGW354286_P 1 3411 6410 285 80.4 globlastp 4

WNU96_H34 pigeonpeal 11 v 1 ISRR054580X 10

3412 6411 285 80.4 globlastp 5 8215_P1

WNU96_H34

tomatoll lvl lBG126263 3413 6408 285 80.4 globlastp 6

WNU96_H39 oleall3vllSRR014463X26593D

3414 6412 285 80.3 globlastp 6 1_P1

WNU96_H34 arnicall lvl ISRR099034X11084

3415 6413 285 80.3 globlastp 7 5_P1

WNU96_H34 beechl 11 vl ISRR006293.11638_

3416 6414 285 80.3 globlastp 8 PI

WNU96_H34

cassaval09vl ICK641743_P1 3417 6415 285 80.3 globlastp 9

WNU96_H35 ceratodonll0vllSRR074890S002

3418 6416 285 80.3 globlastp 0 0449_P1

WNU96_H35 ceratodonll0vllSRR074890S002

3419 6417 285 80.3 globlastp 1 9921_P1

WNU96_H35 ceratodonll0vllSRR074890S006

3420 6416 285 80.3 globlastp 2 4914_P1

WNU96_H35 cleome_spinosal lOvl IGR934531

3421 6418 285 80.3 globlastp 3 _P1

WNU96_H35

cottonll lvllAI731642_Pl 3422 6419 285 80.3 globlastp 4

WNU96_H35

cottonll lvllCO087199XXl_Pl 3423 6419 285 80.3 globlastp 5

WNU96_H35 gossypium_raimondiil 12v 11 AI73

3424 6419 285 80.3 globlastp 6 1642_P1

WNU96_H35

heveall0vl lEC600120_Pl 3425 6420 285 80.3 globlastp 7

WNU96_H35

humulusll lvl lES654425_Pl 3426 6421 285 80.3 globlastp 8

WNU96_H35

lotusl09vl IAW428898_P1 3427 6422 285 80.3 globlastp 9

WNU96_H36 physcomitrellal 1 Ov 1 IAW126626

3428 6423 285 80.3 globlastp 0 _P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU96_H36 physcomitrellall0vllAW126763

3429 6424 285 80.3 globlastp 1 _P1

WNU96_H36 physcomitrellal 1 Ov 11 AW145241

3430 6425 285 80.3 globlastp 2 _P1

WNU96_H36 physcomitrellal 1 Ov 11 AW561507

3431 6426 285 80.3 globlastp 3 _P1

WNU96_H36 soybeanll lvl lGLYMA04G3614

3432 6427 285 80.3 globlastp 4 0

WNU96_H36 soybeanll2vl lGLYMA04G3614

3433 6427 285 80.3 globlastp 4 0_P1

WNU96_H36 soybeanll lvl lGLYMA06G1880

3434 6427 285 80.3 globlastp 5 0

WNU96_H36 soybeanll2vl lGLYMA06G1880

3435 6427 285 80.3 globlastp 5 0_P1

WNU96_H36

teall0vllFE861453 3436 6428 285 80.3 globlastp 6

WNU96_H36

triphysariall0vl lEY132075 3437 6429 285 80.3 globlastp 7

WNU96_H36 valerianal 11 vl ISRR099039X 100

3438 6430 285 80.3 globlastp 8 712

WNU96_H36 nasturtiuml 11 vl IGH 168713XX 1 80.2

3439 6431 285 glotblastn 9 _ 1 7

WNU96_H37 thalictruml 11 v 11 SRR096787X 10 80.2

3440 6432 285 glotblastn 0 0084 7

WNU96_H37 wheatll2v3IERR125558X34492 80.2

3441 6433 285 glotblastn 1 0D1 7

WNU96_H37 amborellall2v3ISRR038635.540

3442 6434 285 80.1 globlastp 2 53_P1

WNU96_H37

coffeall0vllDV664105_Pl 3443 6435 285 80.1 globlastp 3

WNU96_H37 fagopyrumll lvl lSRR063689Xl

3444 6436 285 80.1 globlastp 4 162_P1

WNU96_H37

fernlgbl71IBP911784_Pl 3445 6437 285 80.1 globlastp 5

WNU96_H37

zamialgbl66IFD767255 3446 6438 285 80.1 globlastp 6

WNU96_H37

lotusl09vl lBE122486_Pl 3447 6439 285 80 globlastp 7

WNU97_H23 switchgrassll2vl lDN141383_Pl 3448 6440 286 93.9 globlastp

WNU97_H1 switchgrasslgbl67IDN141383 3449 6441 286 93.9 globlastp

WNU97_H2 sorghuml 12vl ISB04G030840 3450 6442 286 93.5 globlastp

WNU97_H24 switchgrassll2vl IFL700367_P1 3451 6443 286 93.1 globlastp foxtail_milletll lv3IPHY7SI0171

WNU97_H3 3452 6444 286 93.1 globlastp

05M_P1

foxtail_milletll lv3IPHY7SI0171

WNU97_H4 3453 6445 286 92.9 globlastp

00M_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

milletllOvl IEVO454PM029707_

WNU97_H5 3454 6446 286 92.9 globlastp

PI

WNU97_H6 sugarcanell0vl lBQ537415 3455 6447 286 92.2 globlastp

WNU97_H7 ricell lvllAU030834 3456 6448 286 91.8 globlastp

WNU97_H8 maizell0vllAI619236_Pl 3457 6449 286 91.2 globlastp

WNU97_H9 maizell0vllAI395902_Pl 3458 6450 286 90.4 globlastp brachypodiumll2vllBRADI3G5

WNU97_H10 3459 6451 286 88.5 globlastp

2490_P1

brachypodiumll2vllBRADI3G5 88.0

WNU97_H11 3460 6452 286 glotblastn

2480_T1 5

87.4

WNU97_H12 ryell2vllDRR001012.374006 3461 6453 286 glotblastn

2 brachypodiuml 12v 1 IBRADI4G2

WNU97_H13 3462 6454 286 87.4 globlastp

0910_P1

WNU97_H14 wheatll2v3IBE398510 3463 6455 286 87.4 globlastp

WNU97_H15 wheatll2v3IBE637843 3464 6456 286 87.4 globlastp

WNU97_H16 barleyll2vllBI949877_Pl 3465 6457 286 87.3 globlastp foxtail_milletll lv3IEC613380_P

WNU97_H17 3466 6458 286 86.2 globlastp

1

WNU97_H25 switchgrassll2vl lFE610507_Pl 3467 6459 286 86 globlastp

WNU97_H18 s witchgras s Igb 167 IFE610507 3468 6459 286 86 globlastp

WNU97_H19 ricell lvllBE039832 3469 6460 286 85.6 globlastp

WNU97_H20 barleyl 12v 1 ICB 870420_P1 3470 6461 286 85.5 globlastp brachypodiumll2vllBRADI5G2

WNU97_H21 3471 6462 286 84.3 globlastp

0500_P1

WNU97_H26 switchgrassll2vl lHO302712_Pl 3472 6463 286 81.5 globlastp oil_palmll lvl lSRR190698.333_

WNU97_H22 3473 6464 286 81.5 globlastp

PI

sorghuml 12vl ISB 12V2PRD0036

WNU98_H1 3474 6465 287 97.7 globlastp

39

WNU98_H3 maizell0vllAI834458_Pl 3475 6466 287 90.4 globlastp

WNU98_H21 switchgrassll2vl IFL696742_P1 3476 6467 287 86.5 globlastp

WNU98_H9 switchgrasslgbl67IFL696742 3477 6468 287 86.5 globlastp brachypodiumll2vllBRADI3G3

WNU98_H11 3478 6469 287 83 globlastp

6420T2_P1

WNU98_H17 milletllOvl ICD725866_P1 3479 6470 287 80.5 globlastp brachypodiumll2vllBRADI3Gl

WNU98_H18 3480 6471 287 80.3 globlastp

5400_P1

WNU100_H1 sugarcanell0vl lCA080221 3481 6472 289 97.3 globlastp

WNU100_H2 maizell0vllAI920330_Pl 3482 6473 289 95.3 globlastp

WNU100_H3 maizell0vllAI372343_Pl 3483 6474 289 92.4 globlastp

WNU100_H2

switchgrassll2vl lDN145760_Pl 3484 6475 289 92.2 globlastp 1

foxtail_milletll lv3IPHY7SI0220

WNU100_H4 3485 6476 289 91.6 globlastp

41M_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU100_H2

switchgrassll2vl lDN143054_Pl 3486 6477 289 91.3 globlastp 2

milletll0vl lEVO454PM004855_

WNU100_H5 3487 6478 289 89.5 globlastp

PI

WNU100_H6 ricell lvllBE039691 3488 6479 289 85 globlastp brachypodiumi 12v 1 IBRADI2G2

WNU100_H7 3489 6480 289 84.8 globlastp

7870T2_P1

WNU100_H8 switchgrasslgbl67IFE607111 3490 6481 289 84.4 globlastp

WNU100_H9 ryell2vllBE438576 3491 6482 289 83.3 globlastp

WNU100_H1

ryell2vllBE587236 3492 6483 289 83 globlastp 0

WNU100_H1

wheatll2v3IBE425285 3493 6484 289 82.4 globlastp 1

WNU100_H1

oatll lvl lGO590964_Pl 3494 6485 289 82 globlastp 2

WNU100_H1

sugarcanell0vl lBU103330 3495 6486 289 81.4 globlastp

3

WNU100_H1

sorghumll2vllSB03G012980Pl 3496 6487 289 81.2 globlastp 4

WNU100_H1

ricell lvllAF251077 3497 6488 289 80.9 globlastp 5

WNU100_H1

maizell0vllAW330985_Pl 3498 6489 289 80.8 globlastp 6

WNU100_H1

s witchgras slgbl67IDN145169 3499 6490 289 80.5 globlastp 7

WNU100_H2

switchgrassll2vl lFE614478_Pl 3500 6491 289 80.3 globlastp

3

WNU100_H1 brachypodiumll2vllBRADI2Gl

3501 6492 289 80.2 globlastp 8 1960_P1

WNU100_H1 foxtail_milletl 11 v3 IEC613315_P

3502 6493 289 80 globlastp 9 1

WNU100_H2

switchgrasslgbl67IFE614478 3503 6494 289 80 globlastp 0

WNU101_H2

switchgrassll2vl lFL890785_Pl 3504 290 290 100 globlastp 93

foxtail_milletll lv3IPHY7SI0379

WNU101_H1 3505 290 290 100 globlastp

50M_P1

WNU101_H2 maizell0vllAI947327_Pl 3506 290 290 100 globlastp

WNU101_H3 ricell lvllAA751811 3507 290 290 100 globlastp

WNU101_H4 ricell lvllBM422117 3508 290 290 100 globlastp

WNU101_H5 sugarcanell0vl lCA078742 3509 290 290 100 globlastp

WNU101_H6 sugarcanel lOvl ICA094200 3510 290 290 100 globlastp

WNU101_H7 s witchgras s Igb 167 IFE627194 3511 290 290 100 globlastp

WNU101_H8 switchgrasslgbl67IFL890785 3512 290 290 100 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H2 prunus_mumell3vl lCV048453_

3513 6495 290 99.3 globlastp 94 PI

WNU101_H2

switchgrassll2vl IFE599229_P1 3514 6496 290 99.3 globlastp 95

WNU101_H2

switchgrassll2vl lFE627193_Pl 3515 6497 290 99.3 globlastp 96

WNU101_H2 switchgrassll2vl IPVJGIV80345

3516 6496 290 99.3 globlastp 97 32_P1

cannabisll2vllSOLX00003945_

WNU101_H9 3517 6498 290 99.3 globlastp

PI

WNU101_H1 cannabisll2vllSOLX00046973_

3518 6498 290 99.3 globlastp 0 PI

WNU101_H1

cowpeall2vl lFC457960_Pl 3519 6498 290 99.3 globlastp 1

WNU101_H1

cynodonl 1 Ovl IES299130_P1 3520 6499 290 99.3 globlastp 2

WNU101_H1 foxtail_milletll lv3IPHY7SI0154

3521 6500 290 99.3 globlastp

3 22M_P1

WNU101_H1

humulusll lvl lES652347_Pl 3522 6498 290 99.3 globlastp 4

WNU101_H1 milletll0vl lEVO454PM082379_

3523 6501 290 99.3 globlastp 5 PI

WNU101_H1 milletllOvl IEVO454PM092592_

3524 6502 290 99.3 globlastp 6 PI

WNU101_H1

oiLpalml l lvl IEL563746_T 1 3525 6503 290 99.3 glotblastn 7

WNU101_H1

prunusll0vl lCB821190 3526 6495 290 99.3 globlastp 8

WNU101_H1

switchgrasslgbl67IFE599229 3527 6496 290 99.3 globlastp 9

WNU101_H2

s witchgras s Igb 167 IFE627193 3528 6497 290 99.3 globlastp 0

WNU101_H2 beanl 12v2ISRR001334.110465_

3529 6504 290 98.6 globlastp 98 PI

WNU101_H2

castorbeanll2vl lAM267346_Pl 3530 6505 290 98.6 globlastp 99

WNU101_H3 oleal 13 v 1 ISRR596004X 17743D

3531 6506 290 98.6 globlastp 00 1_P1

WNU101_H3

soybeanll2vl lFG996914_Pl 3532 6505 290 98.6 globlastp 01

WNU101_H2

amborellal 12v3 ICV001469_P 1 3533 6505 290 98.6 globlastp 1

WNU101_H2 amsoniall lvllSRR098688X1070

3534 6507 290 98.6 globlastp 2 15_P1

WNU101_H2

bananall2vl lBBS767T3_Pl 3535 6505 290 98.6 globlastp 3 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H2 bananal 12vl IGFXAC 186753X5_

3536 6505 290 98.6 globlastp 4 PI

WNU101_H2 basilicuml 1 Ovl ID Y323195XX 1_

3537 6508 290 98.6 globlastp 5 PI

WNU101_H2

basilicumll0vl lDY323761_Pl 3538 6508 290 98.6 globlastp 6

WNU101_H2

beanl 12v 1 ISRROO 1334.110465 3539 6504 290 98.6 globlastp 7

WNU101_H2

beetll2vllDN911504_Pl 3540 6509 290 98.6 globlastp 8

WNU101_H2

cacaoll0vllCF973092_Pl 3541 6505 290 98.6 globlastp 9

WNU101_H3 cannabisll2vllSOLX00000646_

3542 6510 290 98.6 globlastp 0 PI

WNU101_H3

catharanthusll lvllEG556080_Pl 3543 6509 290 98.6 globlastp 2

WNU101_H3 cleome_gynandral 1 Ov 1 ISRRO 15

3544 6505 290 98.6 globlastp 3 532S0005602_P1

WNU101_H3

cyamopsisll0vllEG975384_Pl 3545 6505 290 98.6 globlastp 4

WNU101_H3

cynodonll0vl lES301623_Pl 3546 6511 290 98.6 globlastp 5

WNU101_H3

eggplantl lOvl IFS036156_P1 3547 6506 290 98.6 globlastp 6

WNU101_H3

eucalyptusll lv2ICD668709_Pl 3548 6505 290 98.6 globlastp 7

WNU101_H3

euphorbiall lvllBG409394_Pl 3549 6505 290 98.6 globlastp 8

WNU101_H3 fagopyrumll lvl lSRR063689Xl

3550 6512 290 98.6 globlastp 9 0256_P1

WNU101_H4 fagopyruml 11 vl ISRR063703X 1

3551 6512 290 98.6 globlastp 0 14483_P1

WNU101_H4 grapel 11 v 1 IGS VIVTO 101806000

3552 6505 290 98.6 globlastp 1 1_P1

WNU101_H4

iceplantlgbl64IBE577228_Pl 3553 6513 290 98.6 globlastp 2

WNU101_H4

ipomoea_nilll0vl lBJ555713_Pl 3554 6504 290 98.6 globlastp

3

WNU101_H4

kiwilgbl66IFG410882_Pl 3555 6514 290 98.6 globlastp 4

WNU101_H4

periwinklelgbl64IEG556080_Pl 3556 6509 290 98.6 globlastp 5

WNU101_H4 phylall 1 v2ISRR099035X135285

3557 6514 290 98.6 globlastp 6 _P1

WNU101_H4

pigeonpeal 11 v 1 IGR471946_P 1 3558 6505 290 98.6 globlastp 7 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H4 plantagoll 1 V2ISRR066373X108

3559 6512 290 98.6 globlastp 8 968_P1

WNU101_H4 platanusll lvl lSRR096786X1004

3560 6509 290 98.6 globlastp 9 29_P1

WNU101_H5 platanusll lvl lSRR096786X1322

3561 6509 290 98.6 globlastp 0 86_P1

WNU101_H5

poplarll0vl lAI162529 3562 6505 290 98.6 globlastp 1

WNU101_H5

poplarll3vl lAI162529_Pl 3563 6505 290 98.6 globlastp 1

WNU101_H5

silenell lvl lSRR096785X10232 3564 6515 290 98.6 globlastp 2

WNU101_H5

silenell lvl lSRR096785X137191 3565 6515 290 98.6 globlastp

3

WNU101_H5 soybeanl l lvl IGLYMA09G4201

3566 6505 290 98.6 globlastp 4 0

WNU101_H5 soybeanl 12vl IGLYMA09G4201

3567 6505 290 98.6 globlastp 4 0_P1

WNU101_H5 soybeanl 11 V1 IGLYMA19G2885

3568 6505 290 98.6 globlastp 5 0

WNU101_H5 soybeanl 12vl lGLYMA19G2885

3569 6505 290 98.6 globlastp 5 0_P1

WNU101_H5

spurgelgbl61IBG409394 3570 6505 290 98.6 globlastp 6

WNU101_H5 tabernaemontanall lvl lSRR0986

3571 6509 290 98.6 globlastp 7 89X110144

WNU101_H5 utricularial 11 v 11 SRR094438.112

3572 6516 290 98.6 globlastp 8 676

WNU101_H3 monkeyflowerl 12vl IDV206684_

3573 6517 290 97.9 globlastp 02 PI

WNU101_H3 monkeyflowerl 12vl IMGJGI0037

3574 6518 290 97.9 globlastp 03 01_P1

WNU101_H3 prunus_mumell3vl lCB821190_

3575 6519 290 97.9 globlastp 04 PI

WNU101_H5 ambrosial 11 V1 ISRR346935.4983

3576 6520 290 97.9 globlastp 9 32_P1

WNU101_H6

avocadol 1 Ov 1 IC0996154_P1 3577 6521 290 97.9 globlastp 0

WNU101_H6

blueberry 112v 1 IC V 191461 _P 1 3578 6522 290 97.9 globlastp 1

WNU101_H6 blueberryll2vllSRR353282X262

3579 6522 290 97.9 globlastp 2 81D1_P1

WNU101_H6

cassaval09vl lCK641842_Pl 3580 6521 290 97.9 globlastp

3

WNU101_H6 chestnutlgbl70ISRR006295S000

3581 6523 290 97.9 globlastp 4 5679_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H6

chickpeall lvl lFE669803 3582 6521 290 97.9 globlastp 5

WNU101_H6

chickpeall3v2IFE669803_Pl 3583 6521 290 97.9 globlastp 5

WNU101_H6

cichoriumlgbl71 IEH696302_P1 3584 6524 290 97.9 globlastp 6

WNU101_H6 cleome_spinosall0vl lSRR01553

3585 6521 290 97.9 globlastp 7 1S0000807_P1

WNU101_H6

cottonll lvllBE055159_Pl 3586 6521 290 97.9 globlastp 8

WNU101_H6

cottonll lvllCO098243_Pl 3587 6521 290 97.9 globlastp 9

WNU101_H7

dandelionl lOvl IDR399422_P1 3588 6524 290 97.9 globlastp 0

WNU101_H7 eschscholzial 11 v 11 SRRO 14116.1

3589 6521 290 97.9 globlastp 1 03261_P1

WNU101_H7 euphorbiall lvllSRR098678X14

3590 6525 290 97.9 globlastp 2 7242_P1

WNU101_H7 fiaveriall lvl lSRR149229.1128_

3591 6524 290 97.9 globlastp

3 PI

WNU101_H7 fiaveriall lvl lSRR149232.11413

3592 6524 290 97.9 globlastp 4 0_P1

WNU101_H7 fiaveriall lvl lSRR149232.17530

3593 6524 290 97.9 globlastp 5 1_P1

WNU101_H7 fiaveriall lvl lSRR149232.19319

3594 6524 290 97.9 globlastp 6 4_P1

WNU101_H7 fiaveriall lvl lSRR149238.14307

3595 6524 290 97.9 globlastp 7 6_P1

WNU101_H7 fiaveriall lvl lSRR149244.12748

3596 6524 290 97.9 globlastp 8 4_P1

WNU101_H7

gerberal09vl IAJ751817_P1 3597 6524 290 97.9 globlastp 9

WNU101_H8 gossypium_raimondiil 12v 1 IBE0

3598 6521 290 97.9 globlastp 0 55159_P1

WNU101_H8

heveall0vl lEC605962_Pl 3599 6521 290 97.9 globlastp 1

WNU101_H8

jatrophal09vl IGT229106_P1 3600 6526 290 97.9 globlastp 2

WNU101_H8

lettucell2vl lDW062812_Pl 3601 6524 290 97.9 globlastp

3

WNU101_H8

liquoricelgb 171 IFS244248_P 1 3602 6521 290 97.9 globlastp 4

WNU101_H8 liriodendronlgb 166IC0995509_P

3603 6521 290 97.9 globlastp 5 1

WNU101_H8

melonll0vllDV631514_Pl 3604 6521 290 97.9 globlastp 6 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H8 momordical 1 Ov 1 ISRR071315 SO

3605 6521 290 97.9 globlastp 7 002724_P1

WNU101_H8

monkeyflowerl lOvl IDV206684 3606 6517 290 97.9 globlastp 8

WNU101_H8

oakll0vl lFP025535_Pl 3607 6523 290 97.9 globlastp 9

WNU101_H9

oakll0vl lFP040425_Pl 3608 6523 290 97.9 globlastp 0

WNU101_H9

papayalgbl65IEX260690_Pl 3609 6527 290 97.9 globlastp 1

WNU101_H9

peanutll0vl lES715587_Pl 3610 6521 290 97.9 globlastp 2

WNU101_H9

petunialgbl71 IDC240537_Pl 3611 6528 290 97.9 globlastp

3

WNU101_H9 primulall lvllSRR098679X1183

3612 6529 290 97.9 globlastp 4 82_P1

WNU101_H9

prunusll0vl lBF717180 3613 6519 290 97.9 globlastp 5

WNU101_H9 sarracenial 11 v 1 ISRR 192669.118

3614 6530 290 97.9 globlastp 6 427

WNU101_H9

sunflowerll2vllCD847531 3615 6524 290 97.9 globlastp 7

WNU101_H9

sunflower 112v 1 IEE651498 3616 6524 290 97.9 globlastp 8

WNU101_H9

sunflower 112v 1 IEE657167XX 1 3617 6524 290 97.9 globlastp 9

WNU101_H1 thellungiella_halophilumll lvl IB

3618 6521 290 97.9 globlastp 00 M985553

WNU101_H1 thellungiella_halophilumll lvl ID

3619 6521 290 97.9 globlastp 01 N778887

WNU101_H1 tragopogonll0vllSRR020205S0

3620 6524 290 97.9 globlastp 02 042330

WNU101_H1 valerianal 11 vl ISRR099039X 102

3621 6531 290 97.9 globlastp 03 759

WNU101_H1

watermelonl 11 v 1 IAM715146 3622 6521 290 97.9 globlastp 04

WNU101_H3 nicotiana_benthamianal 12v 1 ICN

3623 6532 290 97.2 globlastp 05 741539_P1

WNU101_H3 oleal 13 v 1 ISRR014466X64437D

3624 6533 290 97.2 globlastp 06 1_P1

WNU101_H1 aquilegial 10v2IJGIAC002127_P

3625 6534 290 97.2 globlastp 05 1

WNU101_H1 arabidopsis_lyratal09vl IJGIAL0

3626 6535 290 97.2 globlastp 06 20514_P1

WNU101_H1 arabidopsisl lOvl IAT5G08290_P

3627 6536 290 97.2 globlastp 07 1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H1

bananall2vl lBBS821T3_Pl 3628 6537 290 97.2 globlastp 08

WNU101_H1 brachypodiuml 12v 1 IBRADI2G2

3629 6538 290 97.2 globlastp 09 0230_P1

WNU101_H1

cassaval09vl IDV442374_P1 3630 6539 290 97.2 globlastp 10

WNU101_H1 chelidoniuml 11 vl ISRR084752X

3631 6540 290 97.2 globlastp 11 111705_P1

WNU101_H1

clementinell lvl lCB293969_Pl 3632 6541 290 97.2 globlastp 12

WNU101_H1 cleome_gynandral 1 Ov 1 ISRRO 15

3633 6542 290 97.2 globlastp 13 532S0011342_P1

WNU101_H1 cleome_spinosal 1 Ovl IGR931475

3634 6543 290 97.2 globlastp 14 _P1

WNU101_H1

cucumber I09v 1 ID V631514_P 1 3635 6544 290 97.2 globlastp 15

WNU101_H1 flaveriall lvl lSRR149229.15567

3636 6545 290 97.2 globlastp 16 _P1

WNU101_H1 flaveriall lvl lSRR149232.13029

3637 6546 290 97.2 globlastp 17 4_P1

WNU101_H1

gerberal09vl IAJ751066_P1 3638 6547 290 97.2 globlastp 18

WNU101_H1

leymuslgbl66IEG375649_Pl 3639 6548 290 97.2 globlastp 19

WNU101_H1

lotusl09vl lLLBW596117_Pl 3640 6549 290 97.2 globlastp 20

WNU101_H1

monkeyflowerl lOvl IGO986033 3641 6550 290 97.2 glotblastn 21

WNU101_H1 nicotiana_benthamianalgb 162IC

3642 6532 290 97.2 globlastp 22 N741539

WNU101_H1

nuphar Igb 166ICD474407_P 1 3643 6551 290 97.2 globlastp 23

WNU101_H1

oatll lvl lGR356084_Pl 3644 6538 290 97.2 globlastp 24

WNU101_H1

oleall lvllSRR014463.12122 3645 6533 290 97.2 globlastp 25

WNU101_H1 oleal 13 v 1 ISRRO 14463X 12122D

3646 6533 290 97.2 globlastp 25 1_P1

WNU101_H1

oleall lvllSRR014463.6941 3647 6533 290 97.2 globlastp 26

WNU101_H1

orangell lvllCB293969_Pl 3648 6541 290 97.2 globlastp 27

WNU101_H1 orobanchel lOvl ISRR023189S00

3649 6552 290 97.2 globlastp 28 11862_P1

WNU101_H1

petunialgb 171 ID Y395476_P 1 3650 6532 290 97.2 globlastp 29 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H1

poppyll lvllFE965510_Pl 3651 6535 290 97.2 globlastp 30

WNU101_H1

poppy 111 v 1 IFE968162_P 1 3652 6535 290 97.2 globlastp 31

WNU101_H1 poppy 1 l lvl ISRR030259.140845

3653 6535 290 97.2 globlastp 32 _P1

WNU101_H1 poppyll lvllSRR096789.129001

3654 6535 290 97.2 globlastp

33 _P1

WNU101_H1

potatoll0vllBG598825_Pl 3655 6532 290 97.2 globlastp 34

WNU101_H1

rosell2vllBQ104850 3656 6553 290 97.2 globlastp 35

WNU101_H1

ryell2vllDRR001012.152837 3657 6548 290 97.2 globlastp 36

WNU101_H1 scabiosall lvllSRR063723X100

3658 6554 290 97.2 globlastp 37 235

WNU101_H1 solanum_phurejal09vl ISPHBG1

3659 6532 290 97.2 globlastp 38 33499

WNU101_H1

strawberry 111 vl IC0381722 3660 6553 290 97.2 globlastp 39

WNU101_H1

sunflower 112v 1 IBU672024 3661 6555 290 97.2 globlastp 40

WNU101_H1

sunflowerll2vllCF085521 3662 6556 290 97.2 globlastp 41

WNU101_H1

s witchgras s Igb 167 IFE640147 3663 6557 290 97.2 globlastp 42

WNU101_H1

teall0vllDY523280 3664 6558 290 97.2 globlastp 43

WNU101_H1

tobaccolgb 162ICV020574 3665 6532 290 97.2 globlastp 44

WNU101_H1

tobaccolgb 162IDW004387 3666 6559 290 97.2 globlastp 45

WNU101_H1

tomatoll lvl lBG133499 3667 6532 290 97.2 globlastp 46

WNU101_H1 watermelonl l lvl 1 VMEL066247

3668 6544 290 97.2 globlastp 47 30052175

WNU101_H1

wheatll2v3IBE516783 3669 6548 290 97.2 globlastp 48

WNU101_H1 amorphophallusll lv2ISRR08935 97.1

3670 6560 290 glotblastn 49 1X183516_T1 8

WNU101_H1 flaveriall lvl lSRR149229.22300 97.1

3671 6561 290 glotblastn 50 3_T1 8

WNU101_H1 flaveriall lvl lSRR149229.34887 97.1

3672 6562 290 glotblastn 51 8XX1_T1 8

WNU101_H1 abiesll lv2ISRR098676X118115

3673 6563 290 96.5 globlastp 52 _P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H1 ambrosial 11 vl ISRR346943.1009

3674 6564 290 96.5 globlastp 53 35_P1

WNU101_H1

antirrhinumlgbl66IAJ806089_Pl 3675 6565 290 96.5 globlastp 54

WNU101_H1 b J unceal 12v 1 IE6 ANDIZO 1 B 6R

3676 6566 290 96.5 globlastp 55 JK_P1

WNU101_H1 b Junceal 12v 1 IE6 ANDIZO 1 BMO

3677 6566 290 96.5 globlastp 56 LN_P1

WNU101_H1

b_oleracealgb 161 ID Y023458_P 1 3678 6566 290 96.5 globlastp 57

WNU101_H1

b_rapall lvllCD830767_Pl 3679 6566 290 96.5 globlastp 58

WNU101_H1

barleyl 12v 1 IBE422314_P 1 3680 6567 290 96.5 globlastp 59

WNU101_H1 beechll lvl lSRR006293.28635_

3681 6568 290 96.5 globlastp 60 PI

WNU101_H1 bupleuruml 11 v 1 ISRR301254.10

3682 6569 290 96.5 globlastp 61 4295_P1

WNU101_H1

canolall lvllCN730207_Pl 3683 6566 290 96.5 globlastp 62

WNU101_H1

centaureall lvllEH752544_Pl 3684 6570 290 96.5 globlastp 63

WNU101_H1 cirsiumll lvllSRR346952.10075

3685 6570 290 96.5 globlastp 64 21_P1

WNU101_H1 cirsiumll lvllSRR346952.10329

3686 6570 290 96.5 globlastp 65 1_P1

WNU101_H1 cirsiuml 11 v 1 ISRR349641.10261

3687 6570 290 96.5 globlastp 66 8_P1

WNU101_H1

coffeall0vllDV664615_Pl 3688 6571 290 96.5 globlastp 67

WNU101_H1 cucurbital 11 v 1 ISRR091276X 101

3689 6572 290 96.5 globlastp 68 60_P1

WNU101_H1 distyliumll lvl ISRR065077X116

3690 6573 290 96.5 globlastp 69 72_P1

WNU101_H1

fescuelgb 161 IDT678464_P1 3691 6567 290 96.5 globlastp 70

WNU101_H1

flaxll lvllEU830158_Pl 3692 6574 290 96.5 globlastp 71

WNU101_H1

flaxll lvllGW864378_Pl 3693 6574 290 96.5 globlastp 72

WNU101_H1 fraxinusll lvl ISRR058827. i l 887

3694 6575 290 96.5 globlastp 73 6_P1

WNU101_H1

ginger Igb 164ID Y345152_P 1 3695 6563 290 96.5 globlastp 74

WNU101_H1 gossypium_raimondiil 12v 11 SRR

3696 6576 290 96.5 globlastp 75 032877.152174_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H1

lotusl09vl lBI417743_Pl 3697 6577 290 96.5 globlastp 76

WNU101_H1

medicagoll2vl lAJ388790_Pl 3698 6563 290 96.5 globlastp 77

WNU101_H1

oatll lvl lCN819608_Pl 3699 6567 290 96.5 globlastp 78

WNU101_H1

oatll lvl lG0592755_Pl 3700 6567 290 96.5 globlastp 79

WNU101_H1 onionll2vllSRR073446X1027D

3701 6578 290 96.5 globlastp 80 1_P1

WNU101_H1 onionll2vllSRR073446X107895

3702 6578 290 96.5 globlastp 81 D1_P1

WNU101_H1 phalaenopsisll lvl lCB033892_P

3703 6579 290 96.5 globlastp 82 1

WNU101_H1 phylall 1 v2ISRR099037Xl 10675

3704 6580 290 96.5 globlastp 83 _P1

WNU101_H1

pinell0v2IAW226051_Pl 3705 6563 290 96.5 globlastp 84

WNU101_H1

pinell0v2IBM157567_Pl 3706 6563 290 96.5 globlastp 85

WNU101_H1 pseudoroegnerialgb 167 IFF34428

3707 6567 290 96.5 globlastp 86 5

WNU101_H1 pseudoroegnerialgb 167 IFF36059

3708 6581 290 96.5 globlastp 87 4

WNU101_H1 pseudotsugal 1 Ov 1 ISRR065119S0

3709 6563 290 96.5 globlastp 88 012174

WNU101_H1

radishlgbl64IEV526928 3710 6566 290 96.5 globlastp 89

WNU101_H1

radishlgbl64IEV536846 3711 6566 290 96.5 globlastp 90

WNU101_H1

radishlgbl64IEV546061 3712 6566 290 96.5 globlastp 91

WNU101_H1

radishlgbl64IEV552595 3713 6566 290 96.5 globlastp 92

WNU101_H1

radishlgbl64IEW715626 3714 6566 290 96.5 globlastp 93

WNU101_H1

radishlgbl64IEW718137 3715 6566 290 96.5 globlastp 94

WNU101_H1

radishlgbl64IEX754496 3716 6566 290 96.5 globlastp 95

WNU101_H1

radishlgbl64IFD967082 3717 6566 290 96.5 globlastp 96

WNU101_H1

ryel 12v 1 IDRR001012.107996 3718 6567 290 96.5 globlastp 97

WNU101_H1

ryel 12v 1 IDRR001012.271505 3719 6567 290 96.5 globlastp 98 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H1

ryell2vllDRR001012.273776 3720 6567 290 96.5 globlastp 99

WNU101_H2

ryel 12v 1 IDRR001012.316946 3721 6567 290 96.5 globlastp 00

WNU101_H2

salviall0vl lCV170127 3722 6580 290 96.5 globlastp 01

WNU101_H2 sciadopitysll0vl lSRR065035S00

3723 6573 290 96.5 globlastp 02 10777

WNU101_H2 solanum_phurejal09vl ISPHBG1

3724 6582 290 96.5 globlastp 03 29871

WNU101_H2

sprucell lvllES248362 3725 6563 290 96.5 globlastp 04

WNU101_H2

strawberry 1 l lvl ICX661524 3726 6583 290 96.5 globlastp 05

WNU101_H2 thalictrumll lvllSRR096787X13

3727 6584 290 96.5 globlastp 06 9137

WNU101_H2 thellungiella_parvuluml 11 v 1 IBM

3728 6585 290 96.5 globlastp 07 985553

WNU101_H2

tomatoll lvl lBG129871 3729 6586 290 96.5 globlastp 08

WNU101_H2 trigonellal l lvl ISRR066194X 128

3730 6563 290 96.5 globlastp 09 110

WNU101_H2 tripterygiumll 1 vl ISRR098677X

3731 6563 290 96.5 globlastp 10 100265

WNU101_H2

vincal 11 vl ISRR098690X110755 3732 6587 290 96.5 globlastp 11

WNU101_H2

wheatll2v3IBE399722 3733 6567 290 96.5 globlastp 12

WNU101_H2

zosterall0vl lAM771035 3734 6588 290 96.5 globlastp 13

WNU101_H2 bupleuruml l lvl ISRR301254.10 96.4

3735 6589 290 glotblastn 14 4964_T1 8

WNU101_H2 cedrusl 11 v 1 ISRR065007X 13889 96.4

3736 6590 290 glotblastn 15 8_T1 8

WNU101_H2 cottonll lvllSRR032799.218046 96.4

3737 6591 290 glotblastn 16 _ 1 8

WNU101_H2 fraxinusl 11 vl ISRR058827.13936 96.4

3738 6592 290 glotblastn 17 8_T1 8

WNU101_H2 poppyll lvllSRR030259.109854 96.4

3739 6593 290 glotblastn 18 _ 1 8

WNU101_H2 b Junceal 12v 1 IE6 ANDIZO 1 A7F

3740 6594 290 95.8 globlastp 19 XP_P1

WNU101_H2

cenchruslgbl66IEB654842_Pl 3741 6595 290 95.8 globlastp 20

WNU101_H2 cephalotaxusll lvllSRR064395X

3742 6596 290 95.8 globlastp 21 104976_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H2 cryptomerialgbl66IBP173808_P

3743 6597 290 95.8 globlastp 22 1

WNU101_H2 euonymus 111 v 11 SRR070038X10

3744 6598 290 95.8 globlastp 23 7379_P1

WNU101_H2 euonymus 111 v 11 SRR070038X12

3745 6598 290 95.8 globlastp 24 2208_P1

WNU101_H2 euonymus 111 v 11 SRR070038X16

3746 6598 290 95.8 globlastp 25 7324_P1

WNU101_H2 euonymusl l lvl ISRR070038X30

3747 6598 290 95.8 globlastp 26 3898_P1

WNU101_H2

guizotial 1 Ov 1 IGE561377_P1 3748 6599 290 95.8 globlastp 27

WNU101_H2

medicagoll2vl lAL379466_Pl 3749 6600 290 95.8 globlastp 28

WNU101_H2

pepperll2vllGD060357_Pl 3750 6601 290 95.8 globlastp 29

WNU101_H2 sequoiall0vl lSRR065044S0003

3751 6597 290 95.8 globlastp 30 965

WNU101_H2 trigonellal l lvl ISRR066194X 132

3752 6600 290 95.8 globlastp 31 286

WNU101_H2

triphysarial 10vl lDR174156 3753 6602 290 95.8 globlastp 32

WNU101_H2

triphysarial 1 Ov 1 IDR 174471 3754 6602 290 95.8 globlastp 33

WNU101_H2 ambrosial 11 V1 ISRR346935.2664 95.7

3755 6603 290 glotblastn 34 37_T1 7

WNU101_H2 fraxinusl 11 vl ISRR058827.10163 95.7

3756 6604 290 glotblastn 35 7_T1 7

WNU101_H3

beanll2v2ICA911930_Tl 3757 6605 290 95.1 glotblastn 07

WNU101_H2

b_oleracealgb 161 ID Y019123_P 1 3758 6606 290 95.1 globlastp 36

WNU101_H2

guizotiall0vllGE555178_Pl 3759 6607 290 95.1 globlastp 38

WNU101_H2

nasturtiumll lvl lGH170206_Pl 3760 6608 290 95.1 globlastp 39

WNU101_H2 nasturtiumll lvl lSRR032558.142

3761 6608 290 95.1 globlastp 40 872_P1

WNU101_H2 pigeonpeal l lvl ISRR054580X 16

3762 6609 290 95.1 globlastp 41 6585_P1

WNU101_H2 podocarpusll0vllSRR065014S0

3763 6610 290 95.1 globlastp 42 029356_P1

WNU101_H2 taxusll0vl lSRR032523S000902

3764 6611 290 95.1 globlastp 43 3

WNU101_H2

vincall lvl lSRR098690X103143 3765 6612 290 95.1 globlastp 44 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H2 gnetumll0vllSRR064399S00436 95.0

3766 6613 290 glotblastn 45 56_T1 7

WNU101_H2 onionll2vllSRR073446X168589 95.0

3767 6614 290 glotblastn 46 D1_T1 7

WNU101_H2 aquilegial 10v2IJGIAC002827_P

3768 6615 290 94.4 globlastp 47 1

WNU101_H2 arnicall lvl lSRR099034X10601

3769 6616 290 94.4 globlastp 48 7_P1

WNU101_H2 ceratodonll0vllSRR074890S009

3770 6617 290 94.4 globlastp 49 6822_P1

WNU101_H2 cottonll lvllSRR032368.104563

3771 6618 290 94.4 globlastp 50 _P1

WNU101_H2 physcomitrellal 1 Ov 1 IB J 157579_

3772 6617 290 94.4 globlastp 51 PI

WNU101_H2 pteridiumll lvl lSRR043594X10

3773 6619 290 94.4 globlastp 52 1280

WNU101_H2 pteridiumll lvl lSRR043594X14

3774 6620 290 94.4 globlastp 53 4633

WNU101_H2 94.3

artemisial 1 Ov 1 IE Y036412_T 1 3775 6621 290 glotblastn 54 7

WNU101_H3 zosterall2vl lSRR057351X12009

3776 6622 290 93.7 globlastp 08 3D1_P1

WNU101_H2

marchantialgbl66IBJ841020_Pl 3777 6623 290 93.7 globlastp 55

WNU101_H2 medicagoll2vl lXM_003607213

3778 6624 290 93.7 globlastp 56 _P1

WNU101_H2 brachypodiumll2vllBRADI5G2

3779 6625 290 92.3 globlastp 57 6987_P1

WNU101_H2 epimediumll lvl lSRR013502.28

3780 6626 290 92.3 globlastp 58 172_P1

WNU101_H3 zosterall2vl lSRR057351X15500

3781 6627 290 91.5 globlastp 09 5D1_P1

WNU101_H2 brachypodiuml 12v 1 IBRADI2G6

3782 6628 290 91.5 globlastp 59 1080_P1

WNU101_H2

seneciolgb 170ID Y661572 3783 6629 290 91.1 globlastp 60

WNU101_H2 maritime_pinel 1 Ov 11 AL751085_

3784 6630 290 91 globlastp 61 PI

WNU101_H2 brachypodiumll2vllBRADI5G2

3785 6631 290 90.8 globlastp 62 6970_P1

WNU101_H2 90.1

b_rapal 11 v 1 ICD817247_T 1 3786 6632 290 glotblastn 63 4

WNU101_H2 brachypodiuml 12v 1 IBRADI2G6

3787 6633 290 90.1 globlastp 64 2110_P1

WNU101_H2

safflowerlgbl62IEL390885 3788 6634 290 89.7 globlastp 65 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H2 88.8

peanutll0vl lGO334384_Tl 3789 6635 290 glotblastn 66 2

WNU101_H3

volvoxll2vllFD808894_Pl 3790 6636 290 88 globlastp 10

WNU101_H2 cirsiumll lvllSRR346952.61450

3791 6637 290 88 globlastp 67 3_P1

WNU101_H2 mesostigmalgb 166 IDN254740_P

3792 6638 290 88 globlastp 68 1

WNU101_H2

volvoxlgb 162ICBGZ 13922FWD 3793 6636 290 88 globlastp 69

WNU101_H2 cirsiuml 11 v 1 ISRR349641.11724

3794 6639 290 87.8 globlastp 70 50_P1

WNU101_H2 medicagoll2vl lMTPRD023853_ 87.4

3795 6640 290 glotblastn 71 Tl 2

WNU101_H3 soybeanll2vl lGLYMAHG1056

3796 6641 290 87.3 globlastp 11 0_P1

WNU101_H2

spikemosslgb 165 IFE439447 3797 6642 290 87.3 globlastp 72

WNU101_H2 pepperll2vllSRR203275X23113

3798 6643 290 86.7 globlastp 73 D1_P1

WNU101_H2 cannabisl 12v 1 ISOLX00030512_ 86.6

3799 6644 290 glotblastn 74 Tl 2

WNU101_H2

clover Igb 162IBB917276_P1 3800 6645 290 86.6 globlastp 75

WNU101_H2

oatll lvl lCN820466_Pl 3801 6646 290 85.9 globlastp 76

WNU101_H2 aquilegial 10v2IJGIAC008410_P

3802 6647 290 85.2 globlastp 77 1

WNU101_H2 chlamydomonaslgb 1621 AV6239

3803 6648 290 85.2 globlastp 78 13_P1

WNU101_H2 maritime_pinellOvl ISRR073317

3804 6649 290 84 globlastp 79 S0022071_P1

WNU101_H2 poppyll lvllSRR096789.155178

3805 6650 290 83.8 globlastp 80 _P1

WNU101_H2

sprucell lvllSRR066110X1234 3806 6651 290 83.8 globlastp 81

WNU101_H2

silenell lvl lSRR096785X28894 3807 6652 290 83.1 globlastp 82

WNU101_H2 ostreococcuslgb 162IXM0014206

3808 6653 290 82.4 globlastp 83 23_P1

WNU101_H2 scabiosall lvllSRR063723X106

3809 6654 290 82.4 globlastp 84 819

WNU101_H2 sprucell lvllSRR066110X15672

3810 6655 290 82.4 globlastp 85 4

WNU101_H2 82.3

fernlgb 171 IDK949164_T 1 3811 6656 290 glotblastn 86 9 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU101_H2 rhizophorall0vllSRR005793S00

3812 6657 290 82.3 globlastp 87 32422

WNU101_H2

cucumber I09v 1 IAM715146_P1 3813 6658 290 82.2 globlastp 88

WNU101_H2 81.5

cassaval09vl IDB928964_T1 3814 6659 290 glotblastn 89 5

WNU101_H2

tamarixlgbl66IEH053611 3815 6660 290 81 globlastp 90

WNU101_H2

ginsengll0vllGR874635_Pl 3816 6661 290 80.3 globlastp 91

WNU101_H2 conyzall0vllSRR035294S00050 80.2

3817 6662 290 glotblastn 92 61_T1 8

pseudoroegnerialgb 167 IFF35958

WNU102_H1 3818 6663 291 95.8 globlastp

0

WNU102_H2 ryell2vllBE705366 3819 6664 291 94.1 globlastp

WNU102_H3 ryel 12v 1 IDRR001012.104065 3820 6665 291 93.3 globlastp

WNU102_H4 ryel 12v 1 IDRR001012.20624 3821 6666 291 93.3 globlastp

WNU102_H5 ryell2vllDRR001012.544828 3822 6665 291 93.3 globlastp

WNU103_H1 wheatll2v3IBQ236960 3823 6667 292 96.6 glotblastn

95.9

WNU103_H2 ryel 12vl IDRR001012. i l 8432 3824 6668 292 glotblastn

9

95.8

WNU103_H3 barleyll2vllAV932859_Tl 3825 6669 292 glotblastn

3

95.5

WNU103_H4 wheatll2v3IBJ270163 3826 6670 292 glotblastn

2

95.5

WNU103_H5 wheatll2v3IBQ161926 3827 6671 292 glotblastn

2

WNU103_H6 wheatll2v3IBM137647 3828 6672 292 92.1 globlastp brachypodiumll2vllBRADIlGl 89.3

WNU103_H7 3829 6673 292 glotblastn

6770_T1 7

WNU103_H8 oatll lvl lG0591581_Pl 3830 6674 292 87.4 globlastp

WNU103_H9 wheatll2v3IBE497973 3831 6675 292 86.6 globlastp

WNU103_H1 foxtail_milletll lv3IPHY7SI0288 85.3

3832 6676 292 glotblastn 0 42M_T1 6

WNU103_H1 milletll0vl lEVO454PM008851_

3833 6677 292 84.9 glotblastn 2 Tl

WNU103_H1 84.2

sorghuml 12vl ISB02G002970 3834 6678 292 glotblastn 3 8

WNU103_H1 83.5

maizell0vllAI891217_Tl 3835 6679 292 glotblastn 4 1

WNU104_H1 sorghuml 12vl ISB02G039640 3836 6680 293 97.6 globlastp

WNU104_H2 sugarcanel 1 Ovl ICA091213 3837 6681 293 96.5 globlastp

WNU104_H3 switchgrasslgbl67IDN141143 3838 6682 293 95 globlastp foxtail_milletll lv3IPHY7SI0304

WNU104_H4 3839 6683 293 94.7 globlastp

17M_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

milletllOvl IEVO454PM007449_

WNU104_H5 3840 6684 293 94.1 globlastp

PI

WNU104_H6 s witchgras slgbl67IFE635872 3841 6685 293 93.8 globlastp

WNU104_H3

switchgrassll2vl lDN141143_Pl 3842 6686 293 93.5 globlastp 0

brachypodiumll2vllBRADIlG2

WNU104_H8 3843 6687 293 90.3 globlastp

1310_P1

WNU104_H1

wheatll2v3IAL829503 3844 6688 293 89.7 globlastp 1

WNU104_H1

wheatll2v3IBE499735 3845 6689 293 89.7 globlastp 2

WNU104_H1 88.8

oatll lvl lGR315509_Tl 3846 6690 293 glotblastn

3 6

WNU104_H1

sugarcanellOvl lCAl 10280 3847 6691 293 87.4 globlastp 4

WNU104_H1 milletllOvl IEVO454PM003756_

3848 6692 293 86 globlastp 7 PI

WNU104_H1 foxtail_milletll lv3IPHY7SI0360

3849 6693 293 85.8 globlastp 8 41M_P1

WNU104_H3

switchgrassll2vl IFL792794_P1 3850 6694 293 85.7 globlastp 1

WNU104_H1

switchgrasslgb 167 IFL763438 3851 6695 293 85.4 globlastp 9

WNU104_H2 brachypodiumll2vllBRADIlG6

3852 6696 293 85.1 globlastp 0 0720_P1

WNU104_H2

wheatll2v3IM94726 3853 6697 293 85.1 globlastp 1

WNU104_H2

oatll lvl lG0591794_Pl 3854 6698 293 84.5 globlastp 2

WNU104_H2

ryell2vllDRR001012.130878 3855 6699 293 84.5 globlastp 3

WNU104_H2

oiLpalmll 1 vl IEL930266_P1 3856 6700 293 83 globlastp 4

WNU104_H2 amorphophallusll lv2ISRR08935

3857 6701 293 82.5 globlastp 5 1X142963_P1

WNU104_H2 grapel 11 v 1 IGS VIVTO 100907400

3858 6702 293 80.7 globlastp 6 1_P1

WNU104_H2

poplarll0vl lDT524995 3859 6703 293 80.6 globlastp 7

WNU104_H2

poplarll3vl lDT524995_Pl 3860 6703 293 80.6 globlastp 7

WNU104_H2

orangell lvllCX076591_Pl 3861 6704 293 80.1 globlastp 8

WNU104_H2

strawberry 111 vl ID V440652 3862 6705 293 80 globlastp 9 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

foxtail_milletll lv3IPHY7SI0307

WNU105_H1 3863 6706 294 81.9 globlastp

18M_P1

WNU105_H2 switchgrassll2vl lFL765830_Pl 3864 6707 294 81.8 globlastp switchgrassll2vl lSRR187766.29 80.8

WNU105_H3 3865 6708 294 glotblastn

2736_T1 2

92.6

WNU1_H1 s witchgras s Igb 167 IFL978666 3866 6709 297 glotblastn

7

89.6

WNU1_H2 sugarcanell0vl lCA074048 3867 6710 297 glotblastn

6

88.7

WNU1_H3 maizell0vllCF029169_Tl 3868 6711 297 glotblastn

9

85.3

WNU1_H4 ricell lvllBI809550 3869 6712 297 glotblastn

4

WNU1_H9 switchgrassll2vl lFE613340_Pl 3870 6713 297 82.9 globlastp pseudoroegnerialgb 167 IFF34203 80.1

WNU1_H8 3871 6714 297 glotblastn

1 7

WNU10_H1 ryell2vl IDRR001012. i l 8659 3872 6715 298 94.7 globlastp

WNU10_H4 wheatll2v3ICA595300 3873 6716 298 88.3 globlastp

83.6

WNU10_H9 maizell0vllAI666068_Tl 3874 6717 298 glotblastn

9

WNU10_H10 maizel 1 Ov 1 ICF057796_T 1 3875 6718 298 83.1 glotblastn

81.9

WNU10_H12 ryell2vllDRR001012.335122 3876 6719 298 glotblastn

3

80.9

WNU10_H13 barleyll2vllAJ464019_Tl 3877 6720 298 glotblastn

4

89.1

WNU12_H10 switchgrasslgbl67IFL691189 3878 6721 299 glotblastn

5

88.8

WNU12_H11 maizel lOvl IAW056009_T1 3879 6722 299 glotblastn

9

81.6

WNU12_H12 oil_palmll lvl lEL687121_Tl 3880 6723 299 glotblastn

5

80.4

WNU12_H13 oiLpalml 11 vl IES273973_T 1 3881 6724 299 glotblastn

1 bananal 12v 1 IMAGEN20120188

WNU12_H14 3882 6725 299 80.1 glotblastn

57_T1

phalaenopsisll lvl lSRR125771.1

WNU12_H15 3883 6726 299 80.1 glotblastn

0131_T1

WNU36_H6 ryell2vllBE495705 3884 6727 301 89.5 globlastp

81.7

WNU36_H7 oatll lvl lCN816059_Tl 3885 6728 301 glotblastn

1 pseudoroegnerialgbl67IFF35352

WNU41_H1 3886 6729 302 86.3 globlastp

2

WNU90_H1 maizel 10vllAI621741_Pl 3887 6730 304 86 globlastp

WNU90_H3 switchgrassll2vl lFL814028_Pl 3888 6731 304 84.3 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

foxtail_milletll lv3IPHY7SI0006

WNU90_H2 3889 6732 304 83.1 globlastp

22M_P1

WNU12_H3 wheatll2v3ICA639029 3890 6733 305 96 globlastp

WNU12_H2 wheatll2v3IBE412252 3891 6734 305 94.3 globlastp

WNU12_H1 ryel 12v 1 IDRROO 1012.123825 3892 6735 305 93.6 globlastp

WNU12_H4 oatll lvl lGR341130_Pl 3893 6736 305 92.1 globlastp

WNU12_H6 ricell lvllAU033135 3894 6737 305 87.3 globlastp

WNU12_H5 sorghuml 12v 11 SB 06G014710 3895 6738 305 86.3 globlastp

WNU12_H16 switchgrassll2vl lFL696652_Pl 3896 6739 305 86 globlastp milletllOvl IEVO454PM052099_

WNU12_H9 3897 6740 305 85.9 globlastp

PI

foxtail_milletll lv3IPHY7SI0095

WNU12_H8 3898 6741 305 85.2 globlastp

37M_P1

WNU12_H7 sugarcanell0vl lCA067037 3899 6742 305 85 globlastp

WNU12_H17 switchgrassll2vl lFL691189_Pl 3900 6743 305 84.9 globlastp

WNU14_H5 wheatll2v3IBE406669 3901 6744 306 87.4 globlastp brachypodiumll2vllBRADI5G2

WNU14_H6 3902 6745 306 85.4 globlastp

2780_P1

WNU14_H7 wheatll2v3IBI750679 3903 6746 306 83.5 globlastp

WNU14_H8 ricell lvllAU097232 3904 6747 306 81.3 globlastp

WNU21_H1 wheatll2v3IBG313700 3905 6748 307 97.8 globlastp pseudoroegnerialgb 167 IFF34301

WNU21_H2 3906 6749 307 97.3 globlastp

8

WNU21_H3 ryel 12v 1 IDRROO 1012.138574 3907 6750 307 97.3 globlastp

WNU21_H4 ryell2vllDRR001012.10155 3908 6751 307 96.7 globlastp

WNU21_H5 ryel 12vllDRR001012.10485 3909 6751 307 96.7 globlastp

WNU21_H6 ryell2vllDRR001013.189535 3910 6752 307 96.7 globlastp

WNU21_H7 ryell2vllDRR001017.1025316 3911 6751 307 96.7 globlastp

WNU21_H8 wheatll2v3ICA737303 3912 6753 307 96.7 globlastp

WNU21_H11 ryel 12vllDRR001012.148105 3913 6754 307 96.2 globlastp

96.1

WNU21_H9 ryel 12v 1 IDRROO 1012.182796 3914 6755 307 glotblastn

7

96.1

WNU21_H10 ryel 12v 1 IDRROO 1012.20658 3915 6756 307 glotblastn

7

WNU21_H12 wheatll2v3IBQ166247 3916 6757 307 95.6 globlastp

WNU21_H13 wheatll2v3IBF200640 3917 6758 307 94 globlastp

WNU21_H14 leymuslgbl66ICD809143_Pl 3918 6759 307 91.8 globlastp

WNU21_H15 fescuelgbl61 IDT681490_Pl 3919 6760 307 88.5 globlastp brachypodiumll2vllBRADI3G2

WNU21_H16 3920 6761 307 86.9 globlastp

6930_P1

WNU27_H1 wheatll2v3IBE488391 3921 6762 308 95.9 globlastp

WNU27_H2 ryel 12vllBF 145226 3922 6763 308 95.6 globlastp

WNU27_H3 wheatll2v3IBE412113 3923 6764 308 95.6 globlastp

88.7

WNU27_H4 ryel 12v 1 IDRROO 1012.270703 3924 6765 308 glotblastn

6 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

brachypodiumll2vllBRADI3G5

WNU27_H5 3925 6766 308 88.4 globlastp

6757_P1

WNU27_H6 sorghuml 12v 11 SB 04G038010 3926 6767 308 84.5 globlastp foxtail_milletll lv3IPHY7SI0192

WNU27_H7 3927 6768 308 82.4 globlastp

50M_P1

WNU27_H11 switchgrassll2vl lFE641715_Pl 3928 6769 308 82.1 globlastp

WNU27_H8 s witchgras slgbl67IFE641715 3929 6769 308 82.1 globlastp

WNU27_H9 maizel 1 Ov 11 AI920575_T 1 3930 6770 308 81.4 glotblastn

WNU28_H1 ryell2vllDRR001012.114780 3931 6771 309 88.9 globlastp

WNU28_H2 ryell2vllDRR001012.48939 3932 6772 309 88.1 globlastp

WNU28_H3 ryell2vllDRR001018.89399 3933 6773 309 87.4 globlastp

WNU28_H4 ryel 12v 1 IDRR001017.104402 3934 6774 309 87.3 globlastp

WNU28_H5 ryell2vllDRR001012.141928 3935 6775 309 86.7 globlastp

WNU28_H6,

wheatll2v3ICJ963327_Pl 3936 6776 309 85.8 globlastp WNU28_H7

WNU28_H6,

wheatll2v3ICJ963327 3937 - 309 85.8 globlastp WNU28_H7

WNU28_H8 wheatll2v3ICA693523 3938 6777 309 85.1 globlastp

WNU28_H9 ryel 12vllDRR001018.49987 3939 6778 309 84.3 globlastp

WNU28_H12 wheatll2v3ICD872329 3940 6779 309 83 globlastp

WNU28_H15 wheatll2v3IBE404460 3941 6780 309 82.2 globlastp

WNU28_H16 barleyl 12v 11 AV930429_P 1 3942 6781 309 82.1 globlastp

WNU28_H17 barleyll2vllBF253983_Pl 3943 6781 309 82.1 globlastp

WNU28_H13 barleyll2vllBI951355_Pl 3944 6782 309 80.1 globlastp ryel 12v 1 IDRROO 1012.224627_P

WNU28_H21 3945 6783 309 80 globlastp

1

WNU28_H22 ryell2vllDRR001012.62536_Pl 3946 6784 309 80 globlastp ryell2vllDRR001012.656377_P

WNU28_H23 3947 6785 309 80 globlastp

1

brachypodiuml 12v 1 IBRADI4G0

WNU37_H6 3948 6786 311 96.3 globlastp

4420_P1

WNU37_H16 oiLpalmll lvl ICN599820_P1 3949 6787 311 83.5 globlastp oiLpalmll lvl ISRR190698.1147

WNU37_H17 3950 6787 311 83.5 globlastp

26_P1

bananal 12v 1 IMAGEN20120185

WNU37_H18 3951 6788 311 82.5 globlastp

69_P1

WNU37_H20 cacaoll0vllCGD0019884_Pl 3952 6789 311 81 globlastp

WNU37_H24 cassaval09vl IAI253959_P1 3953 6790 311 80.2 globlastp prunus_mumel 13vl ICV047022_ 80.0

WNU37_H27 3954 6791 311 glotblastn

Tl 6

WNU61_H1 sorghuml 12v 11 SB 10G006070 3955 6792 315 89.2 globlastp

WNU61_H2 maizel 10vllBM737452_Pl 3956 6793 315 87.1 globlastp

WNU61_H3 ricell lvllCI069708_Pl 3957 6794 315 82.7 globlastp

81.8

WNU61_H4 ryell2vllBE495393_Tl 3958 6795 315 glotblastn

9 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

brachypodiumll2vllBRADIlG4

WNU61_H5 3959 6796 315 81.6 globlastp

6900_P1

WNU61_H6 wheatll2v3IAL822556_Pl 3960 6797 315 80.3 globlastp

WNU63_H1 cenchruslgbl66IEB658691_Pl 3961 6798 316 97.5 globlastp foxtail_milletll lv3IPHY7SI0121 95.0

WNU63_H2 3962 6799 316 glotblastn

65M_T1 5

WNU63_H16 switchgrassll2vl lDN146418_Pl 3963 6800 316 94.7 globlastp

WNU63_H3 s witchgras slgbl67IDN146418 3964 6801 316 94.7 globlastp milletl 1 Ovl IEV0454PM 118273_

WNU63_H4 3965 6802 316 93.6 globlastp

PI

WNU63_H5 maizell0vllAI622273_Pl 3966 6803 316 92.9 globlastp

WNU63_H6 sorghuml 12vl ISB04G009630 3967 6804 316 92.9 globlastp

WNU63_H7 sorghuml 12v 11 SB 01 GO 16190 3968 6805 316 91.5 globlastp

WNU63_H8 maizell0vllAI948046_Pl 3969 6806 316 88.7 globlastp

WNU63_H9 ricell lvllBM420094 3970 6807 316 86.3 globlastp brachypodiuml 12v 1 IBRADI2G3

WNU63_H10 3971 6808 316 85.5 globlastp

3020T2_P1

WNU63_H11 ryel 12v 1 IDRR001012.157809 3972 6809 316 84.5 globlastp

WNU63_H12 barleyll2vllBE215196_Tl 3973 6810 316 84.1 glotblastn

WNU63_H13 ryel 12v 1 IDRR001015.124656 3974 6811 316 84.1 glotblastn

WNU63_H14 wheatll2v3ICA661311 3975 6812 316 84.1 globlastp pseudoroegnerialgb 167 IFF34090 80.9

WNU63_H15 3976 6813 316 glotblastn

9 2 milletl 1 Ovl IEVO454PM004199_

WNU78_H1 3977 6814 319 92.5 globlastp

PI

WNU78_H17 switchgrassll2vl lDN146651_Pl 3978 6815 319 89.7 globlastp

WNU78_H18 switchgrassll2vl lFE643273_Pl 3979 6816 319 89.7 globlastp

WNU78_H2 s witchgras slgbl67IDN146651 3980 6815 319 89.7 globlastp

WNU78_H3 switchgrasslgbl67IFE643273 3981 6816 319 89.7 globlastp foxtail_milletll lv3IPHY7SI0071

WNU78_H4 3982 6817 319 88.9 globlastp

62M_P1

WNU78_H5 sorghuml 12v 1 ISB 10G000890 3983 6818 319 88.9 globlastp

WNU78_H19 switchgrassll2vl lFL849979_Pl 3984 6819 319 87.3 globlastp

WNU78_H6 ricell lvllAU093254 3985 6820 319 85.7 globlastp

84.7

WNU78_H7 s witchgras s Igb 167 IFL779241 3986 6821 319 glotblastn

6 brachypodiumll2vllBRADI3Gl

WNU78_H8 3987 6822 319 84.1 globlastp

3680_P1

WNU78_H9 fescuelgb 161 IDT700845_P1 3988 6823 319 83.7 globlastp

83.3

WNU78_H10 barleyll2vllBI955393_Tl 3989 6824 319 glotblastn

3

WNU78_H11 wheatll2v3IBJ208990 3990 6825 319 82.9 globlastp

WNU78_H12 wheatll2v3IBE444900 3991 6826 319 82.5 globlastp brachypodiumll2vllBRADIlG5

WNU78_H13 3992 6827 319 82.1 globlastp

1860_P1 Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

WNU78_H14 ryell2vllDRR001012.33764 3993 6828 319 82.1 globlastp

WNU78_H15 wheatll2v3ICA632170 3994 6829 319 82.1 globlastp

WNU78_H16 oatll lvl lCN819016_Pl 3995 6830 319 81.3 globlastp foxtail_milletll lv3IPHY7SI0023

WNU80_H1 3996 6831 320 96.7 globlastp

58M_P1

WNU80_H2 milletll0vl lCD724968_Pl 3997 6832 320 96.7 globlastp

WNU80_H3 sorghuml 12v 11 SB 03G040810 3998 6833 320 96.7 globlastp

WNU80_H17 switchgrassll2vl lFE599977_Pl 3999 6834 320 96.4 globlastp

WNU80_H4 switchgrasslgbl67IFE599977 4000 6835 320 95.4 globlastp

WNU80_H5 sugarcanel lOvl ICA079518 4001 6836 320 93.5 globlastp

90.9

WNU80_H6 ricell lvllAU070592 4002 - 320 glotblastn

1 brachypodiuml 12v 1 IBRADI2G5

WNU80_H7 4003 6837 320 90.6 globlastp

5950_P1

pseudoroegnerialgb 167IFF34982

WNU80_H8 4004 6838 320 90.3 globlastp

2

WNU80_H9 wheatll2v3IBE405865 4005 6839 320 90.3 globlastp

WNU80_H10 ryel 12v 1 IDRR001012.116997 4006 6840 320 89.9 globlastp

WNU80_H11 ryell2vllDRR001012.163420 4007 6840 320 89.9 globlastp

WNU80_H12 ryell2vllBE587858 4008 6841 320 89.6 globlastp

WNU80_H13 ryell2vllDRR001015.911252 4009 6842 320 89.6 globlastp

WNU80_H14 wheatll2v3IBE405262 4010 6843 320 89.6 globlastp

WNU80_H15 cenchruslgb 166 IBM084416_T 1 4011 6844 320 88.6 glotblastn

87.9

WNU80_H16 ryel 12vllDRR001012.173208 4012 6845 320 glotblastn

9 foxtail_milletll lv3IPHY7SI0132

WNU81_H1 4013 6846 321 93 globlastp

23M_P1

brachypodiumll2vllBRADI3G2

WNU81_H2 4014 6847 321 89.7 globlastp

2387_P1

WNU81_H3 ricell lvllBM419293 4015 6848 321 89.1 globlastp foxtail_milletll lv3IPHY7SI0288

WNU81_H4 4016 6849 321 85.4 globlastp

59M_P1

WNU81_H5 ricell lvllCA754384 4017 6850 321 84.8 globlastp

WNU81_H6 sorghuml 12v 11 SB 02G019450 4018 6851 321 84.7 globlastp

WNU81_H7 ryel 12v 1 IDRR001012.105803 4019 6852 321 83.7 globlastp

WNU81_H8 maize 11 Ov 1 IMZE AKHD A_P 1 4020 6853 321 83.2 globlastp brachypodiuml 12v 1 IBRADI4G2

WNU81_H10 4021 6854 321 82.7 globlastp

7450_P1

82.6

WNU81_H9 switchgrasslgbl67IFE600070 4022 6855 321 glotblastn

5

WNU81_H11 wheatll2v3IBE412231 4023 6856 321 82.4 globlastp

81.8

WNU81_H12 wheatll2v3IBM136038 4024 6857 321 glotblastn

2

WNU82_H1 sugarcanell0vl lCA151757 4025 6858 322 90.9 globlastp

WNU82_H2 sorghuml 12vl ISB03G042740 4026 6859 322 89 globlastp Ho

Polyn. Polyp. m. %

SEQ SEQ to glob.

Horn. Name Organism 1 cluster name Algor.

ID ID SEQ Ident

NO: NO: ID

NO:

foxtail_milletll lv3IPHY7SI0031

WNU82_H4 4027 6860 322 81.3 globlastp

85M_P1

WNU82_H5 switchgrasslgbl67IDN144831 4028 6861 322 80.6 globlastp

WNU83_H11 switchgrassll2vl IFL769499_P1 4029 6862 323 95.5 globlastp

WNU83_H12 switchgrassll2vl lFL734741_Pl 4030 6863 323 95 globlastp foxtail_milletll lv3IPHY7SI0221 94.0

WNU83_H2 4031 6864 323 glotblastn

65M_T1 9

WNU83_H1 sorghuml 12v 11 SB 09G003210 4032 6865 323 93.6 globlastp brachypodiuml 12v 1 IBRADI2G3

WNU83_H3 4033 6866 323 89.7 globlastp

6660_P1

WNU83_H5 wheatll2v3IBE499001 4034 6867 323 89.1 globlastp

89.0

WNU83_H4 ricell lvllAU091309 4035 6868 323 glotblastn

9

WNU83_H6 ricell lvllGFXAC105262X7 4036 6869 323 87.5 globlastp

WNU83_H7 cenchruslgbl66IEB657522_Pl 4037 6870 323 87.3 globlastp

WNU83_H8 ryell2vllDRR001012.509710 4038 6871 323 86 globlastp

WNU83_H9 ryell2vllDRR001012.585241 4039 6872 323 86 globlastp

84.0

WNU83_H10 s witchgras s Igb 167 IFL734741 4040 6873 323 glotblastn

9

WNU98_H2 sorghuml 12vl ISB04G026090 4041 6874 325 94.3 globlastp foxtail_milletll lv3IPHY7SI0350

WNU98_H4 4042 6875 325 88.3 globlastp

26M_P1

foxtail_milletll lv3IEC612739_P

WNU98_H5 4043 6876 325 87.6 globlastp

1

foxtail_milletll lv3IPHY7SI0009

WNU98_H6 4044 6877 325 87.4 globlastp

16M_P1

WNU98_H22 switchgrassll2vl IFE607028_P1 4045 6878 325 87.2 globlastp

WNU98_H7 switchgrasslgbl67IFE607028 4046 6878 325 87.2 globlastp

WNU98_H23 switchgrassll2vl lFE608115_Pl 4047 6879 325 87.1 globlastp

WNU98_H8 switchgrasslgbl67IFE608115 4048 6879 325 87.1 globlastp

WNU98_H24 switchgrassll2vl IFE599520_P1 4049 6880 325 86.9 globlastp

WNU98_H10 ricell lvllAA754522 4050 6881 325 85.2 globlastp

WNU98_H12 barleyll2vllAV833668_Pl 4051 6882 325 82.7 globlastp

WNU98_H13 wheatll2v3IBJ268384 4052 6883 325 82.5 globlastp

WNU98_H14 ryell2vllDRR001012.140848 4053 6884 325 81.2 globlastp

WNU98_H15 wheatll2v3IBE500326 4054 6885 325 81.2 globlastp

WNU98_H16 ryell2vllDRR001012.130831 4055 6886 325 80.8 globlastp

WNU98_H19 ryel 12v 1 IDRR001012.119066 4056 6887 325 80.3 globlastp

WNU98_H20 ryell2vllBE494854 4057 6888 325 80.1 globlastp

WNU98_H25 barleyll2vllBG414863_Pl 4058 6889 325 80 globlastp

WNU99_H1 maizell0vllBM032584_Pl 4059 6890 326 89.7 globlastp

WNU99_H3 switchgrassll2vl lFL698201_Pl 4060 6891 326 88.2 globlastp

WNU99_H2 maizell0vllAW520084_Pl 4061 6892 326 88 globlastp

WNU99_H4 switchgrassll2vl lFE632329_Pl 4062 6893 326 87.3 globlastp Table 2: Provided are the homologous polypeptides and polynucleotides of the genes identified in Table 1 and of their cloned genes, which can increase nitrogen use efficiency, fertilizer use efficiency, yield, seed yield, growth rate, vigor, biomass, oil content, fiber yield, fiber quality, fiber length, abiotic stress tolerance and/or water use efficiency of a plant. Homology was calculated as % of identity over the aligned sequences. The query sequences were polypeptide sequences SEQ ID NOs:202-327 and polynucleotides SEQ ID NOs: 1-201) and the subject sequences are polypeptide sequences or polynucleotide sequences which were dynamically translated in all six reading frames identified in the database based on greater than 80 % identity to the query polypeptide sequences. "Polyp." = polypeptide; "Polyn." - Polynucleotide. Algor. = Algorithm, "globlastp" - global homology using blastp; "glotblastn" - global homology using tblastn. "Horn." - homologous.

The output of the functional genomics approach described herein is a set of genes highly predicted to improve nitrogen use efficiency, fertilizer use efficiency, yield, seed yield, growth rate, vigor, biomass, oil content, fiber yield, fiber length, fiber quality, abiotic stress tolerance and/or water use efficiency of a plant by increasing their expression.

Although each gene is predicted to have its own impact, modifying the mode of expression of more than one gene or gene product (RNA, polypeptide) is expected to provide an additive or synergistic effect on the desired trait (e.g., nitrogen use efficiency, fertilizer use efficiency, yield, growth rate, vigor, biomass, oil content, abiotic stress tolerance and/or water use efficiency of a plant). Altering the expression of each gene described here alone or of a set of genes together increases the overall yield and/or other agronomic important traits, hence expects to increase agricultural productivity.

EXAMPLE 3

PRODUCTION OF ARABIDOPSIS TRANSCRIPTOME AND HIGH THROUGHPUT CORRELATION ANALYSIS USING 44K ARABIDOPSIS

OLIGONUCLEOTIDE MICRO-ARRAY

In order to produce a high throughput correlation analysis comparing between plant phenotype and gene expression level, the present inventors utilized a Arabidopsis oligonucleotide micro-array, produced by Agilent Technologies [chem (dot) agilent (dot) com/Scripts/PDS (dot) asp?lPage=50879]. The array oligonucleotide represents about 44,000 Arabidopsis genes and transcripts. To define correlations between the levels of RNA expression with NUE, yield components or vigor related parameters various plant characteristics of 14 different Arabidopsis ecotypes were analyzed. Among them, ten ecotypes encompassing the observed variance were selected for RNA expression analysis. The correlation between the RNA levels and the characterized parameters was analyzed using Pearson correlation test [davidmlane (dot) com/hyperstat/A34739 (dot) html] .

Experimental Procedures

Analyzed Arabidopsis tissues - Two tissues of plants [leaves and stems] growing at two different nitrogen fertilization levels (1.5 mM Nitrogen or 6 mM Nitrogen) were sampled and RNA was extracted as described above. Each micro-array expression information tissue type has received a Set ID as summarized Table 3 below.

Table 3

Arabidopsis transcriptome experimental sets

Table 3.

Arabidopsis yield components and vigor related parameters under different nitrogen fertilization levels assessment - 10 Arabidopsis accessions in 2 repetitive plots each containing 8 plants per plot were grown at greenhouse. The growing protocol used was as follows: surface sterilized seeds were sown in Eppendorf tubes containing 0.5 x Murashige-Skoog basal salt medium and grown at 23°C under 12-hour light and 12- hour dark daily cycles for 10 days. Then, seedlings of similar size were carefully transferred to pots filled with a mix of perlite and peat in a 1 : 1 ratio. Constant nitrogen limiting conditions were achieved by irrigating the plants with a solution containing 1.5 mM inorganic nitrogen in the form of KN0 ₃ , supplemented with 2 mM CaCl ₂ , 1.25 mM KH ₂ P0 ₄ , 1.50 mM MgS0 ₄ , 5 mM KC1, 0.01 mM H ₃ BO ₃ and microelements, while normal irrigation conditions was achieved by applying a solution of 6 mM inorganic nitrogen also in the form of KNO ₃ , supplemented with 2 mM CaCl ₂ , 1.25 mM KH ₂ P0 ₄ , 1.50 mM MgS0 ₄ , 0.01 mM H ₃ BO ₃ and microelements. To follow plant growth, trays were photographed the day nitrogen limiting conditions were initiated and subsequently every 3 days for about 15 additional days. Rosette plant area was then determined from the digital pictures. ImageJ software was used for quantifying the plant size from the digital pictures [rsb (dot) info (dot) nih (dot) gov/ij/] utilizing proprietary scripts designed to analyze the size of rosette area from individual plants as a function of time. The image analysis system included a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.37 (Java based image processing program, which was developed at the U.S. National Institutes of Health and freely available on the internet [rsbweb (dot) nih (dot) gov/]). Next, analyzed data was saved to text files and processed using the JMP statistical analysis software (SAS institute).

Data parameters collected are summarized in Table 4, hereinbelow.

Table 4

Arabidopsis correlated parameters (vectors)

Correlated parameter with Correlation ID

N_1.5 mM 1000 Seeds weight [gr] 1

N 1.5 mM Biomass reduction compared to 6 mM [gr] 2

N 1.5 mM DW/SPAD [gr./ SPAD unit] 3

N 1.5 mM Dry Weight [gr] 4

N 1.5 mM Harvest Index 5

N 1.5 mM Leaf Blade Area 10 day [cm ² ] 6

N 1.5 mM Leaf Number 10 day 7

N 1.5 mM GR of Rosette Area 3 day [cm ² /day] 8

N 1.5 mM Rosette Area 10 day [cm ² ] 9

N 1.5 mM Rosette Area 8 day [cm ² ] 10

N 1.5 mM SPAD/DW [SPAD unit/gr.] 11

N 1.5 mM Seed Yield [gr] 12

N 1.5 mM Seed yield reduction compared to 6 mM [gr] 13

N 1.5 mM Spad / FW [SPAD unit/gr.] 14

N 1.5 mM seed yield/spad [gr./ SPAD unit] 15

N 1.5 mM seed yield per leaf blead [gr./cm ² ] 16

N 1.5 mM seed yield per rossete area day 10 [gr./cm ² ] 17

N 1.5 mM t50 Flowering [days] 18

N 6 mMDW/SPAD [gr./ SPAD unit] 19

N 6 mMSpad / FW [SPAD unit/gr.] 20

N 6 mM 10 dayOO Seeds weight [gr] 21

N 6 mM Dry Weight [gr] 22

N 6 mM Harvest Index 23

N 6 mM Leaf Blade Area 10 day [cm ² ] 24

N 6 mM Leaf Number 10 day 25

N 6 mM GR of Rosette Area 3 day [cm ² /day] 26

N 6 mM Rosette Area 10 day [cm ² ] 27

N 6 mM Rosette Area 8 day [cm ² ] 28

N 6 mM Seed Yield [gr] 29

N 6 mM Seed yield/N unit [gr./ SPAD unit] 30

N 6 mM seed yield/ rossete area day 10 day [gr./cm ² ] 31

N 6 mM seed yield/leaf blade [gr./cm ² ] 32

N 6 mM spad/DW [SPAD unit/gr.] 33

N 6 mM t50 Flowering (days) 34 Table 4. "N" = Nitrogen at the noted concentrations; "gr." = grams; "SPAD" = chlorophyll levels; "t50" = time where 50% of plants flowered; "gr./ SPAD unit" = plant biomass expressed in grams per unit of nitrogen in plant measured by SPAD. "DW" = plant dry weight; "N level /DW" = plant Nitrogen level measured in SPAD unit per plant biomass [gr.]; "DW/ N level" = plant biomass per plant [gr.]/SPAD unit;

Assessment of NUE, yield components and vigor-related parameters - Ten

Arabidopsis ecotypes were grown in trays, each containing 8 plants per plot, in a greenhouse with controlled temperature conditions for about 12 weeks. Plants were irrigated with different nitrogen concentration as described above depending on the treatment applied. During this time, data was collected documented and analyzed. Most of chosen parameters were analyzed by digital imaging.

Digital imaging - Greenhouse assay

An image acquisition system, which consists of a digital reflex camera (Canon EOS 400D) attached with a 55 mm focal length lens (Canon EF-S series) placed in a custom made Aluminum mount, was used for capturing images of plants planted in containers within an environmental controlled greenhouse. The image capturing process was repeated every 2-3 days starting at day 9-12 till day 16-19 (respectively) from transplanting.

An image processing system was used, which consists of a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.37, Java based image processing software, which was developed at the U.S. National Institutes of Health and is freely available on the internet at Hypertext Transfer Protocol://rsbweb (dot) nih (dot) gov/. Images were captured in resolution of 10 Mega Pixels (3888x2592 pixels) and stored in a low compression JPEG (Joint Photographic Experts Group standard) format. Next, image processing output data was saved to text files and analyzed using the JMP statistical analysis software (SAS institute).

Leaf analysis - Using the digital analysis leaves data was calculated, including leaf number, leaf blade area, Rosette diameter and area.

Vegetative growth rate: the growth rate (GR) of leaf blade area (Formula XII), leaf number (Formula VIII), rosette area (Formula IX), rosette diameter (Formula X), plot coverage (Formula XI) and Petiole Relative Area (Formula XXV) were calculated using the indicated Formulas as described above. Seed yield and 1000 seeds weight - At the end of the experiment all seeds from all plots were collected and weighed in order to measure seed yield per plant in terms of total seed weight per plant (gr.). For the calculation of 1000 seed weight, an average weight of 0.02 grams was measured from each sample, the seeds were scattered on a glass tray and a picture was taken. Using the digital analysis, the number of seeds in each sample was calculated.

Dry weight and seed yield - At the end of the experiment, plant were harvested and left to dry at 30 °C in a drying chamber. The biomass was separated from the seeds, weighed and divided by the number of plants. Dry weight = total weight of the vegetative portion above ground (excluding roots) after drying at 30 °C in a drying chamber.

Harvest Index - The harvest index was calculated using Formula XV as described above.

T50 days to flowering - Each of the repeats was monitored for flowering date. Days of flowering was calculated from sowing date till 50 % of the plots flowered.

Plant nitrogen level - The chlorophyll content of leaves is a good indicator of the nitrogen plant status since the degree of leaf greenness is highly correlated to this parameter. Chlorophyll content was determined using a Minolta SPAD 502 chlorophyll meter and measurement was performed at time of flowering. SPAD meter readings were done on young fully developed leaf. Three measurements per leaf were taken per plot. Based on this measurement, parameters such as the ratio between seed yield per nitrogen unit [seed yield/N level = seed yield per plant [gr.]/SPAD unit], plant DW per nitrogen unit [DW/ N level= plant biomass per plant [gr.]/SPAD unit], and nitrogen level per gram of biomass [N level/DW= SPAD unit/ plant biomass per plant (gr.)] were calculated.

Percent of seed yield reduction- measures the amount of seeds obtained in plants when grown under nitrogen-limiting conditions compared to seed yield produced at normal nitrogen levels expressed in %.

Experimental Results

10 different Arabidopsis accessions (ecotypes) were grown and characterized for 37 parameters as described above. The average for each of the measured parameters was calculated using the JMP software and values are summarized in Table 5 below. Subsequent correlation analysis between the various transcriptome sets (Table 3) and the measured parameters was conducted. Following, the results were integrated to the database.

Table 5

Measured parameters in Arabidopsis accessions

Corr.

Line- Line- Line- Line- Line- Line- ID/ Line-1 Line-4 Line-6 Line-9

2 3 5 7 8 10 Line

1 0.016 0.016 0.018 0.014 0.022 0.015 0.014 0.022 0.019 0.018

76.70 78.56 78.64 83.06 77.19

2 60.746 78.140 73.192 70.120 62.972

6 0 1 8 0

4 0.164 0.124 0.082 0.113 0.124 0.134 0.106 0.148 0.171 0.184

5 0.192 0.203 0.295 0.085 0.071 0.241 0.179 0.081 0.079 0.031

6 0.335 0.266 0.374 0.387 0.370 0.386 0.350 0.379 0.307 0.373

7 6.875 7.313 7.313 7.875 7.750 7.625 7.188 8.625 5.929 7.938

8 0.631 0.793 0.502 0.491 0.720 0.825 0.646 0.668 0.636 0.605

9 1.430 1.325 1.766 1.971 1.832 1.818 1.636 1.996 1.150 1.754

10 0.760 0.709 1.061 1.157 1.000 0.910 0.942 1.118 0.638 0.996

12 0.032 0.025 0.023 0.010 0.009 0.032 0.019 0.012 0.014 0.006

84.70 78.78 92.62 81.93 91.30

13 72.559 87.996 76.710 85.757 91.820

1 4 2 8 1

16 0.095 0.095 0.063 0.026 0.024 0.084 0.059 0.034 0.044 0.015

17 0.022 0.019 0.014 0.005 0.005 0.018 0.013 0.007 0.012 0.003

20.96 14.83 23.69 19.48 23.56

18 15.967 24.708 18.059 21.888 23.566

8 6 8 8 8

21 0.015 0.017 0.018 0.012 0.016 0.015 0.014 0.017 0.016 0.016

22 0.419 0.531 0.382 0.518 0.579 0.501 0.628 0.649 0.573 0.496

23 0.280 0.309 0.284 0.158 0.206 0.276 0.171 0.212 0.166 0.136

24 0.342 0.315 0.523 0.449 0.430 0.497 0.428 0.509 0.405 0.430

25 6.250 7.313 8.063 8.750 8.750 8.375 7.125 9.438 6.313 8.063

26 0.689 1.024 0.614 0.601 0.651 0.676 0.584 0.613 0.515 0.477

27 1.406 1.570 2.673 2.418 2.142 2.474 1.965 2.721 1.642 2.207

28 0.759 0.857 1.477 1.278 1.095 1.236 1.094 1.410 0.891 1.224

29 0.116 0.165 0.108 0.082 0.119 0.139 0.107 0.138 0.095 0.068

31 0.082 0.106 0.041 0.034 0.056 0.057 0.055 0.051 0.058 0.031

32 0.339 0.526 0.207 0.183 0.277 0.281 0.252 0.271 0.235 0.158

20.50 14.63 23.59 19.75 22.88

34 16.371 24.000 15.033 18.804 23.378

0 5 5 0 7

3 0.006 0.004 0.005 0.006 0.006

167.30 241.06 194.97 169.34 157.82

11

0 1 7 3 3

14 45.590 42.110 53.110 67.000 28.150

15 0.001 0.000 0.001 0.000 0.000

19 0.019 0.018 0.015 0.015 0.028

20 22.490 28.270 33.320 39.000 17.640

30 0.004 0.003 0.005 0.003 0.002

33 53.705 54.625 66.479 68.054 35.548 Table 5. Provided are the measured parameters under various treatments in various ecotypes (Arabidopsis accessions).

Table 6

Correlation between the expression level of WNU selected genes of some embodiments of the invention in various tissues and the phenotypic performance under normal or low nitrogen fertilization conditions across Arabidopsis accessions

Table 6. "Corr. ID " - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

EXAMPLE 4

PRODUCTION OF ARABIDOPSIS TRANSCRIPTOME AND HIGH THROUGHPUT CORRELATION ANALYSIS OF YIELD, BIOMASS AND/OR VIGOR RELATED PARAMETERS USING 44K ARABIDOPSIS FULL GENOME

OLIGONUCLEOTIDE MICRO-ARRAY

To produce a high throughput correlation analysis comparing between plant phenotype and gene expression level, the present inventors utilized an Arabidopsis thaliana oligonucleotide micro-array, produced by Agilent Technologies [chem. (dot) agilent (dot) com/Scripts/PDS (dot) asp?lPage=50879] . The array oligonucleotide represents about 40,000 A. thaliana genes and transcripts designed based on data from the TIGR ATH1 v.5 database and Arabidopsis MPSS (University of Delaware) databases. To define correlations between the levels of RNA expression and yield, biomass components or vigor related parameters, various plant characteristics of 15 different Arabidopsis ecotypes were analyzed. Among them, nine ecotypes encompassing the observed variance were selected for RNA expression analysis. The correlation between the RNA levels and the characterized parameters was analyzed using Pearson correlation test [davidmlane (dot) com/hyperstat/A34739 (dot) html] .

Experimental procedures

Analyzed Arabidopsis tissues - Five tissues at different developmental stages including root, leaf, flower at anthesis, seed at 5 days after flowering (DAF) and seed at 12 DAF, representing different plant characteristics, were sampled and RNA was extracted as described above. Each micro-array expression information tissue type has received a Set ID as summarized in Table 7 below.

Table 7

Tissues used for Arabidopsis transcriptome expression sets

Table 7: Provided are the identification (ID) letters of each of the Arabidopsis expression sets (A-E). DAF = days after flowering. Yield components and vigor related parameters assessment - Eight out of the nine Arabidopsis ecotypes were used in each of 5 repetitive blocks (named A, B, C, D and E), each containing 20 plants per plot. The plants were grown in a greenhouse at controlled conditions in 22°C, and the N:P:K fertilizer (20:20:20; weight ratios) [nitrogen (N), phosphorus (P) and potassium (K)] was added. During this time data was collected, documented and analyzed. Additional data was collected through the seedling stage of plants grown in a vertical grown transparent agar plates. Most of chosen parameters were analyzed by digital imaging.

Digital imaging in plantlets analysis - A laboratory image acquisition system was used for capturing images of plantlets sawn in square agar plates. The image acquisition system consists of a digital reflex camera (Canon EOS 300D) attached to a 55 mm focal length lens (Canon EF-S series), mounted on a reproduction device (Kaiser RS), which included 4 light units (4x150 Watts light bulb) and located in a darkroom.

Digital imaging in Greenhouse - The image capturing process was repeated every 3-4 days starting at day 7 till day 30. The same camera attached to a 24 mm focal length lens (Canon EF series), placed in a custom made iron mount, was used for capturing images of larger plants sawn in white tubs in an environmental controlled greenhouse. The white tubs were square shape with measurements of 36 x 26.2 cm and 7.5 cm deep. During the capture process, the tubs were placed beneath the iron mount, while avoiding direct sun light and casting of shadows. This process was repeated every 3-4 days for up to 30 days. An image analysis system was used, which consists of a personal desktop computer (Intel P43.0 GHz processor) and a public domain program - ImageJ 1.37, Java based image processing program, which was developed at the U.S. National Institutes of Health and is freely available on the internet at rsbweb (dot) nih (dot) gov/. Images were captured in resolution of 6 Mega Pixels (3072 x 2048 pixels) and stored in a low compression JPEG (Joint Photographic Experts Group standard) format. Next, analyzed data was saved to text files and processed using the JMP statistical analysis software (SAS institute).

Leaf analysis - Using the digital analysis leaves data was calculated, including leaf number, area, perimeter, length and width. On day 30, 3-4 representative plants were chosen from each plot of blocks A, B and C. The plants were dissected, each leaf was separated and was introduced between two glass trays, a photo of each plant was taken and the various parameters (such as leaf total area, laminar length etc.) were calculated from the images. The blade circularity was calculated as laminar width divided by laminar length.

Root analysis - During 17 days, the different ecotypes were grown in transparent agar plates. The plates were photographed every 3 days starting at day 7 in the photography room and the roots development was documented (see examples in Figures 3A-F). The growth rate of roots was calculated according to Formula XXVIII (above).

Vegetative growth rate analysis - was calculated according to Formulas VII-

XIII above. The analysis was ended with the appearance of overlapping plants.

For comparison between ecotypes the calculated rate was normalized using plant developmental stage as represented by the number of true leaves. In cases where plants with 8 leaves had been sampled twice (for example at day 10 and day 13), only the largest sample was chosen and added to the Anova comparison.

Seeds in siliques analysis - On day 70, 15-17 siliques were collected from each plot in blocks D and E. The chosen siliques were light brown color but still intact. The siliques were opened in the photography room and the seeds were scatter on a glass tray, a high resolution digital picture was taken for each plot. Using the images the number of seeds per silique was determined.

Seeds average weight - At the end of the experiment all seeds from plots of blocks A-C were collected. An average weight of 0.02 grams was measured from each sample, the seeds were scattered on a glass tray and a picture was taken. Using the digital analysis, the number of seeds in each sample was calculated.

Oil percentage in seeds - At the end of the experiment all seeds from plots of blocks A-C were collected. Columbia seeds from 3 plots were mixed grounded and then mounted onto the extraction chamber. 210 ml of n-Hexane (Cat No. 080951 Biolab Ltd.) were used as the solvent. The extraction was performed for 30 hours at medium heat 50 °C. Once the extraction has ended the n-Hexane was evaporated using the evaporator at 35 °C and vacuum conditions. The process was repeated twice. The information gained from the Soxhlet extractor (Soxhlet, F. Die gewichtsanalytische Bestimmung des Milchfettes, Polytechnisches J. (Dingler's) 1879, 232, 461) was used to create a calibration curve for the Low Resonance NMR. The content of oil of all seed samples was determined using the Low Resonance NMR (MARAN Ultra- Oxford Instrument) and its MultiQuant software package.

Silique length analysis - On day 50 from sowing, 30 siliques from different plants in each plot were sampled in block A. The chosen siliques were green-yellow in color and were collected from the bottom parts of a grown plant's stem. A digital photograph was taken to determine silique's length.

Dry weight and seed yield - On day 80 from sowing, the plants from blocks A-C were harvested and left to dry at 30 °C in a drying chamber. The biomass and seed weight of each plot was separated, measured and divided by the number of plants. Dry weight = total weight of the vegetative portion above ground (excluding roots) after drying at 30 °C in a drying chamber; Seed yield per plant = total seed weight per plant (gr).

Oil yield - The oil yield was calculated using Formula XXIX above.

Harvest Index (seed) - The harvest index was calculated using Formula XV

(described above).

Experimental Results

Nine different Arabidopsis ecotypes were grown and characterized for 18 parameters (named as vectors). Table 8 describes the Arabidopsis correlated parameters. The average for each of the measured parameter was calculated using the JMP software (Table 9) and a subsequent correlation analysis was performed (Table 10). Results were then integrated to the database. Table 8

Arabidopsis correlated parameters (vectors)

Table 8. Provided are the Arabidopsis correlated parameters (correlation ID Nos. 1-18). Abbreviations: Cm = centimeter(s); gr. = gram(s); mg = milligram(s).

The characterized values are summarized in Table 9 below.

Table 9

Measured parameters in Arabidopsis ecotypes

Corr

ID./ Line-1 Line-2 Line-3 Line-4 Line-5 Line-6 Line-7 Line-8 Line-9 Line

1 0.509 0.481 0.450 0.370 0.501 0.376 0.394 0.491 0.409

2 0.640 1.270 1.050 1.280 1.690 1.340 0.810 1.210 1.350

3 0.530 0.350 0.560 0.330 0.370 0.320 0.450 0.510 0.410

4 2.767 3.544 3.274 3.785 3.690 4.597 3.877 3.717 4.149

5 1.385 1.697 1.460 1.374 1.828 1.650 1.510 1.817 1.668

6 0.353 0.288 0.316 0.258 0.356 0.273 0.305 0.335 0.307

7 34.420 31.190 38.050 27.760 35.490 32.910 31.560 30.790 34.020

118.63 138.73 224.06 116.26 218.27 142.11 114.15 190.06 187.62

8

0 0 0 0 0 0 0 0 0

9 45.440 53.470 58.470 35.270 48.560 37.000 39.380 40.530 25.530

10 1.060 1.260 1.310 1.470 1.240 1.090 1.180 1.180 1.000

109.89 114.66 110.82 121.79

11 46.860 58.360 56.800 88.490 93.040

0 0 0 0

12 0.313 0.378 0.484 0.474 0.425 0.645 0.430 0.384 0.471

13 1.510 3.607 1.935 2.082 3.556 4.338 3.467 3.479 3.710

14 0.631 0.664 1.176 1.089 0.907 0.774 0.606 0.701 0.782

15 4.419 8.530 5.621 4.834 5.957 6.372 5.649 7.060 7.041

16 0.937 1.759 0.701 0.728 0.991 1.163 1.284 1.414 1.251 Con- ID./ Line-1 Line-2 Line-3 Line-4 Line-5 Line-6 Line-7 Line-8 Line-9 Line

17 0.020 0.023 0.025 0.034 0.020 0.026 0.020 0.023 0.024

18 0.340 0.440 0.590 0.420 0.610 0.430 0.360 0.620 0.550

Table 9. Provided are the values of each of the parameters (as described above) measured in Arabidopsis accessions (line) under normal growth conditions. Growth conditions are specified in the experimental procedure section.

Table 10

Correlation between the expression level of WNU selected genes of some embodiments of the invention in various tissues and the phenotypic performance under normal or low nitrogen fertilization conditions across Arabidopsis accessions

"Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

EXAMPLE 5

PRODUCTION OF BARLEY TRANSCRIPTOME AND HIGH THROUGHPUT CORRELATION ANALYSIS USING 44K BARLEY OLIGONUCLEOTIDE

MICRO-ARRAY

In order to produce a high throughput correlation analysis comparing between plant phenotype and gene expression level, the present inventors utilized a Barley oligonucleotide micro-array, produced by Agilent Technologies [chem. (dot) agilent (dot) com/Scripts/PDS (dot) asp?lPage=50879] . The array oligonucleotide represents about 47,500 Barley genes and transcripts. In order to define correlations between the levels of RNA expression and yield or vigor related parameters, various plant characteristics of 25 different Barley accessions were analyzed. Among them, 13 accessions encompassing the observed variance were selected for RNA expression analysis. The correlation between the RNA levels and the characterized parameters was analyzed using Pearson correlation test [davidmlane (dot) com/hyperstat/A34739 (dot) html] . Experimental procedures

Analyzed Barley tissues - Five tissues at different developmental stages [meristem, flower, booting spike, stem, flag leaf], representing different plant characteristics, were sampled and RNA was extracted as described above. Each micro- array expression information tissue type has received a Set ID as summarized in Table 11 below.

Table 11

Barley transcriptome expression sets

Table 11.

Barley yield components and vigor related parameters assessment - 25 Barley accessions in 4 repetitive blocks (named A, B, C, and D), each containing 4 plants per plot were grown at net house. Plants were phenotyped on a daily basis following the standard descriptor of barley (Table 12, below). Harvest was conducted while 50 % of the spikes were dry to avoid spontaneous release of the seeds. Plants were separated to the vegetative part and spikes, of them, 5 spikes were threshed (grains were separated from the glumes) for additional grain analysis such as size measurement, grain count per spike and grain yield per spike. All material was oven dried and the seeds were threshed manually from the spikes prior to measurement of the seed characteristics (weight and size) using scanning and image analysis. The image analysis system included a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.37 (Java based image processing program, which was developed at the U.S. National Institutes of Health and freely available on the internet [rsbweb (dot) nih (dot) gov/]. Next, analyzed data was saved to text files and processed using the JMP statistical analysis software (SAS institute). Table 12

Barley standard descriptors

Table 12.

Grains per spike - At the end of the experiment (50 % of the spikes were dry) all spikes from plots within blocks A-D were collected. The total number of grains from 5 spikes that were manually threshed was counted. The average grain per spike was calculated by dividing the total grain number by the number of spikes.

Grain average size (cm) - At the end of the experiment (50 % of the spikes were dry) all spikes from plots within blocks A-D were collected. The total grains from 5 spikes that were manually threshed were scanned and images were analyzed using the digital imaging system. Grain scanning was done using Brother scanner (model DCP- 135), at the 200 dpi resolution and analyzed with Image J software. The average grain size was calculated by dividing the total grain size by the total grain number.

Grain average weight (mgr) - At the end of the experiment (50 % of the spikes were dry) all spikes from plots within blocks A-D were collected. The total grains from 5 spikes that were manually threshed were counted and weight. The average weight was calculated by dividing the total weight by the total grain number.

Grain yield per spike (gr) - At the end of the experiment (50 % of the spikes were dry) all spikes from plots within blocks A-D were collected. The total grains from 5 spikes that were manually threshed were weight. The grain yield was calculated by dividing the total weight by the spike number.

Spike length analysis - At the end of the experiment (50 % of the spikes were dry) all spikes from plots within blocks A-D were collected. The five chosen spikes per plant were measured using measuring tape excluding the awns.

Spike number analysis - At the end of the experiment (50 % of the spikes were dry) all spikes from plots within blocks A-D were collected. The spikes per plant were counted.

Growth habit scoring - At the growth stage 10 (booting), each of the plants was scored for its growth habit nature. The scale that was used was 1 for prostate nature till 9 for erect.

Hairiness of basal leaves - At the growth stage 5 (leaf sheath strongly erect; end of tillering), each of the plants was scored for its hairiness nature of the leaf before the last. The scale that was used was 1 for prostate nature till 9 for erect.

Plant height - At the harvest stage (50 % of spikes were dry) each of the plants was measured for its height using measuring tape. Height was measured from ground level to top of the longest spike excluding awns.

Days to flowering - Each of the plants was monitored for flowering date. Days of flowering was calculated from sowing date till flowering date.

Stem pigmentation - At the growth stage 10 (booting), each of the plants was scored for its stem color. The scale that was used was 1 for green till 5 for full purple.

Vegetative dry weight and spike yield - At the end of the experiment (50 % of the spikes were dry) all spikes and vegetative material from plots within blocks A-D were collected. The biomass and spikes weight of each plot was separated, measured and divided by the number of plants.

Dry weight = total weight of the vegetative portion above ground (excluding roots) after drying at 70 °C in oven for 48 hours;

Spike yield per plant = total spike weight per plant (gr) after drying at 30 °C in oven for 48 hours.

Harvest Index (for barley) - The harvest index was calculated using Formula

XVIII (described above). Table 13

Barley correlated parameters (vectors)

Table 13.

Experimental Results

13 different Barley accessions were grown and characterized for 13 parameters as described above. The average for each of the measured parameter was calculated using the JMP software and values are summarized in Table 14 below. Subsequent correlation analysis between the various transcriptome sets (Table 11) and the average parameters, was conducted. Follow, results were integrated to the database.

Table 14

Measured parameters of correlation Ids in Barley accessions

Cor

L- L- L- L-

L-1 L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

ID./ 10 11 12 13

L

1 35.0 28.1 28.8 17.9 41.2 29.7 35.0 20.6 37.1 25.2

2 0.3 0.2 0.2 0.2 0.3 0.3 0.3 0.2 0.3 0.2

3 20.2 18.0 17.3 17.7 14.5 16.8 14.1 21.5 13.4 12.1

4 2.6 2.0 1.9 3.2 4.3 2.7 3.5 3.0 2.5 3.6

5 1.5 1.3 1.7 1.1 1.4 1.7 1.2 1.0 1.6 1.3

134. 130. 138. 114. 127. 129. 121. 126. 121. 103.

6

3 5 8 6 8 4 6 8 4 9

7 3.6 2.5 2.6 1.6 3.0 2.5 2.6 2.3 2.7 1.5

8 12.0 10.9 11.8 9.9 11.7 11.5 11.2 11.1 10.2 8.9

10 1.1 2.5 1.7 1.8 2.3 2.3 2.2 2.3 3.1 1.7

11 78.9 66.1 68.5 53.4 68.3 74.2 58.3 62.2 68.3 35.4

12 62.4 64.1 65.2 58.9 63.0 70.5 60.9 58.1 60.4 52.8

1 35.0 28.1 28.8 17.9 41.2 29.7 35.0 20.6 37.1 25.2 27.5 29.6 19.6

2 0.3 0.2 0.2 0.2 0.3 0.3 0.3 0.2 0.3 0.2 0.2 0.3 0.2 Cor

L- L- L- L-

L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

ID./ 10 11 12 13

L

3 20.2 18.0 17.3 17.7 14.5 16.8 14.1 21.5 13.4 12.1 12.1 15.3 17.1

4 2.6 2.0 1.9 3.2 4.3 2.7 3.5 3.0 2.5 3.6 3.7 3.5 3.0

5 1.5 1.3 1.7 1.1 1.4 1.7 1.2 1.0 1.6 1.3 1.2 1.1 1.2

134. 130. 138. 114. 127. 129. 121. 126. 121. 103. 118. 117.

D 99.8

3 5 8 6 8 4 6 8 4 9 4 2

7 3.6 2.5 2.6 1.6 3.0 2.5 2.6 2.3 2.7 1.5 1.7 2.4 1.7

8 12.0 10.9 11.8 9.9 11.7 11.5 11.2 11.1 10.2 8.9 8.6 10.5 9.8

9 48.8 48.3 37.4 61.9 33.3 41.7 40.6 62.0 50.6 40.0 49.3 43.1 51.4

10 1.1 2.5 1.7 1.8 2.3 2.3 2.2 2.3 3.1 1.7 1.8 1.6 2.2

11 78.9 66.1 68.5 53.4 68.3 74.2 58.3 62.2 68.3 35.4 38.3 56.1 42.7

12 62.4 64.1 65.2 58.9 63.0 70.5 60.9 58.1 60.4 52.8 53.0 64.6 56.0

Table 14. Provided are the values of each of the parameters (as described above) measured in barley accessions (line, "L") under normal growth conditions. Growth conditions are specified in the experimental procedure section.

Table 15

Correlation between the expression level of WNU selected genes of some embodiments of the invention in various tissues and the phenotypic performance under normal fertilization conditions across barley accessions

Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

LAB446 0.748 2.05E-02 1 3 LYM82 0.830 5.62E-03 3 6

LYM82 0.785 4.24E-03 3 8 LYM82 0.815 2.22E-03 3 7

LYM82 0.864 6.09E-04 3 11 LYM82 0.888 1.40E-03 3 12

WNU 10 0.721 4.36E-02 2 4 WNU 10 0.894 2.72E-03 3 9

WNU 11 0.711 4.79E-02 1 9 WNU 11 0.758 1.79E-02 3 2

WNU 11 0.749 7.95E-03 3 1 WNU 12 0.862 2.83E-03 1 2

WNU 12 0.812 7.80E-03 1 1 WNU 12 0.808 1.52E-02 3 9

WNU 13 0.788 1.16E-02 1 2 WNU 13 0.826 6.06E-03 1 1

WNU 14 0.809 2.56E-03 3 9 WNU 15 0.784 2.14E-02 1 9

WNU 16 0.811 4.43E-03 2 6 WNU 16 0.753 3.12E-02 2 12

WNU 16 0.766 9.84E-03 2 5 WNU 16 0.843 4.35E-03 3 2

WNU 16 0.869 2.38E-03 3 1 WNU 17 0.833 1.02E-02 2 3

WNU 17 0.796 1.02E-02 3 11 WNU 17 0.765 1.64E-02 3 12

WNU 18 0.882 1.64E-03 1 2 WNU 18 0.866 2.52E-03 1 1

WNU 19 0.807 1.54E-02 2 4 WNU20 0.768 9.43E-03 2 4

WNU20 0.744 3.45E-02 3 9 WNU23 0.930 2.83E-04 1 5

WNU26 0.901 8.96E-04 3 4 WNU27 0.733 2.47E-02 1 5

WNU29 0.810 8.14E-03 1 5 WNU29 0.840 4.61E-03 3 2

WNU29 0.802 9.37E-03 3 1 WNU31 0.768 9.48E-03 2 2

WNU31 0.725 4.18E-02 2 1 WNU31 0.759 2.89E-02 2 7

WNU33 0.767 2.63E-02 2 5 WNU33 0.790 3.80E-03 3 2

WNU34 0.833 1.02E-02 3 9 WNU35 0.756 3.02E-02 2 4

WNU35 0.887 3.32E-03 3 9 WNU36 0.723 1.19E-02 3 9 Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

WNU37 0.727 4.08E-02 1 9 WNU38 0.705 2.28E-02 2 4

WNU39 0.800 9.62E-03 1 1 WNU39 0.763 2.77E-02 3 9

WNU39 0.712 3.14E-02 3 3 WNU40 0.707 3.34E-02 1 2

WNU40 0.800 1.71E-02 2 5 WNU40 0.728 2.62E-02 3 12

WNU44 0.809 8.22E-03 1 2 WNU44 0.827 5.92E-03 1 1

WNU44 0.786 1.21E-02 1 7 WNU44 0.757 1.83E-02 1 5

WNU44 0.827 1.12E-02 3 9 WNU8 0.825 1.18E-02 2 4

WNU8 0.776 1.39E-02 3 12 WNU9 0.852 7.23E-03 2 10

Table 15. "Corr. ID " - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

EXAMPLE 6

PRODUCTION OF BARLEY TRANSCRIPTOME AND HIGH THROUGHPUT CORRELATION ANALYSIS USING 60K BARLEY OLIGONUCLEOTIDE

MICRO-ARRAY

In order to produce a high throughput correlation analysis comparing between plant phenotype and gene expression level, the present inventors utilized a Barley oligonucleotide micro-array, produced by Agilent Technologies [chem. (dot) agilent (dot) com/Scripts/PDS (dot) asp?lPage=50879]. The array oligonucleotide represents about 60K Barley genes and transcripts. In order to define correlations between the levels of RNA expression and yield or vigor related parameters, various plant characteristics of 15 different Barley accessions were analyzed. Among them, 10 accessions encompassing the observed variance were selected for RNA expression analysis. The correlation between the RNA levels and the characterized parameters was analyzed using Pearson correlation test [davidmlane (dot) com/hyperstat/A34739 (dot) html].

Experimental procedures

15 Barley accessions in 5 repetitive blocks, each containing 5 plants per pot were grown at net house. Three different treatments were applied: plants were regularly fertilized and watered during plant growth until harvesting (as recommended for commercial growth, plants were irrigated 2-3 times a week, and fertilization was given in the first 1.5 months of the growth period) or under low Nitrogen (80% percent less Nitrogen) or under drought stress (cycles of drought and re-irrigating were conducted throughout the whole experiment, overall 40% less water were given in the drought treatment).

Analyzed Barley tissues Five tissues at different developmental stages [leaf, stem, root tip and adventitious root, flower], representing different plant characteristics, were sampled and RNA was extracted as described above. Each micro-array expression information tissue type has received a Set ID as summarized in Table 16 below.

Table 16

Barley transcriptome expression sets of vegetative developmental stage

Table 16. Provided are the barley transcriptome expression sets.

Table 17

Barley transcriptome expression sets of reproductive developmental stage

Table 17. Provided are the barley transcriptome expression sets.

Barley yield components and vigor related parameters assessment - Plants were phenotyped on a daily basis following the parameters listed in Table 18 below. Harvest was conducted while all the spikes were dry. All material was oven dried and the seeds were threshed manually from the spikes prior to measurement of the seed characteristics (weight and size) using scanning and image analysis. The image analysis system included a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.37 (Java based image processing program, which was developed at the U.S. National Institutes of Health and freely available on the internet [rsbweb (dot) nih (dot) gov/] . Next, analyzed data was saved to text files and processed using the JMP statistical analysis software (SAS institute). Grain yield (gr.) - At the end of the experiment all spikes of the pots were collected. The total grains from all spikes that were manually threshed were weighted. The grain yield was calculated by per plot or per plant.

Spike length and width analysis - At the end of the experiment the length and width of five chosen spikes per plant were measured using measuring tape excluding the awns.

Spike number analysis - The spikes per plant were counted.

Plant height - Each of the plants was measured for its height using measuring tape. Height was measured from ground level to top of the longest spike excluding awns at two time points at the Vegetative growth (30 days after sowing) and at harvest.

Spike weight - The biomass and spikes weight of each plot was separated, measured and divided by the number of plants.

Dry weight = total weight of the vegetative portion above ground (excluding roots) after drying at 70°C in oven for 48 hours at two time points at the Vegetative growth (30 days after sowing) and at harvest.

Spikelet per spike = number of spikelets per spike was counted.

Root/Shoot Ratio - The Root/Shoot Ratio was calculated using Formula XXII above.

Total No. of tillers- all tillers were counted per plot at two time points at the Vegetative growth (30 days after sowing) and at harvest.

Percent of reproductive tillers - the number of reproductive tillers barring a spike at harvest was divided by the total numbers of tillers.

SPAD - Chlorophyll content was determined using a Minolta SPAD 502 chlorophyll meter and measurement was performed at time of flowering. SPAD meter readings were done on young fully developed leaf. Three measurements per leaf were taken per plot.

Root FW (gr.), root length (cm) and No. of lateral roots - 3 plants per plot were selected for measurement of root weight, root length and for counting the number of lateral roots formed.

Shoot FW (fresh weight) - weight of 3 plants per plot were recorded at different time- points. Average Grain Area (cm ) - At the end of the growing period the grains were separated from the spike. A sample of -200 grains was weighted, photographed and images were processed using the below described image processing system. The grain area was measured from those images and was divided by the number of grains.

Average Grain Length and width (cm) - At the end of the growing period the grains were separated from the spike. A sample of -200 grains was weighted, photographed and images were processed using the below described image processing system. The sum of grain lengths or width (longest axis) was measured from those images and was divided by the number of grains.

Average Grain perimeter (cm) - At the end of the growing period the grains were separated from the spike. A sample of -200 grains was weighted, photographed and images were processed using the below described image processing system. The sum of grain perimeter was measured from those images and was divided by the number of grains.

Heading date - the day in which booting stage was observed was recorded and number of days from sowing to heading was calculated.

Relative water content - Fresh weight (FW) of three leaves from three plants each from different seed ID was immediately recorded; then leaves were soaked for 8 hours in distilled water at room temperature in the dark, and the turgid weight (TW) was recorded. Total dry weight (DW) was recorded after drying the leaves at 60°C to a constant weight. Relative water content (RWC) is calculated according to Formula I above.

Harvest Index (for barley) - The harvest index was calculated using Formula XVIII above.

Growth rate: the growth rate (GR) of Plant Height (Formula III above), SPAD

(Formula IV above) and number of tillers (Formula V above) were calculated using the indicated Formulas.

Ratio low N/Normal: Represents ratio for the specified parameter of low N condition results divided by Normal conditions results (maintenance of phenotype under low N in comparison to normal conditions). Table 18

Barley correlated parameters (vectors)

Table 18. Provided are the barley correlated parameters. Experimental Results

15 different Barley accessions were grown and characterized for different parameters as described above. Table 18 describes the Barley correlated parameters. The average for each of the measured parameter was calculated using the JMP software and values are summarized in Tables 19-20 below. Subsequent correlation analysis between the various transcriptome sets and the average parameters was conducted (Table 21). Follow, results were integrated to the database.

Table 19

Measured parameters of correlation IDs in Barley accessions under normal conditions

Table 19. Provided are the values of each of the parameters (as described above) measured in Barley accessions (line, "L") under growth conditions as described above. Growth conditions are specified in the experimental procedure section. Table 20

Measured parameters of correlation IDs in Barley accessions under low N conditions

Line

ID/ L- L- L- L- L- L- L- L- L- L- L- L- L-

L-l L-2

Corr 3 4 5 6 7 8 9 10 11 12 13 14 15

. ID

1 5.0 5.0 6.7 4.3 5.3 5.3 6.0 4.3 6.0 6.3 6.0 6.7 4.7 5.7 7.3

2 0.7 0.7 0.8 0.7 0.7 0.6 0.7 0.5 0.6 0.6 0.6 0.7 0.5 0.6 0.8

39. 54. 37. 74. 53. 46. 51. 57. 67. 64. 52. 46. 68. 57.

J 49.9

4 1 0 8 0 3 5 1 8 2 4 2 0 9

4 0.1 0.3 0.2 0.5 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2 0.2

102 128. 13 12 14 12 10 11 14 15 14 12 95. 12 13

J

.9 5 5.9 0.3 8.0 3.7 7.8 1.6 2.4 2.4 9.3 4.1 0 4.1 5.2

6 0.2 0.3 0.3 0.4 0.3 0.3 0.3 0.2 0.2 0.3 0.3 0.3 0.2 0.3 0.3

10. 10. 11. 10.

7 8.0 10.0 9.7 8.6 9.2 8.0 7.5 8.5 8.6 6.3 7.5

7 0 5 0

8 0.3 0.5 0.5 0.5 0.4 0.4 0.4 0.3 0.3 0.4 0.4 0.4 0.3 0.4 0.5

Q 230 15 65. 13 15 16 88. 13 10 22 21 14 20 12

61.6

.2 9.4 8 9.6 3.2 4.6 3 3.6 6.0 2.6 9.2 3.5 1.8 5.0

10 0.2 0.2 0.2 0.4 0.1 0.2 0.3 0.4 0.2 0.2 0.2 0.2 0.2 0.2 0.2

12. 16. 10. 11. 25. 14. 15.

11 12.0 8.4 7.6 9.0 7.8 7.0 5.4 8.4

2 4 8 6 0 5 0

12 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.3 0.4 0.2 0.3 0.3 0.3 0.3 0.2

41. 60. 69. 65. 75. 82. 61. 59. 65. 47. 53. 56. 81. 44.

14 57.4

0 6 0 6 2 0 4 4 8 8 8 4 8 6

20. 26. 34. 49. 32. 41. 61. 25. 28. 14. 23. 42. 61. 26.

15 43.1

5 0 5 2 2 0 4 5 2 3 1 3 4 8

16 0.4 0.1 0.6 0.1 0.3 0.4 0.2 0.1 0.4 0.9 0.5 0.4 0.3 0.3 0.6

17 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0

24. 24. 18. 21. 21. 21. 22. 21. 22. 23. 30. 22. 23. 24.

18 17.2

7 5 8 0 7 7 0 7 2 0 5 8 8 5

92. 10 51. 46. 92. 81. 88. 61. 35. 86. 87. 72. 10 91.

19 85.8

5 5.0 4 7 9 3 0 9 9 3 1 1 2.1 9

24. 23. 22. 24. 25. 23. 26. 23. 26. 23. 25. 24. 25. 26.

20 18.6

0 0 0 5 6 3 5 9 6 2 4 2 0 1

11. 17. 11. 13. 12. 21. 13. 11. 14.

21 11.7 9.2 8.0 1.7 7.7 9.8

1 6 9 6 3 2 8 5 3

22 9.8 1.1 6.4 1.4 6.7 6.7 7.3 3.3 5.1 6.0 9.7 7.4 5.8 7.8 6.3

23 0.5 0.1 0.5 0.1 0.2 0.5 0.5 0.2 0.2 0.2 0.6 0.3 0.4 0.4 0.4

24 0.4 0.2 0.5 0.3 0.4 0.6 0.4 0.3 0.6 0.8 0.5 0.5 0.4 0.5 0.6

25 0.0 0.0 0.0 0.1 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0

15. 20. 12. 16. 18. 19. 16. 19. 90. 16. 20. 18. 18. 16.

26 15.0

2 3 4 8 9 6 3 3 2 4 4 8 8 7

27 0.4 0.5 0.6 0.3 0.5 0.5 0.5 0.5 0.6 2.6 0.4 0.6 0.5 0.5 0.5

10.

28 8.0 7.6 8.4 6.2 9.1 9.1 8.1 9.4 4.9 9.6 7.2 7.1 8.5 9.4

0

29 0.1 0.4 0.1 0.4 0.2 0.1 0.2 0.3 0.1 0.2 0.1 0.1 0.1 0.2 0.2

13. 11. 12. 11. 13. 11. 11. 15. 12. 11. 12. 10.

30 5.0 5.7 9.2

7 6 4 4 4 6 3 1 2 0 2 6

31 0.8 0.3 0.6 0.4 0.7 0.6 0.7 0.5 0.6 0.7 0.8 0.6 0.5 0.7 0.7 Line

ID/ L- L- L- L- L- L- L- L- L- L- L- L- L-

L-l L-2

Corr 3 5 6 7 8 9 iO 11 12 13 14 15 . ID

32 0.8 NA 0.7 0.5 0.7 0.7 0.6 0.7 1.2 0.6 0.8 0.7 0.6 0.8 0.6

33 0.8 NA 0.8 0.2 0.7 0.8 0.8 0.8 0.8 0.6 0.8 0.7 0.7 1.1 0.6

16. 12. 35. 10. 16. 14. 16. 20. 12. 18. 21. 11. 14.

35 NA 6.8

2 0 0 8 0 6 0 8 5 8 2 0 0

36 1.7 NA 1.2 8.1 1.1 1.8 1.6 1.9 3.2 1.2 2.1 2.9 1.1 0.7 1.4

Table 20.

Table 21

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under normal or low nitrogen fertilization conditions across barley accessions (vegetative developmental stages)

Cor.

Gene Exp Gene Exp. Cor.

R P value Set R P value

Name . set Name set Set ID

ID

LAB21 0.848 3.91E-03 1 10 LAB 21 0.711 3.17E-02 1 12

LAB21 0.826 3.25E-03 5 33 LAB446 0.788 1.16E-02 1 10

LAB44

0.723 1.82E-02 5 31 LAB446 0.849 3.76E-03 3 27 6

LAB44

0.859 3.04E-03 3 26 LYM316 0.731 3.94E-02 6 13 6

LYM31

0.758 1.10E-02 5 18 LYM316 0.711 3.16E-02 2 13 6

LYM31

0.865 2.61E-03 3 27 LYM316 0.901 9.04E-04 3 17 6

LYM31

0.867 2.47E-03 3 26 LYM316 0.894 1.13E-03 3 18 6

LYM31

0.833 5.35E-03 3 24 LYM316 0.900 9.58E-04 3 16 6

LYM82 0.873 2.14E-03 1 12 LYM82 0.722 1.84E-02 5 32

LYM82 0.761 1.73E-02 2 16 WNU10 0.789 1.99E-02 6 20

WNU1

0.734 2.44E-02 1 28 WNU10 0.801 5.33E-03 5 2 0

WNU1

0.718 2.95E-02 2 20 WNU10 0.707 3.31E-02 3 14 0

WNU1

0.781 2.21E-02 6 26 WNU11 0.810 8.10E-03 1 11 1

WNU1

0.865 2.63E-03 1 32 WNU11 0.714 2.04E-02 5 20 1

WNU1

0.734 2.43E-02 3 27 WNU11 0.734 2.43E-02 3 26 1

WNU1

0.754 1.90E-02 2 1 WNU12 0.750 1.99E-02 3 21 2

WNU1

0.706 2.25E-02 5 17 WNU13 0.713 2.07E-02 5 24 3

WNU1

0.759 1.09E-02 5 16 WNU13 0.709 2.18E-02 5 5 3 Cor.

Gene Exp Gene Exp. Cor.

R P value Set R P value

Name . set Name set Set ID

ID

WNU1

0.824 6.34E-03 3 6 WNU13 0.854 3.39E-03 3 4 3

WNU1

0.806 8.69E-03 3 8 WNU14 0.852 3.52E-03 1 18 3

WNU1

0.793 1.08E-02 3 31 WNU15 0.767 1.59E-02 3 1 4

WNU1

0.736 2.39E-02 3 5 WNU16 0.868 5.16E-03 6 16 5

WNU1

0.735 1.54E-02 5 7 WNU16 0.752 1.21E-02 5 1 6

WNU1

0.827 3.17E-03 5 17 WNU16 0.818 3.79E-03 5 24 6

WNU1

0.842 2.23E-03 5 16 WNU17 0.721 1.85E-02 5 31 6

WNU1

0.744 1.35E-02 5 1 WNU17 0.842 2.26E-03 5 2 7

WNU1

0.719 1.92E-02 5 24 WNU17 0.741 1.42E-02 5 16 7

WNU1

0.760 1.74E-02 2 9 WNU18 0.777 1.37E-02 2 30 8

WNU1

0.735 2.42E-02 2 22 WNU19 0.773 2.44E-02 6 35 8

WNU1

0.776 2.37E-02 6 7 WNU19 0.836 9.78E-03 6 18 9

WNU1

0.726 2.69E-02 1 18 WNU19 0.817 3.90E-03 5 35 9

WNU1

0.732 1.60E-02 5 11 WNU19 0.825 3.29E-03 5 36 9

WNU1

0.771 1.51E-02 2 35 WNU19 0.756 1.85E-02 2 11 9

WNU1

0.730 2.54E-02 3 35 WNU19 0.736 2.37E-02 3 29 9

WNU1

0.861 2.88E-03 3 21 WNU19 0.802 9.28E-03 3 36 9

WNU1

0.722 2.81E-02 3 18 WNU20 0.738 3.67E-02 6 35 9

WNU2

0.779 1.34E-02 2 35 WNU20 0.943 1.40E-04 3 27 0

WNU2

0.943 1.35E-04 3 26 WNU20 0.782 1.27E-02 3 24 0

WNU2

0.766 1.60E-02 3 16 WNU21 0.813 1.41E-02 6 34 0

WNU2

0.710 4.86E-02 6 11 WNU21 0.709 3.24E-02 1 3 1

WNU2

0.724 1.80E-02 5 32 WNU21 0.750 1.99E-02 2 18 1

WNU2

0.878 1.83E-03 2 24 WNU21 0.937 1.90E-04 2 16 1 Cor.

Gene Exp Gene Exp. Cor.

R P value Set R P value

Name . set Name set Set ID

ID

WNU2

0.739 2.30E-02 3 1 WNU21 0.709 3.23E-02 3 2 1

WNU2

0.803 9.20E-03 3 17 WNU21 0.827 5.91E-03 3 24 1

WNU2

0.821 6.69E-03 3 16 WNU22 0.797 1.01E-02 3 7 1

WNU2

0.815 7.44E-03 3 27 WNU22 0.870 2.32E-03 3 17 2

WNU2

0.820 6.78E-03 3 26 WNU22 0.947 1.06E-04 3 24 2

WNU2

0.926 3.32E-04 3 16 WNU22 0.737 2.34E-02 3 5 2

WNU2

0.736 2.39E-02 1 1 WNU23 0.837 4.93E-03 2 20 3

WNU2

0.754 3.05E-02 6 20 WNU25 0.880 1.75E-03 2 35 5

WNU2

0.704 3.41E-02 2 9 WNU26 0.873 2.13E-03 3 9 6

WNU2

0.891 2.97E-03 6 35 WNU27 0.857 6.60E-03 6 11 7

WNU2

0.797 1.77E-02 6 7 WNU27 0.711 4.80E-02 6 24 7

WNU2

0.756 3.01E-02 6 13 WNU27 0.850 7.56E-03 6 5 7

WNU2

0.808 8.45E-03 3 7 WNU27 0.730 2.56E-02 3 24 7

WNU2

0.931 2.69E-04 1 10 WNU28 0.839 4.73E-03 1 29 8

WNU2

0.736 2.38E-02 1 21 WNU29 0.758 2.94E-02 6 24 8

WNU2

0.744 3.41E-02 6 13 WNU29 0.856 1.59E-03 5 27 9

WNU2

0.854 1.67E-03 5 17 WNU29 0.850 1.83E-03 5 26 9

WNU2

0.814 4.14E-03 5 24 WNU29 0.912 2.41E-04 5 16 9

WNU2

0.752 1.95E-02 2 35 WNU29 0.804 8.95E-03 2 7 9

WNU2

0.839 4.73E-03 3 27 WNU29 0.723 2.78E-02 3 17 9

WNU2

0.829 5.69E-03 3 26 WNU29 0.866 2.51E-03 3 24 9

WNU2

0.798 9.97E-03 3 16 WNU30 0.790 1.97E-02 6 34 9

WNU3

0.722 2.80E-02 1 33 WNU30 0.713 3.09E-02 1 12 0

WNU3

0.723 1.82E-02 5 33 WNU30 0.720 1.89E-02 5 32 0 Cor.

Gene Exp Gene Exp. Cor.

R P value Set R P value

Name . set Name set Set ID

ID

WNU3

0.711 3.19E-02 2 34 WNU30 0.814 7.53E-03 2 16 0

WNU3

0.738 2.31E-02 3 4 WNU31 0.758 2.93E-02 6 11 0

WNU3

0.833 1.02E-02 6 7 WNU31 0.764 2.74E-02 6 24 1

WNU3

0.808 1.53E-02 6 5 WNU31 0.700 3.56E-02 1 11 1

WNU3

0.857 3.15E-03 1 18 WNU31 0.807 4.73E-03 5 1 1

WNU3

0.781 7.63E-03 5 33 WNU31 0.849 3.83E-03 2 9 1

WNU3

0.716 3.02E-02 2 1 WNU31 0.718 2.95E-02 2 30 1

WNU3

0.760 1.75E-02 2 22 WNU31 0.840 4.57E-03 3 6 1

WNU3

0.905 7.93E-04 3 11 WNU31 0.704 3.41E-02 3 36 1

WNU3

0.939 1.72E-04 3 32 WNU31 0.708 3.30E-02 3 4 1

WNU3

0.746 2.11E-02 3 3 WNU31 0.816 7.37E-03 3 8 1

WNU3

0.735 3.80E-02 6 20 WNU33 0.749 2.01E-02 2 30 2

WNU3

0.779 1.33E-02 2 13 WNU33 0.789 1.15E-02 3 11 3

WNU3

0.766 1.60E-02 3 36 WNU34 0.708 3.30E-02 1 1 3

WNU3

0.759 1.78E-02 1 2 WNU34 0.715 3.05E-02 1 18 4

WNU3

0.737 2.36E-02 2 9 WNU34 0.840 4.62E-03 3 30 4

WNU3

0.764 1.65E-02 1 2 WNU35 0.719 2.89E-02 1 17 5

WNU3

0.728 2.63E-02 1 20 WNU35 0.729 2.60E-02 1 16 5

WNU3

0.765 1.62E-02 2 9 WNU35 0.759 1.77E-02 2 30 5

WNU3

0.741 2.24E-02 2 22 WNU35 0.719 2.90E-02 3 10 5

WNU3

0.872 2.19E-03 3 21 WNU35 0.756 1.84E-02 3 19 5

WNU3

0.717 2.96E-02 1 18 WNU36 0.731 2.54E-02 3 15 6

WNU3

0.700 3.56E-02 3 33 WNU37 0.827 1.14E-02 6 24 6

WNU3

0.788 2.02E-02 6 16 WNU37 0.731 3.96E-02 6 13 7 Cor.

Gene Exp Gene Exp. Cor.

R P value Set R P value

Name . set Name set Set ID

ID

WNU3

0.861 2.87E-03 1 18 WNU37 0.850 3.70E-03 1 3 7

WNU3

0.704 2.32E-02 5 7 WNU37 0.773 8.73E-03 5 1 7

WNU3

0.822 3.55E-03 5 2 WNU37 0.750 1.25E-02 5 17 7

WNU3

0.863 2.74E-03 3 27 WNU37 0.715 3.03E-02 3 36 7

WNU3

0.751 1.96E-02 3 17 WNU37 0.861 2.84E-03 3 26 7

WNU3

0.833 5.32E-03 3 19 WNU37 0.735 2.41E-02 3 18 7

WNU3

0.749 2.03E-02 3 24 WNU37 0.791 1.11E-02 3 16 7

WNU3

0.780 2.25E-02 6 35 WNU38 0.758 2.93E-02 6 13 8

WNU3

0.756 1.85E-02 1 28 WNU38 0.778 8.04E-03 5 2 8

WNU3

0.856 1.59E-03 5 17 WNU38 0.800 5.48E-03 5 16 8

WNU3

0.731 2.52E-02 3 28 WNU38 0.725 2.70E-02 3 31 8

WNU3

0.770 2.53E-02 6 7 WNU39 0.886 3.38E-03 6 24 9

WNU3

0.792 1.92E-02 6 30 WNU39 0.869 5.13E-03 6 13 9

WNU3

0.709 4.90E-02 6 22 WNU39 0.837 2.50E-03 5 35 9

WNU3

0.865 1.22E-03 5 11 WNU39 0.922 1.47E-04 5 36 9

WNU3

0.756 1.13E-02 5 12 WNU39 0.790 1.13E-02 2 35 9

WNU3

0.788 1.16E-02 2 13 WNU39 0.781 1.30E-02 3 11 9

WNU3

0.839 4.74E-03 3 32 WNU40 0.868 1.14E-03 5 33 9

WNU4

0.841 8.87E-03 6 9 WNU41 0.894 2.75E-03 6 30 1

WNU4

0.912 1.58E-03 6 22 WNU41 0.890 1.29E-03 1 18 1

WNU4

0.744 1.36E-02 5 21 WNU41 0.748 1.28E-02 5 23 1

WNU4

0.701 3.53E-02 3 35 WNU41 0.798 9.91E-03 3 31 1

WNU4

0.935 2.14E-04 3 11 WNU41 0.838 4.80E-03 3 36 1

WNU4

0.880 1.77E-03 3 32 WNU42 0.749 2.02E-02 1 1 1 Cor.

Gene Exp Gene Exp. Cor.

R P value Set R P value

Name . set Name set Set ID

ID

WNU4

0.730 1.66E-02 5 10 WNU42 0.787 6.85E-03 5 21 2

WNU4

0.868 2.42E-03 2 20 WNU42 0.846 4.05E-03 3 11 2

WNU4

0.794 1.06E-02 3 32 WNU43 0.785 1.21E-02 1 14 2

WNU4

0.729 2.60E-02 1 15 WNU43 0.990 3.52E-07 2 24 3

WNU4

0.946 1.16E-04 2 16 WNU44 0.715 3.04E-02 1 1 3

WNU4

0.701 3.55E-02 1 2 WNU44 0.701 2.39E-02 5 12 4

WNU4

0.819 6.97E-03 3 27 WNU44 0.833 5.35E-03 3 26 4

WNU4

0.756 1.85E-02 3 24 WNU44 0.760 1.75E-02 3 16 4

WNU8 0.705 5.07E-02 6 20 WNU8 0.771 2.52E-02 6 30

WNU8 0.787 2.04E-02 6 13 WNU8 0.754 3.07E-02 6 22

WNU8 0.732 2.50E-02 1 28 WNU8 0.769 1.55E-02 1 15

WNU8 0.812 7.80E-03 1 33 WNU8 0.703 2.32E-02 5 27

WNU8 0.857 1.54E-03 5 20 WNU8 0.724 1.78E-02 5 18

WNU8 0.703 3.45E-02 3 31 WNU8 0.956 5.59E-05 3 30

WNU8 0.782 1.28E-02 3 9 WNU8 0.748 2.04E-02 3 23

WNU8 0.860 2.94E-03 3 22 WNU9 0.703 3.47E-02 3 35

WNU9 0.709 3.26E-02 3 36 WNU9 0.735 2.42E-02 3 9

Table 21. "Corr. ID " - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

Table 22

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under normal or low nitrogen fertilization conditions across barley accessions (reproductive developmental stages)

Ex Corr.

Gene Gene Exp Corr.

R P value Set R P value

Name P- Name . set Set ID set ID

1.31E- 1.77E-

LAB21 0.747 2 34 LAB21 0.725 3 4

02 02

1.95E- 2.08E-

LAB21 0.718 3 3 LAB21 0.712 1 11

02 02

7.27E- 2.17E-

LAB21 0.882 1 32 LAB446 0.709 5 23

04 02

2.03E- 1.07E-

LYM316 0.714 6 13 LYM316 0.760 5 27

02 02

1.26E- 5.23E-

LYM316 0.749 5 26 LYM316 0.802 5 25

02 03

1.61E- 7.64E-

LYM316 0.732 4 13 LYM82 0.781 5 25

02 03 Ex Corr.

Gene Gene Exp Corr.

R P value R P value

Name P- Set

Name . set Set ID set ID

1.17E- 1.76E-

LYM82 0.754 5 24 LYM82 0.725 5 16

02 02

6.01E- 1.23E-

WNUIO 0.795 6 13 WNUIO 0.865 3 35

03 03

1.92E- 3.44E-

WNUIO 0.719 3 11 WNUIO 0.823 3 36

02 03

1.31E- 8.87E-

WNUIO 0.746 5 35 WNUIO 0.772 5 11

02 03

1.52E- 7.81E-

WNUIO 0.736 5 36 WNU11 0.780 2 34

02 03

1.97E- 3.19E-

WNU11 0.717 2 18 WNU11 0.827 2 24

02 03

1.66E- 1.79E-

WNU11 0.854 2 16 WNU11 0.724 3 10

03 02

1.21E- 1.53E-

WNU11 0.752 3 11 WNU11 0.736 3 36

02 02

1.16E- 1.30E-

WNU11 0.755 3 32 WNU11 0.747 5 35

02 02

1.03E- 1.44E-

WNU11 0.763 5 15 WNU11 0.922 1 35

02 04

2.62E- 8.09E-

WNU11 0.835 1 11 WNU11 0.778 1 1

03 03

1.60E- 4.25E-

WNU11 0.920 1 36 WNU12 0.813 3 7

04 03

2.13E- 9.23E-

WNU14 0.710 3 6 WNU14 0.770 3 29

02 03

1.29E- 5.38E-

WNU14 0.748 3 3 WNU14 0.801 5 14

02 03

1.40E- 8.71E-

WNU15 0.742 3 7 WNU15 0.773 3 1

02 03

2.36E- 5.67E-

WNU15 0.702 1 11 WNU16 0.798 2 18

02 03

2.04E- 1.09E-

WNU16 0.714 2 16 WNU16 0.759 3 2

02 02

2.19E- 2.28E-

WNU16 0.708 4 24 WNU16 0.841 4 16

02 03

1.28E- 9.81E-

WNU17 0.748 2 34 WNU17 0.766 3 5

02 03

1.24E- 8.26E-

WNU17 0.750 4 16 WNU17 0.878 1 7

02 04

5.80E- 2.15E-

WNU17 0.797 1 17 WNU17 0.710 1 24

03 02

6.21E- 1.01E-

WNU17 0.793 1 16 WNU17 0.764 1 5

03 02

1.71E- 1.45E-

WNU18 0.728 6 34 WNU18 0.859 6 11

02 03

1.41E- 1.61E-

WNU18 0.741 6 5 WNU19 0.732 2 35

02 02 Ex Corr.

Gene Gene Exp Corr.

R P value R P value

Name P- Set

Name . set Set ID set ID

1.52E- 2.20E-

WNU19 0.736 2 11 WNU19 0.708 2 14

02 02

8.44E- 1.69E-

WNU19 0.775 2 3 WNU19 0.728 6 34

03 02

6.37E- 1.14E-

WNU19 0.792 6 11 WNU19 0.756 6 1

03 02

1.66E- 9.66E-

WNU19 0.730 6 24 WNU19 0.767 6 3

02 03

2.40E- 1.28E-

WNU19 0.839 3 35 WNU19 0.864 3 11

03 03

2.33E- 5.65E-

WNU19 0.912 3 36 WNU19 0.798 5 35

04 03

7.52E- 1.81E-

WNU19 0.782 5 11 WNU19 0.723 5 1

03 02

4.97E- 2.15E-

WNU19 0.805 5 36 WNU19 0.710 5 32

03 02

1.64E- 1.91E-

WNU19 0.731 4 34 WNU19 0.848 4 11

02 03

4.51E- 9.85E-

WNU19 0.896 1 35 WNU19 0.873 1 11

04 04

3.90E- 3.63E-

WNU19 0.900 1 27 WNU19 0.902 1 36

04 04

2.92E- 1.14E-

WNU19 0.907 1 26 WNU19 0.756 1 16

04 02

2.38E- 5.46E-

WNU20 0.701 2 20 WNU20 0.800 2 9

02 03

4.45E- 1.28E-

WNU20 0.811 2 22 WNU20 0.863 6 26

03 03

1.60E- 2.08E-

WNU20 0.733 4 20 WNU20 0.712 4 9

02 02

5.59E- 3.96E-

WNU20 0.799 4 22 WNU21 0.816 2 26

03 03

5.94E- 8.60E-

WNU21 0.795 3 28 WNU21 0.774 3 29

03 03

1.03E- 6.81E-

WNU22 0.763 6 26 WNU23 0.788 6 34

02 03

5.80E- 1.08E-

WNU23 0.797 6 11 WNU23 0.760 6 5

03 02

6.88E- 8.61E-

WNU23 0.884 5 11 WNU23 0.774 5 36

04 03

8.87E- 2.04E-

WNU23 0.772 5 32 WNU25 0.714 6 35

03 02

1.07E- 1.31E-

WNU25 0.760 6 11 WNU25 0.747 6 13

02 02

7.49E- 1.11E-

WNU25 0.782 6 5 WNU25 0.758 5 35

03 02

5.54E- 9.35E-

WNU25 0.799 5 11 WNU25 0.769 5 36

03 03 Ex Corr.

Gene Gene Exp Corr.

R P value R P value

Name P- Set

Name . set Set ID set ID

2.28E- 2.76E-

WNU25 0.705 4 35 WNU25 0.833 4 11

02 03

1.22E- 1.55E-

WNU25 0.752 4 5 WNU27 0.735 2 3

02 02

1.01E- 2.11E-

WNU27 0.764 3 7 WNU27 0.711 3 5

02 02

6.18E- 2.77E-

WNU27 0.793 4 16 WNU28 0.908 2 24

03 04

2.40E- 2.07E-

WNU28 0.839 2 16 WNU28 0.713 6 28

03 02

4.76E- 8.16E-

WNU28 0.807 3 14 WNU28 0.777 3 33

03 03

9.24E- 9.62E-

WNU28 0.770 5 14 WNU28 0.767 5 33

03 03

2.13E- 1.88E-

WNU28 0.710 4 28 WNU28 0.720 1 35

02 02

8.01E- 3.66E-

WNU28 0.879 1 11 WNU28 0.820 1 36

04 03

4.26E- 7.45E-

WNU28 0.813 1 15 WNU28 0.783 1 32

03 03

4.86E- 8.89E-

WNU28 0.806 1 12 WNU30 0.772 2 34

03 03

3.68E- 1.64E-

WNU30 0.820 3 35 WNU30 0.854 3 10

03 03

4.21E- 8.96E-

WNU30 0.813 3 36 WNU30 0.876 5 17

03 04

7.19E- 4.79E-

WNU30 0.785 5 16 WNU30 0.807 1 1

03 03

9.63E- 2.19E-

WNU31 0.767 2 7 WNU31 0.708 5 14

03 02

1.19E- 1.16E-

WNU31 0.753 4 11 WNU32 0.755 5 35

02 02

1.87E- 4.95E-

WNU32 0.721 5 36 WNU32 0.805 4 26

02 03

8.39E- 2.15E-

WNU32 0.776 1 35 WNU33 0.710 2 35

03 02

6.68E- 2.27E-

WNU33 0.789 2 13 WNU33 0.705 3 5

03 02

1.92E- 2.32E-

WNU33 0.718 5 35 WNU33 0.704 5 36

02 02

1.14E- 1.92E-

WNU33 0.756 4 18 WNU33 0.719 4 16

02 02

1.99E- 1.79E-

WNU33 0.716 1 30 WNU34 0.724 3 32

02 02

2.38E- 4.56E-

WNU34 0.701 3 5 WNU34 0.809 5 35

02 03

8.84E- 4.18E-

WNU34 0.772 5 11 WNU34 0.814 5 36

03 03 Ex Corr.

Gene Gene Exp Corr.

R P value R P value

Name P- Set

Name . set Set ID set ID

1.93E- 1.44E-

WNU34 0.848 1 11 WNU34 0.740 1 36

03 02

9.33E- 3.57E-

WNU34 0.769 1 32 WNU34 0.821 1 12

03 03

1.71E- 1.11E-

WNU35 0.727 6 34 WNU35 0.758 6 16

02 02

2.30E- 6.71E-

WNU35 0.704 3 28 WNU35 0.789 3 31

02 03

3.47E- 1.11E-

WNU35 0.823 3 29 WNU35 0.758 5 25

03 02

1.88E- 2.37E-

WNU35 0.720 4 13 WNU36 0.702 2 14

02 02

2.75E- 7.67E-

WNU36 0.833 6 24 WNU36 0.781 6 16

03 03

2.94E- 1.53E-

WNU36 0.830 5 27 WNU36 0.736 5 17

03 02

3.32E- 4.00E-

WNU36 0.825 5 26 WNU36 0.816 5 16

03 03

1.35E- 1.01E-

WNU37 0.745 2 34 WNU37 0.764 6 11

02 02

1.76E- 1.65E-

WNU37 0.725 6 7 WNU37 0.730 6 24

02 02

9.40E- 2.75E-

WNU37 0.768 6 16 WNU37 0.833 3 15

03 03

2.30E- 4.22E-

WNU37 0.704 5 33 WNU37 0.813 1 32

02 03

1.79E- 3.77E-

WNU38 0.724 2 9 WNU38 0.819 6 20

02 03

5.90E- 8.75E-

WNU38 0.889 6 30 WNU38 0.773 3 31

04 03

6.83E- 1.04E-

WNU38 0.788 5 35 WNU38 0.762 5 11

03 02

5.65E- 2.09E-

WNU38 0.798 5 36 WNU38 0.712 1 28

03 02

1.81E- 1.69E-

WNU38 0.723 1 29 WNU38 0.853 1 21

02 03

8.37E- 1.07E-

WNU39 0.776 6 26 WNU39 0.760 6 16

03 02

2.15E- 1.39E-

WNU39 0.710 3 10 WNU39 0.742 3 36

02 02

5.92E- 2.58E-

WNU39 0.796 5 35 WNU39 0.836 5 11

03 03

9.40E- 7.61E-

WNU39 0.874 5 36 WNU39 0.881 1 11

04 04

4.06E- 2.08E-

WNU39 0.815 1 36 WNU39 0.845 1 32

03 03

2.24E- 6.93E-

WNU39 0.842 1 12 WNU39 0.787 1 4

03 03 Ex Corr.

Gene Gene Exp Corr.

R P value Set R P value

Name P- Name . set Set ID set ID

8.63E- 2.39E-

WNU39 0.774 1 3 WNU40 0.701 2 34

03 02

2.19E- 8.37E-

WNU40 0.708 2 11 WNU40 0.776 2 5

02 03

2.40E- 2.25E-

WNU40 0.839 6 26 WNU40 0.706 5 35

03 02

1.21E- 2.20E-

WNU40 0.752 5 36 WNU41 0.843 3 35

02 03

6.11E- 1.50E-

WNU41 0.794 3 36 WNU41 0.858 3 18

03 03

1.89E- 6.86E-

WNU41 0.720 5 30 WNU41 0.787 5 33

02 03

1.25E- 2.11E-

WNU41 0.750 5 9 WNU41 0.711 5 23

02 02

1.20E- 7.64E-

WNU41 0.753 1 2 WNU41 0.781 1 1

02 03

1.42E- 1.16E-

WNU42 0.741 6 26 WNU43 0.755 2 20

02 02

1.22E- 4.15E-

WNU43 0.752 2 9 WNU43 0.814 2 22

02 03

2.22E- 1.64E-

WNU43 0.707 1 15 WNU43 0.854 1 33

02 03

1.01E- 1.16E-

WNU44 0.764 3 35 WNU44 0.755 3 11

02 02

7.78E- 3.26E-

WNU44 0.780 3 36 WNU44 0.826 5 2

03 03

6.33E- 9.45E-

WNU8 0.792 2 28 WNU8 0.768 6 11

03 03

2.19E- 9.22E-

WNU8 0.708 6 1 WNU8 0.931 3 15

02 05

1.09E- 2.28E-

WNU8 0.759 5 11 WNU8 0.705 5 36

02 02

2.20E- 6.31E-

WNU8 0.843 4 7 WNU8 0.887 4 18

03 04

8.51E- 6.88E-

WNU8 0.775 4 5 WNU8 0.787 1 27

03 03

2.16E- 6.77E-

WNU8 0.914 1 15 WNU8 0.788 1 26

04 03

6.38E- 2.18E-

WNU9 0.791 2 7 WNU9 0.709 2 13

03 02

1.25E- 1.11E-

WNU9 0.750 2 5 WNU9 0.758 6 34

02 02

9.84E- 1.19E-

WNU9 0.766 6 11 WNU9 0.866 6 5

03 03

1.24E- 8.67E-

WNU9 0.750 3 5 WNU9 0.773 5 11

02 03

2.25E- 3.68E-

WNU9 0.706 5 36 WNU9 0.820 4 35

02 03 Ex Corr.

Gene Gene Exp Corr.

R P value Set R P value

Name P- Name . set Set ID set ID

1.88E-

WNU9 0.720 4 11

02

Table 22. "Corr. ID " - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value. EXAMPLE 7

PRODUCTION OF SORGHUM TRANSCRIPTOME AND HIGH THROUGHPUT CORRELATION ANALYSIS WITH YIELD, NUE, AND ABST RELATED

PARAMETERS MEASURED IN FIELDS USING 44K SORGUHM

OLIGONUCLEOTIDE MICRO-ARRAYS

In order to produce a high throughput correlation analysis between plant phenotype and gene expression level, the present inventors utilized a sorghum oligonucleotide micro- array, produced by Agilent Technologies [chem. (dot) agilent (dot) com/Scripts/PDS (dot) asp?lPage=50879]. The array oligonucleotide represents about 44,000 sorghum genes and transcripts. In order to define correlations between the levels of RNA expression with ABST, yield and NUE components or vigor related parameters, various plant characteristics of 17 different sorghum hybrids were analyzed. Among them, 10 hybrids encompassing the observed variance were selected for RNA expression analysis. The correlation between the RNA levels and the characterized parameters was analyzed using Pearson correlation test [davidmlane (dot) com/hyperstat/A34739 (dot) html].

Correlation of Sorghum varieties across ecotypes grown under regular growth conditions, severe drought conditions and low nitrogen conditions

Experimental procedures

17 Sorghum varieties were grown in 3 repetitive plots, in field. Briefly, the growing protocol was as follows:

/. Regular growth conditions: sorghum plants were grown in the field using commercial fertilization and irrigation protocols (370 liter per meter , fertilization of 14 units of 21% urea per entire growth period).

2. Drought conditions: sorghum seeds were sown in soil and grown under normal condition until around 35 days from sowing, around stage V8 (eight green leaves are fully expanded, booting not started yet). At this point, irrigation was stopped, and severe drought stress was developed. 3. Low Nitrogen fertilization conditions: sorghum plants were fertilized with 50% less amount of nitrogen in the field than the amount of nitrogen applied in the regular growth treatment. All the fertilizer was applied before flowering.

Analyzed Sorghum tissues - All 10 selected Sorghum hybrids were sampled per each treatment. Tissues [Flag leaf, Flower meristem and Flower] from plants growing under normal conditions, severe drought stress and low nitrogen conditions were sampled and RNA was extracted as described above. Each micro-array expression information tissue type has received a Set ID as summarized in Table 23 below.

Table 23

Sorghum transcriptome expression sets in field experiments

Table 23: Provided are the sorghum transcriptome expression sets. Flag leaf = the leaf below the flower; Flower meristem = Apical meristem following panicle initiation; Flower = the flower at the anthesis day.

The following parameters were collected using digital imaging system:

Average Grain Area (cm ) - At the end of the growing period the grains were separated from the Plant 'Head' . A sample of -200 grains were weighted, photographed and images were processed using the below described image processing system. The grain area was measured from those images and was divided by the number of grains.

Average Grain Length (cm) - At the end of the growing period the grains were separated from the Plant 'Head' . A sample of -200 grains were weighted, photographed and images were processed using the below described image processing system. The sum of grain lengths (longest axis) was measured from those images and was divided by the number of grains.

Grain size was also measured after dividing the grains into two groups according to their size (lower and upper groups) Head Average Area (cm ) - At the end of the growing period 5 'Heads' were, photographed and images were processed using the below described image processing system. The 'Head' area was measured from those images and was divided by the number of 'Heads'.

Head Average Length (cm) - At the end of the growing period 5 'Heads' were, photographed and images were processed using the below described image processing system. The 'Head' length (longest axis) was measured from those images and was divided by the number of 'Heads'.

An image processing system was used, which consists of a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.37, Java based image processing software, which was developed at the U.S. National Institutes of Health and is freely available on the internet at rsbweb (dot) nih (dot) gov/. Images were captured in resolution of 10 Mega Pixels (3888x2592 pixels) and stored in a low compression JPEG (Joint Photographic Experts Group standard) format. Next, image processing output data for seed area and seed length was saved to text files and analyzed using the JMP statistical analysis software (SAS institute).

Additional parameters were collected either by sampling 5 plants per plot or by measuring the parameter across all the plants within the plot.

Total Seed Weight per Head (gr.) - At the end of the experiment (plant 'Heads') heads from plots within blocks A-C were collected. 5 heads were separately threshed and grains were weighted, all additional heads were threshed together and weighted as well. The average grain weight per head was calculated by dividing the total grain weight by number of total heads per plot (based on plot). In case of 5 heads, the total grains weight of 5 heads was divided by 5.

FW Head per Plant gram - At the end of the experiment (when heads were harvested) total heads and 5 selected heads per plots within blocks A-C were collected separately. The heads (total and 5) were weighted (gr.) separately, and the average fresh weight per plant was calculated for total (FW Head/Plant gr. based on plot) and for 5 (FW Head/Plant gr. based on 5 plants) heads.

Plant height - Plants were characterized for height during growing period at 5 time points. In each measure, plants were measured for their height using a measuring tape. Height was measured from ground level to top of the longest leaf. Plant leaf number - Plants were characterized for leaf number during growing period at 5 time points. In each measure, plants were measured for their leaf number by counting all the leaves of 3 selected plants per plot.

Growth Rate - was calculated using Formulas III (above) and VIII (above). SPAD - Chlorophyll content was determined using a Minolta SPAD 502 chlorophyll meter and measurement was performed 64 days post sowing. SPAD meter readings were done on young fully developed leaf. Three measurements per leaf were taken per plot.

Vegetative dry weight and Heads - At the end of the experiment (when inflorescence were dry) all inflorescence and vegetative material from plots within blocks A-C were collected. The biomass and heads weight of each plot was separated, measured and divided by the number of heads.

Dry weight = total weight of the vegetative portion above ground (excluding roots) after drying at 70 °C in oven for 48 hours;

Harvest Index (HI) (Sorghum)- The harvest index was calculated using

Formula XVI described above.

FW Heads/(FW Heads + FW Plants) - The total fresh weight of heads and their respective plant biomass was measured at the harvest day. The heads weight was divided by the sum of weights of heads and plants.

Experimental Results

17 different sorghum hybrids were grown and characterized for different parameters (Table 24). The average for each of the measured parameter was calculated using the JMP software (Table 25) and a subsequent correlation analysis was performed (Table 26). Results were then integrated to the database.

Table 24

Sorghum correlated parameters (vectors)

Correlated parameter with Correlation ID

Average Grain Area (cm ² ), Drought 1

Average Grain Area (cm ² ), Low N 2

Average Grain Area (cm ² ), Normal 3

FW - Head/Plant gr (based on plot), Drought 4

FW - Head/Plant gr (based on plot), Low N 5

FW - Head/Plant gr (based on plot), Normal 6

FW - Head/Plant gr (based on 5 plants), Low N 7

FW - Head/Plant gr (based on 5 plants), Normal 8 Correlated parameter with Correlation ID

FW Heads / (FW Heads+ FW Plants)(all plot), Drought 9

FW Heads / (FW Heads+ FW Plants)(all plot), Low N 10

FW Heads / (FW Heads+ FW Plants)(all plot), Normal 11

FW/Plant gr (based on plot), Drought 12

FW/Plant gr (based on plot), Low N 13

FW/Plant gr (based on plot), Normal 14

Final Plant Height (cm), Drought 15

Final Plant Height (cm), Low N 16

Final Plant Height (cm), Normal 17

Head Average Area (cm ² ), Drought 18

Head Average Area (cm ² ), Low N 19

Head Average Area (cm ² ), Normal 20

Head Average Length (cm), Drought 21

Head Average Length (cm), Low N 22

Head Average Length (cm), Normal 23

Head Average Perimeter (cm), Drought 24

Head Average Perimeter (cm), Low N 25

Head Average Perimeter (cm), Normal 26

Head Average Width (cm), Drought 27

Head Average Width (cm), Low N 28

Head Average Width (cm), Normal 29

Leaf SPAD 64 DPS (Days Post Sowing), Drought 30

Leaf SPAD 64 DPS (Days Post Sowing), Low N 31

Leaf SPAD 64 DPS (Days Post Sowing), Normal 32

Lower Ratio Average Grain Area, Low N 33

Lower Ratio Average Grain Area, Normal 34

Lower Ratio Average Grain Length, Low N 35

Lower Ratio Average Grain Length, Normal 36

Lower Ratio Average Grain Perimeter, Low N 37

Lower Ratio Average Grain Perimeter, Normal 38

Lower Ratio Average Grain Width, Low N 39

Lower Ratio Average Grain Width, Normal 40

Total grain weight /Head (based on plot) gr, Low N 41

Total grain weight /Head gr (based on 5 heads), Low N 42

Total grain weight /Head gr (based on 5 heads), Normal 43

Total grain weight /Head gr (based on plot), Normal 44

Total grain weight /Head gr,(based on plot) Drought 45

Upper Ratio Average Grain Area, Drought 46

Upper Ratio Average Grain Area, Low N 47

Upper Ratio Average Grain Area, Normal 48

[Grain Yield+plant biomass/SPAD 64 DPS], Normal 49

[Grain Yield+plant biomass/SPAD 64 DPS], Low N 50

[Grain yield /SPAD 64 DPS], Low N 51

[Grain yield /SPAD 64 DPS], Normal 52

[Plant biomass (FW)/SPAD 64 DPS], Drought 53

[Plant biomass (FW)/SPAD 64 DPS], Low N 54

[Plant biomass (FW)/SPAD 64 DPS], Normal 55

Table 24. Provided are the Sorghum correlated parameters (vectors), "gr." = grams; "SPAD" = chlorophyll levels; "FW" = Plant Fresh weight; "DW"= Plant Dry weight; "normal" = standard growth conditions; "DPS" = days post-sowing; "Low N" = Low Nitrogen .FW - Head/Plant gr. (based on 5 plants), fresh weigh of the harvested heads was divided by the number of heads that were phenotyped, Low N-low nitrogen conditions: Lower Ratio Average Grain Area grain area of the lower fraction of grains.

Table 25

Measured parameters in Sorghum accessions under normal, low N and drought conditions

See

d

ID/ L- L- L- L- L- L- L- L-

L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

Cor 10 11 12 13 14 15 16 17 r.

ID

3 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 f. 175 223 56. 1 1 1 67. 66. 126 107 123 102 82. 77. 91. 150 109 107 130

0

.2 .5 4 .6 3 9 .2 .7 .9 .8 3 6 2 .4 .1 .6 .9 o 406 518 148 423 92. 101 423 386 409 329 391 435 429 441 415 429 428 o

.5 .0 .0 .0 0 .3 .5 .5 .5 .0 .0 .8 .5 .0 .8 .5 .5

1 1 0.5 0.5 0.1 0.3 0.1 0.2 0.5 0.4 0.4 0.4 0.5 0.4 0.4 0.5 0.5 0.4 0.4

162 212 334 313 462 318 151 137 168 129 97. 99. 1 12 157 130 135 209

14

.6 .6 .8 .5 .3 .3 .1 .6 .0 .0 6 3 .2 .4 .5 .7 .2

95. 79. 197 234 189 194 1 17 92. 1 12 97. 98. 100 105 151 1 17 124 126

17

3 2 .9 .2 .4 .7 .3 8 .7 5 0 .0 .6 .2 .1 .5 .5

120 167 85. 157 104 102 168 109 135 169 156 1 12 154 171 168 162 170

20

.1 .6 1 .3 .0 .5 .5 .3 .1 .0 .1 .1 .7 .7 .5 .5 .5

25. 26. 21. 26. 23. 21. 31. 23. 25. 28. 28. 23. 28. 30. 30. 27. 29.

23

6 8 0 8 1 8 3 2 7 8 1 0 1 0 5 2 3

61. 67. 56. 65. 67. 67. 74. 56. 61. 71. 68. 56. 67. 71. 78. 67. 74.

26

2 9 3 4 5 5 4 2 6 4 6 4 8 5 9 0 1

29 6.0 7.9 4.9 7.4 5.6 5.9 6.8 6.0 6.6 7.4 7.0 6.2 7.0 7.2 7.0 7.4 7.4

43. 43. 44. 45. 41. 45. 45. 43. 45. 44. 45. 46. 44. 45. 45. 43.

32

0 3 7 8 6 2 1 0 6 8 3 5 0 1 1 1

34 0.8 0.7 0.8 0.8 0.7 0.7 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8

36 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9

38 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9

40 0.9 0.8 0.8 0.9 0.8 0.8 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9

47. 46. 28. 70. 32. 49. 63. 44. 56. 60. 45. 58. 70. 70. 54. 59. 52.

43

4 3 4 4 2 2 5 5 7 0 5 2 6 1 0 9 7

31. 26. 18. 38. 26. 28. 47. 31. 40. 38. 32. 32. 32. 51. 35. 38. 42.

44

1 4 7 4 7 8 7 0 0 4 1 7 8 5 7 3 4

48 1.2 1.3 1.1 1.1 1.2 1.1 1.2 1.2 1.2 1.2 1.3 1.2 1.2 1.2 1.2 1.3 1.2

10.

49 4.5 8.2 7.9 8.3 4.4 3.7 4.8 3.7 2.9 2.9 3.1 4.8 3.7 3.9 5.8

7

10.

52 3.8 7.7 7.0 7.6 3.3 3.0 3.9 2.8 2.2 2.2 2.4 3.6 2.9 3.0 4.9

1

55 0.7 0.4 0.9 0.6 0.7 1.1 0.7 0.9 0.8 0.7 0.7 0.7 1.2 0.8 0.8 1.0

2 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 c 214 205 73. 123 153 93. 134 77. 129 99. 76. 84. 92. 138 1 13 95. 129

J

.8 .0 5 .0 .1 2 .1 4 .6 8 9 2 2 .8 .3 5 .5 See

d

ID/ L- L- L- L- L- L- L- L-

L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

Cor 10 11 12 13 14 15 16 17 r.

ID

388 428 297 280 208 303 436 376 474 437 383 375 425 434 408 378 432

1

.0 .7 .7 .0 .3 .7 .0 .3 .7 .7 .0 .0 .0 .0 .7 .5 .0

10 0.5 0.5 0.2 0.4 0.2 0.2 0.5 0.4 0.4 0.4 0.4 0.4 0.4 0.4 0.4 0.4 0.4

204 199 340 240 537 359 149 129 178 124 101 132 117 177 143 127 180

13

.8 .6 .5 .6 .8 .4 .2 .1 .7 .3 .3 .1 .9 .0 .7 .0 .4

104 80. 204 125 225 208 121 100 121 94. 110 115 104 173 115 138 144

16

.0 9 .7 .4 .4 .1 .4 .3 .1 5 .0 .1 .7 .7 .6 .8 .4

96. 214 98. 182 119 110 172 84. 156 136 137 96. 158 163 138 135 165

19

2 .7 6 .8 .6 .2 .4 8 .3 .7 .7 5 .2 .9 .4 .5 .6

23. 25. 20. 28. 24. 22. 32. 20. 26. 26. 25. 23. 27. 28. 27. 25. 30.

22

2 6 9 4 3 6 1 4 7 3 4 1 9 9 6 5 3

56. 79. 53. 76. 67. 59. 79. 51. 69. 66. 67. 57. 70. 73. 66. 65. 76.

25

3 2 3 2 3 5 3 5 9 2 4 9 6 8 9 4 0

10.

28 5.3 5.9 8.3 6.2 6.1 6.8 5.3 7.5 6.6 6.9 5.3 7.2 7.2 6.3 6.6 6.8

4

38. 39. 42. 40. 43. 39. 42. 43. 39. 42. 40. 44. 45. 44. 42. 43. 46.

31

3 0 3 9 2 9 7 3 0 7 1 0 4 8 6 8 7

33 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.8 0.7 0.8 0.8 0.8 0.8 0.8 0.8

35 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9

37 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9

39 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.9 0.8 0.9 0.9 0.9 0.9 0.9 0.9

25. 30. 19. 35. 25. 22. 50. 27. 51. 36. 29. 26. 29. 51. 37. 39. 41.

41

9 6 4 6 2 2 0 5 1 8 4 7 4 1 0 9 8

50. 50. 36. 73. 37. 36. 71. 35. 76. 57. 42. 36. 68. 71. 49. 43. 52.

42

3 9 1 1 9 4 7 0 7 6 9 5 6 8 3 9 1

47 1.2 1.3 1.1 1.2 1.2 1.2 1.2 1.2 1.2 1.2 1.2 1.2 1.2 1.2 1.3 1.2 1.2

13.

50 6.0 5.9 8.5 6.8 9.6 4.7 3.6 5.9 3.8 3.3 3.6 3.2 5.1 4.2 3.8 4.8

1

51 0.7 0.8 0.5 0.9 0.6 0.6 1.2 0.6 1.3 0.9 0.7 0.6 0.6 1.1 0.9 0.9 0.9

12.

54 5.3 5.1 8.0 5.9 9.0 3.5 3.0 4.6 2.9 2.5 3.0 2.6 4.0 3.4 2.9 3.9

5

1 0.1 0.1 0.1 0.1 0.1 0.1

154 122 130 241 69. 186 62. 39. 58. 76. 33. 42. 41. 131 60. 44. 185

.9 .0 .5 .1 0 .4 1 0 9 4 5 2 5 .7 8 3 .4

9 0.4 0.5 0.4 0.4 0.2 0.3 0.4 0.4 0.4 0.4 0.5 0.5 0.5 0.4 0.3 0.2 0.3

208 138 255 402 233 391 89. 50. 87. 120 37. 48. 44. 231 116 123 342

12

.0 .0 .4 .2 .5 .7 3 6 0 .4 2 2 2 .6 .0 .1 .5

89. 75. 92. 94. 150 110 99. 84. 99. 92. 81. 98. 86. 99. 83. 83. 92.

15

4 7 1 3 .8 .7 2 0 0 2 9 8 5 6 0 5 3

83. 107 88. 135 90. 124 86. 85. 113 100 80. 126 86. 92. 77. 76.

18

1 .8 7 .9 8 .0 1 2 .1 .8 4 .9 4 3 9 9

21. 21. 21. 22. 21. 28. 21. 20. 24. 24. 21. 25. 19. 20. 16. 18.

21

6 9 6 0 0 6 3 8 7 3 9 0 5 4 8 9

52. 64. 56. 64. 53. 71. 55. 53. 69. 65. 55. 69. 53. 56. 49. 51.

24

8 5 6 4 2 7 6 0 8 1 3 1 3 3 1 9 See

d

ID/ L- L- L- L- L- L- L- L-

L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

Cor 10 11 12 13 14 15 16 17 r.

ID

27 4.8 6.3 5.2 7.8 5.3 5.5 5.0 5.1 5.8 5.4 4.7 6.3 5.6 5.8 5.9 5.1

40. 40. 45. 42. 45. 40. 44. 45. 40. 45. 42. 44. 44. 42. 43. 40. 40.

30

6 9 0 3 2 6 8 1 7 4 6 2 6 4 3 3 8

22. 16. 104 22. 10. 18. 29. 10. 14. 12. 18. 11. 18. 16.

45 9.2 3.2

1 8 .4 0 0 6 3 5 8 9 2 6 6 4

46 1.3 1.2 1.3 1.5 1.2 1.2

53 5.1 3.4 5.7 9.5 5.2 9.7 2.0 1.1 2.1 2.7 0.9 1.1 1.0 5.5 2.7 3.1 8.4

Table 25: Provided are the values of each of the parameters (as described above) measured in Sorghum accessions (Seed ID) under normal, low N and drought conditions. Growth conditions are specified in the experimental procedure section.

Table 26

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under normal or low nitrogen fertilization conditions across sorghum accessions

Ex Cor.

Gene Gene Exp Cor.

R P value value

Name V- Set R P

Name . set Set ID set ID

0.89 1.33E-

LAB101 4.69E-04 6 32 LAB 101 0.862 6 38

5 03

0.82 1.34E-

LAB101 3.56E-03 9 32 LAB 101 0.745 9 40

1 02

0.92 1.77E-

LAB101 1.07E-04 9 38 LAB 101 0.725 9 36

8 02

0.74 2.31E-

LAB101 1.28E-02 9 34 LAB 101 0.704 2 31

8 02

0.72 9.01E-

LAB101 1.89E-02 3 17 LAB 572 0.771 6 48

0 03

0.76 2.15E-

LAB572 1.04E-02 6 3 LAB 572 0.914 2 41

2 04

0.78 2.38E-

LAB572 7.57E-03 2 22 LAB 572 0.701 2 42

2 02

0.85 7.34E-

LAB572 1.86E-03 2 51 LAB 572 0.882 2 16

0 04

0.84 1.55E-

LAB572 2.08E-03 8 2 LAB 572 0.735 3 44

5 02

WNU10 0.81 3.34E-

4.24E-03 9 17 WNU100 0.904 2 16 0 3 04

WNU10 0.72 1.66E-

1.83E-02 8 16 WNU101 0.730 6 48 0 3 02

WNU10 0.78 2.00E-

6.65E-03 2 47 WNU101 0.715 2 28 1 9 02 Ex Cor.

Gene Gene Exp Cor.

R P value Se R P value

Name V- t

Name . set Set ID set ID

WNU10 0.78 3.78E-

7.31E-03 3 48 WNU105 0.819 6 52 1 4 03

WNU10 0.79 1.04E-

5.76E-03 6 49 WNU105 0.762 2 51 5 7 02

WNU10 0.82 2.20E-

3.28E-03 5 2 WNU3 0.708 2 7 5 5 02

0.86 3.15E-

WNU3 1.33E-03 2 41 WNU3 0.827 2 22

2 03

0.79 6.73E-

WNU3 6.52E-03 2 42 WNU3 0.788 2 51

0 03

0.80 1.27E-

WNU3 5.08E-03 2 16 WNU3 0.749 5 2

4 02

0.91 2.32E-

WNU3 5.19E-04 3 52 WNU3 0.703 3 6

6 02

0.91 2.09E-

WNU3 5.37E-04 3 49 WNU3 0.712 1 4

5 02

0.78 1.75E-

WNU90 6.81E-03 2 47 WNU90 0.726 2 28

8 02

0.74 6.38E-

WNU91 1.26E-02 6 44 WNU91 0.886 4 53

9 04

0.75 6.30E-

WNU91 1.20E-02 4 4 WNU91 0.887 4 12

3 04

0.73 1.95E-

WNU91 1.48E-02 5 5 WNU91 0.718 5 54

8 02

0.77 5.10E-

WNU91 8.20E-03 5 50 WNU91 0.804 5 13

7 03

0.82 1.85E-

WNU92 3.44E-03 6 14 WNU93 0.722 6 17

3 02

0.77 2.68E-

WNU93 9.09E-03 6 40 WNU93 0.834 6 44

1 03

0.72 4.23E-

WNU93 1.75E-02 6 36 WNU93 0.813 6 34

6 03

0.72 1.68E-

WNU93 1.87E-02 2 33 WNU93 0.729 2 39

1 02

0.80 1.41E-

WNU93 4.84E-03 2 37 WNU93 0.741 2 16

6 02

0.78 1.97E-

WNU93 6.65E-03 8 33 WNU93 0.717 8 41

9 02

0.71 3.04E-

WNU93 2.05E-02 8 39 WNU93 0.829 8 35

3 03

0.81 1.49E-

WNU93 3.91E-03 8 42 WNU93 0.737 8 51

7 02

0.89 1.22E-

WNU93 4.12E-04 8 37 WNU93 0.751 5 33

8 02

0.71 1.31E-

WNU93 2.06E-02 5 39 WNU93 0.747 5 35

3 02

0.78 9.01E-

WNU93 7.02E-03 5 42 WNU93 0.876 1 15

6 04 Ex Cor.

Gene Gene Exp Cor.

R P value Set R P value

Name V- Name . set Set ID set ID

0.74 1.08E-

WNU94 1.40E-02 6 11 WNU94 0.759 6 44

2 02

0.78 1.53E-

WNU94 7.11E-03 4 15 WNU94 0.736 5 16

5 02

0.71 1.26E-

WNU96 1.97E-02 6 44 WNU97 0.749 6 17

7 02

0.73 1.46E-

WNU97 2.36E-02 9 52 WNU97 0.773 9 49

6 02

0.96 8.35E-

WNU97 9.57E-06 4 53 WNU97 0.878 4 4

1 04

0.96 2.42E-

WNU97 6.14E-06 4 12 WNU97 0.700 5 50

5 02

0.78 2.17E-

WNU97 7.85E-03 5 13 WNU98 0.843 6 17

0 03

0.81 8.62E-

WNU98 3.85E-03 6 44 WNU98 0.877 4 53

8 04

0.84 6.09E-

WNU98 1.98E-03 4 4 WNU98 0.888 4 12

7 04

0.82 8.05E-

WNU99 3.22E-03 6 17 WNU99 0.778 6 44

6 03

0.82 1.42E-

WNU99 3.45E-03 4 53 WNU99 0.741 4 4

3 02

0.83

WNU99 2.48E-03 4 12

8

Table 26. "Corr. ID " - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

EXAMPLE 8

PRODUCTION OF SORGHUM TRANSCRIPTOME AND HIGH THROUGHPUT

CORRELATION ANALYSIS WITH BIOMASS, NUE, AND ABST RELATED PARAMETERS MEASURED IN SEMI-HYDROPONICS CONDITIONS USING

44K SORGUHM OLIGONUCLEOTIDE MICRO-ARRAYS Sorghum vigor related parameters under low nitrogen, 100 mM NaCl, low temperature (10 ± 2 °C) and normal growth conditions - Ten Sorghum hybrids were grown in 3 repetitive plots, each containing 17 plants, at a net house under semi- hydroponics conditions. Briefly, the growing protocol was as follows: Sorghum seeds were sown in trays filled with a mix of vermiculite and peat in a 1: 1 ratio. Following germination, the trays were transferred to the high salinity solution (100 mM NaCl in addition to the Full Hoagland solution), low temperature (10 + 2 °C in the presence of Full Hoagland solution), low nitrogen solution (the amount of total nitrogen was reduced in 90% from the full Hoagland solution (i.e., to a final concentration of 10% from full Hoagland solution, final amount of 1.2 mM N) or at Normal growth solution (Full Hoagland containing 16 mM N solution, at 28 + 2 °C). Plants were grown at 28 + 2 °C.

Full Hoagland solution consists of: KN0 ₃ - 0.808 grams/liter, MgS0 ₄ - 0.12 grams/liter, KH ₂ P0 ₄ - 0.172 grams/liter and 0.01 % (volume/volume) of 'Super coratin' micro elements (Iron-EDDHA [ethylenediamine-N,N'-bis(2-hydroxyphenylacetic acid)]- 40.5 grams/liter; Mn - 20.2 grams/liter; Zn 10.1 grams/liter; Co 1.5 grams/liter; and Mo 1.1 grams/liter), solution's pH should be 6.5 - 6.8] .

Analyzed Sorghum tissues - All 10 selected Sorghum hybrids were sampled per each treatment. Three tissues [leaves, meristems and roots] growing at 100 mM NaCl, low temperature (10 + 2 °C), low Nitrogen (1.2 mM N) or under Normal conditions were sampled and RNA was extracted as described above. Each micro-array expression information tissue type has received a Set ID as summarized in Table 27 below.

Table 27

Sorghum transcriptome expression sets under semi hydroponics conditions

Table 27: Provided are the Sorghum transcriptome expression sets. Cold conditions = 10 + 2 °C; NaCl = 100 mM NaCl; low nitrogen =1.2 mM Nitrogen; Normal conditions = 16 mM Nitrogen.

Experimental Results

10 different Sorghum hybrids were grown and characterized for the following parameters: "Leaf No" = leaf number per plant (average of five plants); "Plant Height " = plant height [cm] (average of five plants); "DW Root/Plant " - root dry weight per plant (average of five plants); DW Shoot/Plant - shoot dry weight per plant (average of five plants) (Table 28). The average for each of the measured parameter was calculated using the JMP software and values are summarized in Table 29 below. Subsequent correlation analysis was performed (Table 30). Results were then integrated to the database.

Table 28

Sorghum correlated parameters (vectors)

Correlated parameter with Correlation ID

DW Root/Plant - 100 mM NaCl [gr] 1

DW Root/Plant - Cold [gr] 2

DW Root/Plant - Low Nitrogen [gr] 3

DW Root/Plant -Normal [gr] 4

DW Shoot/Plant - Low Nitrogen [gr] 5

DW Shoot/Plant - 100 mM NaCl [gr] 6

DW Shoot/Plant - Cold [gr] 7

DW Shoot/Plant - Normal [gr] 8

Leaf TP 1 - 100 mM NaCl 9

Leaf TP 1 - Cold 10

Leaf TP 1 - Low Nitrogen 11

Leaf TPl - Normal 12

Leaf TP2 - 100 mM NaCl 13

Leaf TP2 - Cold 14

Leaf TP2 - Low Nitrogen 15

Leaf TP2 - Normal 16

Leaf TP3 - 100 mM NaCl 17

Leaf TP3 - Cold 18

Leaf TP3 - Low Nitrogen 19

Leaf TP3 - Normal 20

Low N- NUE total biomass 21

Low N- Shoot/Root 22

Low N-NUE roots 23

Low N-NUE shoots 24

Low N-percent-root biomass compared to normal 25

Low N-percent-shoot biomass compared to normal 26

Low N-percent-total biomass reduction compared to normal 27

N level/ Leaf [Low Nitrogen] 28

N level/ Leaf [100 mM NaCl] 29

N level/ Leaf [Cold] 30

N level/ Leaf [Normal] 31

Normal- Shoot/Root 32

Normal-NUE roots 33

Normal-NUE shoots 34

Normal-NUE total biomass 35

Plant Height TP1 - 100 mM NaCl [cm ² ] 36

Plant Height TP1 - Cold[cm ² ] 37

Plant Height TP1 - Low Nitrogen [cm ² ] 38

Plant Height TP1 - Normal[cm ² ] 39

Plant Height TP2 - Cold[cm ² ] 40

Plant Height TP2 - Low Nitrogen [cm ² ] 41

Plant Height TP2 - Normal[cm ² ] 42 Correlated parameter with Correlation ID

Plant Height TP2 -100 mM NaCl[cm ² ] 43

Plant Height TP3 - 100 mM NaCl[cm ² ] 44

Plant Height TP3 - Low Nitrogen [cm ² ] 45

GR Leaf Num Normal [number/days] 46

Root Biomass [DW- gr.]/SPAD [100 mM NaCl] 47

Root Biomass [DW- gr.]/SPAD [Cold] 48

Root Biomass [DW- gr.]/SPAD [Low Nitrogen] 49

Root Biomass [DW- gr.]/SPAD [Normal] 50

SPAD - Cold 51

SPAD - Low Nitrogen 52

SPAD - Normal 53

SPAD 100 - mM NaCl 54

Shoot Biomass [DW- gr.]/SPAD [100 mM NaCl] 55

Shoot Biomass [DW- gr.]/SPAD [Cold] 56

Shoot Biomass [DW- gr.]/SPAD [Low Nitrogen] 57

Shoot Biomass [DW- gr.]/SPAD [Normal] 58

Total Biomass-Root+Shoot [DW- gr.]/SPAD [100 mM NaCl] 59

Total Biomass-Root+Shoot [DW- gr.]/SPAD [Cold] 60

Total Biomass-Root+Shoot [DW- gr.]/SPAD [Low Nitrogen] 61

Total Biomass-Root+Shoot[DW- gr.]/SPAD [Normal] 62

Table 28: Provided are the Sorghum correlated parameters. Cold conditions = 10 + 2 °C; NaCl = 100 mM NaCl; low nitrogen = 1.2 mM Nitrogen; Normal conditions = 16 mM Nitrogen * TPl-2-3 refers to time points 1, 2 and 3. The time period between TPl and TP2 is 8 days and between TP2 and TP3 is 7 days (between TPl and TP3 is 15 days).

Table 29

Sorghum accessions, measured parameters under different conditions

(as described above)

Corr.

ID

L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9 L-10 /Seed

ID

4 0.053 0.134 0.173 0.103 0.107 0.120 0.139 0.124 0.099 0.115

8 0.101 0.236 0.313 0.158 0.194 0.188 0.241 0.244 0.185 0.242

12 3.000 3.067 3.800 3.200 3.233 3.233 3.133 3.433 3.000 3.000

16 4.167 4.500 4.800 4.600 4.533 4.967 4.600 4.933 4.500 4.567

20 5.333 5.867 6.200 5.800 5.800 5.733 5.733 6.000 5.600 6.067

12.86 10.26

39 7.467 9.300 8.567 8.933 8.533 10.667 7.867 8.767

7 7

14.96 18.23 22.10 18.06 18.53 22.03 20.03

42 17.600 22.833 21.800 7 3 0 7 3 3 3

46 0.155 0.186 0.159 0.173 0.171 0.168 0.174 0.171 0.174 0.204

26.70 29.33 29.85 24.97 24.62 25.50 32.88

53 29.089 30.789 33.544 0 3 6 8 2 0 9

3 0.044 0.108 0.202 0.104 0.078 0.086 0.130 0.094 0.086 0.092

5 0.082 0.187 0.328 0.163 0.163 0.156 0.259 0.199 0.130 0.184

11 3.000 3.133 3.867 3.533 3.200 3.133 3.133 3.300 3.067 3.067

15 4.000 4.580 4.967 4.733 4.600 4.700 4.967 4.867 4.667 4.567

19 3.900 4.267 4.700 4.233 4.300 4.567 4.633 4.667 3.967 4.100 Corr.

ID

L-i L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9 L-10 /Seed

ID

12.70 10.10

38 6.733 9.767 8.667 9.767 9.233 10.267 7.933 8.233

0 0

13.30 20.63 23.70 19.33 19.20 22.13 18.20

41 18.033 21.867 21.000 0 3 0 3 0 3 0

22.23 31.06 34.66 30.83 29.86 32.40 29.36

45 30.033 30.867 30.700 3 7 7 3 7 0 7

26.87 28.02 29.64 29.61 26.82 28.21 30.47

52 31.522 28.478 27.633 8 2 4 1 2 3 8

1 0.050 0.104 0.124 0.069 0.076 0.075 0.135 0.095 0.165 0.139

6 0.094 0.186 0.202 0.137 0.130 0.133 0.154 0.189 0.099 0.124

9 3.000 3.133 3.400 3.067 3.333 3.067 3.067 3.267 3.000 3.067

13 4.000 4.367 4.867 4.600 4.500 4.533 4.500 4.767 4.320 4.200

17 4.000 4.133 4.567 4.433 4.067 4.333 4.133 4.500 3.780 4.200

10.93 10.36

36 7.900 9.500 7.933 9.700 8.533 8.900 7.000 7.833

3 7

14.20 16.26 20.36 15.90 16.53 18.93 13.68

43 13.333 15.467 15.767 0 7 7 0 3 3 0

21.80 23.16 30.36 23.70 23.30 26.83 20.28

44 22.833 22.467 23.567 0 7 7 0 0 3 0

32.73 35.14 27.96 34.53 29.98 31.85 32.51

54 30.933 32.089 34.322 3 4 7 3 9 6 3

2 0.068 0.108 0.163 0.093 0.084 0.114 0.137 0.127 0.108 0.139

7 0.078 0.154 0.189 0.112 0.130 0.165 0.152 0.150 0.112 0.141

10 3.000 3.000 3.500 3.167 3.400 3.200 3.133 3.067 3.067 3.000

14 3.900 4.133 4.633 4.167 4.267 4.233 4.200 4.300 4.167 4.000

18 4.733 5.333 5.433 5.500 5.333 5.067 4.500 5.400 5.367 5.182

10.40

37 6.500 8.767 6.800 9.033 9.000 7.967 9.167 6.500 7.227

0

11.16 15.86 18.43 16.03 14.63 17.26 13.43

40 12.200 14.600 13.909 7 7 3 3 3 7 3

28.62 30.31 27.04 28.27 29.88 28.63 31.71

51 32.278 32.467 29.557 2 1 4 8 9 3 1

30 6.047 5.683 4.978 5.869 5.302 5.899 7.215 5.302 5.909 5.704

48 0.002 0.004 0.006 0.003 0.003 0.004 0.004 0.004 0.003 0.005

56 0.003 0.005 0.007 0.003 0.005 0.006 0.005 0.005 0.004 0.005

60 0.005 0.009 0.013 0.006 0.008 0.009 0.009 0.010 0.007 0.009

27.52 64.12 115.2 52.21 35.10 63.72 47.02

21 58.017 84.575 59.998 8 4 31 9 3 8 9

22 1.875 1.707 1.731 1.568 2.096 1.815 2.062 2.097 1.504 1.999

23.53 43.87 16.88 12.44 20.52 18.75

23 9.647 22.580 28.194 20.086

8 7 6 0 8 6

17.88 40.58 71.35 35.33 22.66 43.20 28.27

24 35.436 56.381 39.912 1 6 4 3 3 0 3

84.52 80.95 117.0 100.51 72.53 71.77 76.05 86.82

25 93.472 80.511 8 4 04 9 8 7 1 0

81.57 79.16 104.7 103.49 83.70 83.21 107.68 81.38 70.30

26 75.859

3 4 54 7 7 5 9 6 0 Corr.

ID

-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9 L-10

/Seed

ID

82.58 79.81 109.1 102.31 79.73 78.76 102.49 79.58 76.07

27 77.355 5 2 04 7 7 7 2 8 3

28 6.892 6.568 6.307 7.446 6.886 5.873 6.146 6.046 7.683 6.740

49 0.002 0.004 0.007 0.003 0.003 0.003 0.005 0.003 0.003 0.003

57 0.003 0.007 0.011 0.005 0.005 0.006 0.009 0.007 0.004 0.007

61 0.005 0.011 0.018 0.008 0.008 0.009 0.014 0.010 0.007 0.010

29 8.183 8.503 6.124 6.977 8.492 6.921 7.763 7.079 8.601 8.172

47 0.002 0.003 0.004 0.002 0.002 0.003 0.004 0.003 0.005 0.004

55 0.003 0.005 0.007 0.004 0.004 0.004 0.005 0.006 0.003 0.004

59 0.004 0.008 0.012 0.007 0.006 0.007 0.009 0.009 0.008 0.008

31 5.006 5.000 4.815 5.015 4.307 4.295 5.370 4.250 5.873 5.529

32 1.984 1.936 1.897 1.586 1.813 1.579 1.759 1.988 1.895 2.198

33 0.861 2.193 2.828 1.694 1.755 1.960 2.275 2.036 1.086 1.881

34 1.653 3.866 5.137 2.582 3.183 3.081 3.948 4.003 2.022 3.968

35 2.514 6.059 7.964 4.276 4.939 5.041 6.223 6.038 3.108 5.849

50 0.002 0.005 0.006 0.004 0.004 0.005 0.005 0.005 0.003 0.003

58 0.004 0.008 0.010 0.005 0.008 0.008 0.008 0.010 0.006 0.007

62 0.006 0.013 0.016 0.009 0.012 0.012 0.012 0.014 0.009 0.011

Table 29 Provic ed are t le values of eac i of the parameters (as described above) measured in Sorghum accessions (Seed ID) under low nitrogen, cold, salinity and normal conditions. Growth conditions are specified in the experimental procedure section.

Table 30

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under different conditions as described above across sorghum accessions

Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

0.72

LAB101 6.82E-02 3 26 LAB572 0.749 5.25E-02 3 25

0

0.85

WNU100 1.45E-02 3 49 WNU100 0.783 3.75E-02 3 3

4

0.74

WNU100 5.70E-02 3 15 WNU100 0.890 7.31E-03 3 5

1

0.85

WNU100 1.34E-02 3 45 WNU100 0.835 1.95E-02 3 23

8

0.90

WNU100 5.03E-03 3 61 WNU100 0.903 5.32E-03 3 24

5

0.89

WNU100 5.89E-03 3 21 WNU100 0.895 6.44E-03 3 57

9

0.87

WNU100 1.01E-02 3 41 WNU101 0.864 1.23E-02 3 49

4

0.76

WNU101 4.41E-02 3 3 WNU101 0.762 4.67E-02 3 5

7 Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

0.84

WNUlOl 1.65E-02 3 61 WNUlOl 0.800 3.06E-02 3 57

6

0.81

WNUlOl 6.89E-03 2 50 WNUlOl 0.833 5.25E-03 2 35

9

0.82

WNUlOl 6.41E-03 2 34 WNUlOl 0.730 2.55E-02 2 8

3

0.81

WNUlOl 7.45E-03 2 20 WNUlOl 0.745 2.13E-02 2 4

5

0.84

WNUlOl 4.26E-03 2 58 WNUlOl 0.847 4.00E-03 2 62

4

0.82

WNUlOl 5.97E-03 2 33 WNUlOl 0.831 5.51E-03 5 7

7

0.71

WNUlOl 3.14E-02 5 48 WNUlOl 0.707 3.31E-02 5 2

2

0.78

WNUlOl 1.19E-02 5 56 WNUlOl 0.773 1.46E-02 5 60

7

0.75

WNUlOl 1.98E-02 8 50 WNUlOl 0.759 1.77E-02 8 35

0

0.75

WNUlOl 1.85E-02 8 34 WNUlOl 0.767 1.58E-02 8 20

6

0.75

WNUlOl 1.78E-02 8 58 WNUlOl 0.763 1.68E-02 8 62

9

0.74

WNUlOl 2.06E-02 8 33 WNUlOl 0.729 1.68E-02 1 7

7

0.70

WNUlOl 2.31E-02 1 60 WNU105 0.749 2.02E-02 5 30

4

0.74

WNU3 5.67E-02 3 15 WNU3 0.729 6.32E-02 3 45

1

0.76

WNU3 1.68E-02 2 12 WNU3 0.778 1.35E-02 2 39

3

0.70

WNU91 7.80E-02 3 49 WNU91 0.802 2.99E-02 3 3

3

0.73

WNU91 5.87E-02 3 15 WNU91 0.833 2.01E-02 3 5

7

0.85

WNU91 1.46E-02 3 45 WNU91 0.889 7.46E-03 3 23

3

0.71

WNU91 7.39E-02 3 61 WNU91 0.933 2.18E-03 3 24

0

0.93

WNU91 1.74E-03 3 21 WNU91 0.779 3.90E-02 3 41

9

0.76

WNU91 1.69E-02 7 54 WNU91 0.769 1.55E-02 8 31

3

0.81

WNU91 7.69E-03 8 53 WNU93 0.729 6.28E-02 3 25

3

0.87

WNU94 9.08E-03 3 52 WNU94 0.862 1.27E-02 3 28

9

0.88

WNU94 1.49E-03 7 1 WNU94 0.904 8.23E-04 7 59

6 Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

0.90

WNU94 8.90E-04 1 47 WNU96 0.711 7.33E-02 3 28

2

0.71

WNU96 3.02E-02 1 47 WNU97 0.930 2.42E-03 3 49

6

0.82

WNU97 2.14E-02 3 3 WNU97 0.940 1.62E-03 3 5

8

0.83

WNU97 1.86E-02 3 45 WNU97 0.986 4.67E-05 3 61

8

0.78

WNU97 3.53E-02 3 38 WNU97 0.702 7.88E-02 3 19

8

0.97

WNU97 1.94E-04 3 57 WNU97 0.912 4.17E-03 3 41

5

0.70

WNU97 3.44E-02 6 49 WNU97 0.735 2.41E-02 6 3

4

0.72

WNU97 2.64E-02 6 15 WNU97 0.743 2.18E-02 6 5

7

0.73

WNU97 2.40E-02 6 11 WNU97 0.735 2.41E-02 6 23

5

0.70

WNU97 3.30E-02 6 61 WNU97 0.743 2.18E-02 6 24

8

0.74

WNU97 2.03E-02 6 21 WNU98 0.777 3.99E-02 3 52

9

0.73

WNU98 6.09E-02 3 28 WNU98 0.742 2.21E-02 7 47

3

0.70

WNU99 7.63E-02 3 3 WNU99 0.785 3.66E-02 3 15

6

0.71

WNU99 7.06E-02 3 45 WNU99 0.756 4.90E-02 3 23

6

0.81

WNU99 2.56E-02 3 52 WNU99 0.750 1.99E-02 5 7

5

0.74

WNU99 2.20E-02 5 48 WNU99 0.796 1.03E-02 5 56

2

0.79

WNU99 1.08E-02 5 60 WNU99 0.732 2.51E-02 5 37

3

0.83

WNU99 5.09E-03 5 40 WNU99 0.705 3.38E-02 5 14

5

Table 30 "Corr. ID" - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

EXAMPLE 9

PRODUCTION OF MAIZE TRANSCRIPTOME AND HIGH THROUGHPUT CORRELATION ANALYSIS WITH YIELD AND NUE RELATED PARAMETERS

WHEN GROWN UNDER NORMAL OR REDUCED NITROGEN FERTILIZATION USING 60K MAIZE OLIGONUCLEOTIDE MICRO-ARRAYS

In order to produce a high throughput correlation analysis between plant phenotype and gene expression level, the present inventors utilized a maize oligonucleotide micro-array, produced by Agilent Technologies [chem. (dot) agilent (dot) com/Scripts/PDS (dot) asp?lPage=50879]. The array oligonucleotide represents about 44,000 maize genes and transcripts.

Correlation of Maize hybrids across ecotypes grown under low Nitrogen conditions

Experimental procedures

12 Maize hybrids were grown in 3 repetitive plots, in field. Maize seeds were planted and plants were grown in the field using commercial fertilization and irrigation protocols (485 metric cubes of water per dunam, 30 units of uran 21% fertilization per entire growth period) and 50% of commercial fertilization for low N treatment. In order to define correlations between the levels of RNA expression with NUE and yield components or vigor related parameters, the 12 different maize hybrids were analyzed. Among them, 11 hybrids encompassing the observed variance were selected for RNA expression analysis. The correlation between the RNA levels and the characterized parameters was analyzed using Pearson correlation test [davidmlane (dot) com/hyperstat/A34739 (dot) html].

Analyzed Maize tissues - All 11 selected maize hybrids were sampled per each treatment (low N and normal conditions), in three time points (TP2 = V6-V8 (six to eight collar leaf are visible, rapid growth phase and kernel row determination begins), TP5 = R1-R2 (silking-blister), TP6 = R3-R4 (milk-dough). Four types of plant tissues [Ear, flag leaf indicated in Tables 31-32 as leaf, grain distal part, and internode] were sampled and RNA was extracted as described above. Each micro-array expression information tissue type has received a Set ID as summarized in Tables 31-32 below.

Table 31

Maize transcriptome expression sets under normal conditions

Expression Set Set ID

Maize field Normal Ear R1-R2 1

Maize field Normal Grain Distal R4-R5 2

Maize field Normal Internode R3-R4 3

Maize field Normal Leaf R1-R2 4

Maize field Normal Ear R3-R4 5

Maize field Normal Internode R1-R2 6

Maize field Normal Internode V6-V8 7

Maize field Normal Leaf V6-V8 8 Table 31 : Provided are the maize transcriptome expression sets. Leaf = the leaf main ear; Internodes = internodes located above and below the main ear in the plant.

Table 32

Maize transcriptome expression sets under low N conditions

Table 32.

The following parameters were collected using digital imaging system:

Grain Area (cm ) - At the end of the growing period the grains were separated from the ear. A sample of -200 grains were weighted, photographed and images were processed using the below described image processing system. The grain area was measured from those images and was divided by the number of grains.

Grain Length and Grain width (cm) - At the end of the growing period the grains were separated from the ear. A sample of -200 grains were weighted, photographed and images were processed using the below described image processing system. The sum of grain lengths /or width (longest axis) was measured from those images and was divided by the number of grains.

Ear Area (cm ) - At the end of the growing period 5 ears were, photographed and images were processed using the below described image processing system. The Ear area was measured from those images and was divided by the number of Ears.

Ear Length and Ear Width (cm) - At the end of the growing period 5 ears were, photographed and images were processed using the below described image processing system. The Ear length and width (longest axis) was measured from those images and was divided by the number of ears.

The image processing system was used, which consists of a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.37, Java based image processing software, which was developed at the U.S. National Institutes of Health and is freely available on the internet at rsbweb (dot) nih (dot) gov/. Images were captured in resolution of 10 Mega Pixels (3888x2592 pixels) and stored in a low compression JPEG (Joint Photographic Experts Group standard) format. Next, image processing output data for seed area and seed length was saved to text files and analyzed using the JMP statistical analysis software (SAS institute).

The following parameters were collected were collected either by sampling 6 plants per plot or by measuring the parameter across all the plants within the plot.

Seed yield per plant (Kg.) - At the end of the experiment all ears from plots within blocks A-C were collected. 6 ears were separately threshed and grains were weighted, all additional ears were threshed together and weighted as well. The average grain weight per ear was calculated by dividing the total grain weight by number of total ears per plot (based on plot). In case of 6 ears, the total grains weight of 6 ears was divided by 6.

Ear weight per plot (gr.) - At the end of the experiment (when ears were harvested) total and 6 selected ears per plots within blocks were collected separately. The plants with (total and 6) were weighted (gr.) separately and the average ear per plant was calculated for Ear weight per plot (total of 42 plants per plot).

Plant height and Ear height - Plants were characterized for height at harvesting. In each measure, 6 plants were measured for their height using a measuring tape. Height was measured from ground level to top of the plant below the tassel. Ear height was measured from the ground level to the place were the main ear is located

Leaf number per plant - Plants were characterized for leaf number during growing period at 5 time points. In each measure, plants were measured for their leaf number by counting all the leaves of 3 selected plants per plot.

SPAD - Chlorophyll content was determined using a Minolta SPAD 502 chlorophyll meter and measurement was performed 64 days post sowing. SPAD meter readings were done on young fully developed leaf. Seven measurements per leaf were taken per plot. Data were taken after once per weeks after sowing.

Dry weight per plant - At the end of the experiment (when Inflorescence were dry) all vegetative material from plots within blocks A-C were collected.

Dry weight = total weight of the vegetative portion above ground (excluding roots) after drying at 70 °C in oven for 48 hours; Ear length of Filled Ear [cm] - it was calculated as the length of the ear with grains out of the total ear.

Ear length and width [cm] - it was calculated as the length and width of the ear in the filled. Measurement was performed in 6 plants per each plot.

Kernel Row Number per Ear - The number of rows in each ear was counted.

Stalk width [cm] - The diameter of the stalk was measured in the internode located below the main ear. Measurement was performed in 6 plants per each plot.

Leaf area index [LAI] - total leaf area of all plants in a plot. Measurement was performed using a Leaf area-meter.

NUE [kg/kg] -is the ratio between total grain yield per total N applied in soil.

NUpE [kg/kg] -is the ratio between total plant biomass per total N applied in soil.

Yield/stalk width [kg/cm] -is the ratio between total grain yields and the width of the stalk.

Yield/LAI [kg] -is the ratio between total grain yields and total leaf area index.

Experimental Results

11 different maize hybrids were grown and characterized for different parameters. Tables 33-34 describe the Maize correlated parameters. The average for each of the measured parameters (Tables 35-36) was calculated using the JMP software and a subsequent correlation analysis was performed (Tables 37-38). Results were then integrated to the database.

Table 33

Maize correlated parameters (vectors) under normal conditions

Correlated parameter with Correlation ID

Normal -Final Plant DW [ kg ] 1

Normal- Ear Length [cm] 2

Normal- Ear length of filled area [cm] 3

Normal- Ear width [mm] 4

Normal- Final Leaf Number 5

Normal- Final Main Ear Height [cm] 6

Normal- Final Plant Height [cm] 7

Normal- Leaf No TP5 8

Normal- Leaf No TP2 9

Normal- Leaf No TP3 10

Normal- Leaf No TP4 11

Normal- No of rows per ear 12

Normal- Plant Height TP4 [cm] 13

Normal- Plant Height TP5 [cm] 14 Correlated parameter with Correlation ID

Normal- Plant Height TP1 [cm] 15

Normal- Plant Height TP2 [cm] 16

Normal- Plant Height TP3 [cm] 17

Normal- SPAD TP6 Rl-2 18

Normal- SPAD TP3 19

Normal- SPAD TP4 Most of the Plants at flowering 20

Normal- SPAD TP5 21

Normal- SPAD TP1 22

Normal- SPAD TP2 23

Normal- SPAD TP7 R3-R4 24

Normal- SPAD TP8 R3-R4 25

Normal- Stalk width TP7 [cm] 26

Normal- Ear weight per plot ( 42 plants per plot) [0- RH] [kg] 27

Normal- LAI 28

Normal- NUE yield kg/N applied in soil kg 29

Normal- NUE at early grain filling [R1-R2] yield Kg/ N in plant SPAD 30

Normal- NUE at grain filling [R3-R4] yield Kg/ N in plant SPAD 31

Normal- NUpE [biomass/N applied] 32

Normal- Seed yield per dunam [kg] 33

Normal- Yield/LAI 34

Normal- Yield/stalk width 35

Normal- seed yield per 1 plant rest of the plot [0- RH in Kg] 36

Table 33. "cm" = centimeters' "mm" = millimeters; "kg" = kilograms; SPAD at R1-R2 and SPAD R3-R4: Chlorophyll level after early and late stages of grain filling; "NUE" = nitrogen use efficiency; "NUpE" = nitrogen uptake efficiency; "LAI" = leaf area; "N" = nitrogen; Low N = under low Nitrogen conditions; "Normal" = under normal conditions; "dunam" = 1000 m ² . "TP" = time point.

Table 34

Maize correlated parameters (vectors) under low N conditions

Correlated parameter with Correlation ID

Low N- Ear Length [cm] 1

Low N- Ear length of filled area [cm] 2

Low N- Ear width [mm] 3

Low N- Final Leaf Number 4

Low N- Final Main Ear Height [cm] 5

Low N- Final Plant Height [cm] 6

Low N- Leaf No TP5 7

Low N- Leaf No TPl 8

Low N- Leaf No TP2 9

Low N- Leaf No TP3 10

Low N- Leaf No TP4 11

Low N- No of rows per ear 12

Low N- Plant Height TP4 [cm] 13

Low N- Plant Height TP5 [cm] 14

Low N- Plant Height TP1 [cm] 15

Low N- Plant Height TP2 [cm] 16

Low N- Plant Height TP3 [cm] 17 Correlated parameter with Correlation ID

Low N- SPAD TP6 Rl-2 18

Low N- SPAD TP3 19

Low N- SPAD TP4 Most of the Plants at flowering 20

Low N- SPAD TP5 21

Low N- SPAD TP1 22

Low N- SPAD TP2 23

Low N- SPAD TP8 R3-R4 24

Low N- Stalk width TP7 [cm] 25

Low N- Ear weight per plot ( 42 plants per plot) [0 RH] 26

Low N- Final Plant DW [kg] 27

Low N- LAI 28

Low N- NUE yield kg/N applied in soil kg 29

Low N- NUE at early grain filling [R1-R2] yield Kg/ N in plant SPAD 30

Low N- NUE at grain filling [R3-R4] yield Kg/ N in plant SPAD 31

Low N- NUpE [biomass/N applied] 32

Low N- Seed yield per dunam [kg] 33

Low N- Yield/LAI 34

Low N- Yield/stalk width 35

Low N- seed yield per 1 plant rest of the plot [0- RH in Kg] 36

Table 34. Provided are the values of each of the parameters (as described above) measured in maize accessions (Seed ID) under low nitrogen fertilization. Growth conditions are specified in the experimental procedure section. "TP" = time point.

Table 35

Measured parameters in Maize accessions under normal fertilization

Cor

L-i L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9 L-10 L-ll

ID/

L

1 1.3 1.3 1.3 1.5 1.3 1.6 1.4 1.4 11.4 1.7 0.4

2 19.9 20.2 18.1 19.9 19.5 17.7 17.7 17.3 20.5 17.5 19.9

3 16.2 17.5 17.7 18.4 15.7 14.7 12.9 14.0 18.8 12.3 16.1

4 51.1 46.3 45.9 47.6 51.4 47.4 47.3 46.8 49.3 48.3 41.8

5 11.8 11.1 13.3 11.8 11.9 12.3 12.4 12.2 12.6 11.7 9.3

6 130.3 122.3 127.7 113.0 135.3 94.3 120.9 107.7 112.5 139.7 60.4

7 273.5 260.5 288.0 238.5 286.9 224.8 264.4 251.6 278.4 279.0 163.8

8 12.4 12.8 14.2 13.4 12.8 14.0 13.3 14.3 14.6 12.8 11.6

9 7.3 8.8 9.5 8.9 7.1 10.1 9.2 9.7 9.2 7.4 8.9

10 8.4 10.3 10.8 10.4 7.9 11.8 10.8 11.5 11.3 8.7 10.6

11 9.4 11.1 11.8 11.3 9.0 11.4 11.2 11.8 12.0 9.3 10.8

12 16.1 14.7 15.4 15.9 16.2 15.2 16.0 14.8 15.4 17.7 14.3

13 74.3 33.4 75.8 55.9 72.3 58.1 62.2 58.7 51.6 75.7 64.3

14 100.9 168.5 182.7 159.7 102.3 173.5 156.7 185.2 178.2 121.9 152.8

15 27.0 70.7 70.3 67.5 23.8 63.2 59.4 65.1 58.7 25.1 61.2

16 10.6 24.4 25.1 25.8 8.7 34.2 21.2 24.5 22.4 9.1 24.4

17 19.8 45.3 48.0 45.7 16.9 44.9 38.8 48.6 45.4 17.9 40.9

18 56.9 57.2 59.3 61.6 58.6 61.2 60.2 61.1 62.2 57.5 52.0

19 60.3 55.8 60.3 58.6 60.4 53.7 56.2 55.2 52.8 57.3 57.2 Cor

L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9 L-10 L-ll

ID/

L

20 54.6 57.2 56.0 58.7 54.8 59.1 58.0 60.4 61.1 53.3 51.4

21 50.6 55.7 53.2 58.0 51.7 58.7 55.9 56.8 59.7 51.1 51.8

22 49.6 48.4 45.7 49.8 48.3 48.2 45.4 47.9 46.2 48.9 42.4

23 50.9 46.7 43.7 50.5 51.0 49.0 46.5 46.7 49.4 50.9 45.9

24 59.9 60.9 56.9 58.7 58.7 63.2 59.8 62.4 61.9 57.2 49.3

25 2.9 2.6 2.7 2.9 2.7 2.6 2.9 2.7 2.8 2.7 2.3

26 5.7 7.8 7.6 7.1 5.1 7.9 7.5 8.0 7.7 5.3 7.1

27 8.9 7.0 7.5 8.0 8.5 5.6 6.1 6.7 8.4 8.2 1.9

29 4.5 3.6 4.0 4.2 4.0 3.1 3.3 3.5 4.6 4.1 1.0

30 23.4 19.1 20.3 20.7 20.5 15.4 16.4 17.2 22.0 21.0 5.7

31 25.0 17.8 20.3 20.0 19.0 13.9 16.2 17.2 21.0 21.5 5.5

32 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.1 0.0 0.0

1335. 1087. 1202. 1271. 1203. 1050. 1365. 1226.

33 937.1 985.9 300.9 6 1 5 2 0 1 3 1

35 456.7 412.4 443.4 438.7 446.7 357.0 337.5 385.8 481.9 471.6 139.7

36 0.2 0.1 0.2 0.2 0.2 0.1 0.1 0.1 0.2 0.2 0.0

28 3.2 3.9 3.3 4.0 3.9 4.2 4.0 4.3 2.9 4.3

34 426.1 313.0 307.3 362.4 314.1 224.6 266.4 261.7 482.3

Table 35.

Table 36

Measured parameters in Maize accessions under low Nitrogen fertilization

Cor.

ID/ L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9 L-10 L-ll L

1 20.6 21.0 20.2 20.1 20.1 18.5 19.1 18.3 20.1 17.8 21.3

2 18.4 18.4 19.8 18.8 16.2 16.0 15.3 15.7 16.8 14.1 19.6

3 46.7 48.2 48.3 49.9 52.9 47.4 49.6 48.6 52.4 42.6 50.0

4 15.0 11.6 13.5 11.6 11.8 11.9 12.6 11.7 12.4 9.3 13.2

5 158.1 136.2 128.4 133.1 137.8 99.6 130.2 114.6 143.9 61.6 114.4

6 305.8 270.9 290.6 252.2 260.2 227.2 271.7 248.6 279.3 171.3 269.8

7 12.7 12.4 14.4 13.1 12.2 14.3 13.6 14.9 11.6 11.7 14.9

8 6.5 7.9 7.7 7.2 5.0 8.6 7.5 8.4 5.2 7.4 7.8

9 8.2 8.3 8.6 8.2 7.6 10.4 8.1 8.6 6.6 8.1 8.8

10 9.7 10.3 10.4 10.4 7.9 11.2 10.1 11.6 7.7 10.4 10.9

11 11.2 11.6 12.1 11.5 8.9 11.8 11.4 12.3 8.9 11.1 12.1

12 14.2 15.2 15.0 15.7 16.0 15.9 15.6 14.5 16.4 14.4 15.7

13 71.5 75.6 59.7 68.3 69.0 48.8 72.7 79.5 65.5 42.6 68.6

14 132.9 193.7 183.8 162.6 96.8 177.6 161.6 191.7 94.5 170.1 184.6

15 34.5 72.9 70.5 65.6 21.2 60.4 58.4 67.5 21.3 64.3 60.4

16 16.2 24.5 23.4 24.1 8.9 22.2 20.7 23.6 8.1 24.0 22.6

17 30.1 49.2 47.3 46.4 19.8 46.2 38.1 52.6 15.6 43.1 44.7

18 60.2 57.9 58.8 59.5 58.5 64.0 56.4 60.0 58.3 53.1 61.7

19 52.4 55.4 56.1 58.7 53.7 53.7 56.7 60.1 54.9 52.8 57.8

20 54.0 56.4 56.8 59.8 53.9 60.2 57.8 60.1 53.5 51.5 59.9 Cor.

ID/ L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9 L-10 L-ll L

21 53.8 55.0 52.7 56.6 50.4 59.1 56.1 58.4 50.5 51.3 56.4

22 52.6 48.1 43.4 47.0 47.0 49.8 49.0 50.0 49.7 44.3 61.3

23 55.8 46.7 45.4 48.8 48.6 50.9 47.2 47.9 51.2 45.5 49.0

24 59.3 57.6 58.4 59.2 58.2 62.7 61.0 59.9 57.5 49.6 61.9

25 2.8 2.4 2.7 2.8 2.7 2.6 3.0 2.6 2.7 2.3 2.8

26 6.6 8.0 9.6 9.2 7.6 7.2 7.9 29.0 7.8 2.4 9.8

27 1.6 1.4 1.5 2.0 1.5 1.6 1.6 1.3 1.5 0.4 1.5

29 7.2 8.4 10.3 10.0 7.6 7.7 8.0 8.3 7.6 2.6 10.6

30 18.0 21.8 26.3 25.1 19.5 18.0 21.4 20.8 19.7 7.2 25.7

31 18.4 21.9 26.5 25.3 19.7 18.5 19.8 20.9 19.9 7.7 25.9

32 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0

1083. 1261. 1549. 1497. 1143. 1159. 1207. 1250. 1146. 1589.

33 383.2

7 6 2 9 9 3 4 1 0 9

35 416.5 528.4 583.5 541.0 428.1 444.3 407.2 477.4 445.6 167.9 562.3

36 0.1 0.2 0.2 0.2 0.1 0.1 0.2 0.2 0.1 0.0 0.2

28 2.9 3.2 3.3 2.9 2.8 3.8 3.5 5.0 3.2

34 341.5 408.1 464.8 522.3 439.5 312.6 345.9 287.7 501.2

Table 36: Provided are the values of each of the parameters (as described above) measured in maize accessions (Seed ID) under low nitrogen fertilization. Growth conditions are specified in the experimental procedure section.

Table 37

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under normal fertilization conditions across maize accessions

Corr. Corr.

Gene Exp Gene Exp.

R P value Set R P value Set Name . set Name set

ID ID

LAB290 0.71 LAB290_ 0.71 1.13E-

1.07E-01 1 28 5 20 HO 9 HO 1 01

LAB290_H 0.80 LAB290_ 0.90 1.35E-

5.43E-02 5 32 5 8 0 3 HO 4 02

LAB290_H 0.75 LAB290_ 0.76 7.74E-

8.49E-02 5 17 5 14 0 2 HO 3 02

LAB290_H 0.80 LAB290_ 0.71 1.13E-

5.43E-02 5 1 5 18 0 3 HO 2 01

LAB290_H 0.76 LAB290_ 0.81 2.56E-

7.51E-02 5 11 4 16 0 7 HO 5 02

LAB290_H 0.74 LAB290_ 0.83 1.86E-

3.33E-02 3 22 6 20 0 7 HO 8 02

LAB290_H 0.76 LAB290_ 0.84 1.62E-

4.48E-02 6 22 6 21 0 6 HO 7 02

LAB290_H 0.85 LAB290_ 0.71 7.27E-

1.44E-02 6 24 6 8 0 4 HO 2 02

LAB290_H 0.75 LAB290_ 0.77 4.27E-

4.79E-02 6 16 6 4 0 9 HO 0 02 Corr. Corr.

Gene Exp Gene Exp.

R P value Set R P value Set Name . set Name set

ID ID

LAB290_H 0.71 LAB290_ 0.73 6.06E-

7.10E-02 6 10 6 9 0 5 HO 4 02

LAB290_H 0.87 0.79 5.83E-

9.83E-03 6 18 LYM213 5 5 0 5 6 02

0.75 0.74 9.11E-

LYM213 8.56E-02 5 17 LYM213 5 14

0 2 02

0.78 0.73 3.78E-

LYM213 6.62E-02 5 15 LYM213 2 20

2 5 02

0.71 0.78 2.09E-

LYM213 4.43E-02 2 8 LYM213 2 18

9 5 02

0.71 0.91 4.19E-

LYM213 1.97E-02 8 3 WNU104 1 26

7 2 03

0.82 0.75 4.81E-

WNU104 2.30E-02 1 14 WNU104 1 9

3 8 02

0.94 0.77 6.87E-

WNU104 4.71E-03 5 28 WNU104 5 24

3 8 02

0.71 0.73 3.79E-

WNU104 l. lOE-01 5 9 WNU104 2 4

5 5 02

0.70 0.96 4.62E-

WNU104 7.87E-02 4 24 WNU104 4 26

2 4 04

0.85 0.80 1.67E-

WNU104 1.37E-02 4 14 WNU104 3 25

7 2 02

0.83 0.84 1.79E-

WNU104 1.85E-02 6 26 WNU104 6 14

8 0 02

0.74 0.82 2.18E-

WNU104 2.11E-02 7 3 WNU75 1 3

6 7 02

0.73 0.76 2.81E-

WNU75 9.93E-02 1 34 WNU75 2 5

0 2 02

0.83 0.70 2.22E-

WNU75 2.70E-03 8 25 WNU75 8 4

4 7 02

0.89 0.80 3.03E-

WNU75 5.34E-04 8 12 WNU75 4 25

1 1 02

0.78 0.78 3.69E-

WNU75 3.53E-02 4 3 WNU75 4 33

8 4 02

0.75 0.78 3.70E-

WNU75 5.17E-02 4 35 WNU75 4 27

1 4 02

0.78 0.78 3.69E-

WNU75 3.53E-02 4 30 WNU75 4 29

8 4 02

0.77 0.73 5.83E-

WNU75 4.12E-02 4 31 WNU75 4 6

4 8 02

0.86 0.78 3.69E-

WNU75 1.11E-02 4 12 WNU75 4 36

9 4 02

0.85 0.72 6.77E-

WNU75 1.42E-02 6 22 WNU75 6 25

5 1 02

0.76 0.89 6.14E-

WNU75 4.37E-02 6 12 WNU76 1 7

8 7 03

0.82 0.74 5.49E-

WNU76 2.18E-02 1 20 WNU76 1 22

7 5 02 Corr. Corr.

Gene Exp Gene Exp.

R P value Set R P value Set Name . set Name set

ID ID

0.81 0.82 2.27E-

WNU76 2.47E-02 25 WNU76

8 1 4 02 1 21

0.76 0.80 3.07E-

WNU76 4.60E-02 1 24 WNU76

3 0 02 1 33

0.78 0.80 2.88E-

WNU76 3.65E-02

5 1 35 WNU76

5 02 1 27

0.80 0.80 3.07E-

WNU76 3.07E-02 29

0 1 30 WNU76

0 02 1

0.86 0.83 1.88E-

WNU76 1.26E-02

2 1 4 WNU76

7 02 1 31

0.86 0.80 3.07E-

WNU76 1.28E-02

1 1 6 WNU76

0 02 1 36

0.71 0.72 1.03E-

WNU76 7.19E-02 WNU76

3 1 18 5 24

5 01

0.83 0.75 3.05E-

WNU76 3.92E-02 5 23 WNU76 2 4

4 5 02

0.77 0.75 5.20E-

WNU76 3.95E-02 4 7 WNU76 4 20

8 0 02

0.77 0.70 7.90E-

WNU76 3.92E-02 4 24 WNU76 4 33

9 1 02

0.73 0.73 6.19E-

WNU76 6.08E-02 4 26 WNU76 4 35

3 1 02

0.72 0.71 7.19E-

WNU76 6.62E-02 4 27 WNU76 4 30

3 3 02

0.70 0.85 1.49E-

WNU76 7.90E-02 4 29 WNU76 4 17

1 2 02

0.72 0.76 4.68E-

WNU76 6.38E-02 4 31 WNU76 4 6

8 1 02

0.78 0.70 7.90E-

WNU76 3.47E-02 4 14 WNU76 4 36

9 1 02

0.91 0.85 1.46E-

WNU76 3.91E-03 6 20 WNU76 6 22

5 3 02

0.79 0.91 3.72E-

WNU76 3.28E-02 6 25 WNU76 6 21

5 6 03

0.90 0.71 7.17E-

WNU76 5.42E-03 6 24 WNU76 6 3

2 4 02

0.75 0.71 7.34E-

WNU76 5.06E-02 6 33 WNU76 6 23

3 1 02

0.74 0.75 5.24E-

WNU76 5.43E-02 6 35 WNU76 6 27

6 0 02

0.73 0.75 5.06E-

WNU76 5.75E-02 6 30 WNU76 6 29

9 3 02

0.90 0.76 4.31E-

WNU76 5.70E-03 6 4 WNU76 6 31

0 9 02

0.87 0.75 5.06E-

WNU76 9.66E-03 6 12 WNU76 6 36

6 3 02

0.81 0.77 1.43E-

WNU76 2.62E-02 6 18 WNU76 7 25

3 4 02 Corr. Corr.

Gene Exp Gene Exp.

R P value Set R P value Set Name . set Name set

ID ID

0.75 0.79 1.03E-

WNU76 1.96E-02 1 24 WNU76 1 8

1 6 02

0.74 0.75 3.11E-

WNU76 2.10E-02 1 5 WNU78 2 13

6 3 02

0.71 0.84 1.79E-

WNU78 3.02E-02 8 28 WNU78 4 15

6 0 02

0.83 0.84 3.57E-

WNU78 1.99E-02 6 23 WNU80 1 28

3 1 02

0.83 0.90 5.80E-

WNU80 1.94E-02 1 22 WNU80 1 26

5 0 03

0.80 0.75 5.13E-

WNU80 2.96E-02 1 17 WNU80 1 10

3 2 02

0.78 0.88 8.88E-

WNU80 3.71E-02 1 14 WNU80 1 9

4 1 03

0.80 0.83 9.95E-

WNU80 5.60E-02 5 28 WNU80 2 8

0 5 03

0.71 0.84 8.07E-

WNU80 4.51E-02 2 26 WNU80 2 5

7 6 03

0.75 0.76 2.68E-

WNU80 3.05E-02 2 10 WNU80 2 14

5 6 02

0.77 0.72 4.12E-

WNU80 2.31E-02 2 9 WNU80 2 11

8 7 02

0.89 0.85 1.54E-

WNU80 6.56E-03 4 16 WNU80 4 10

4 0 02

0.86 0.73 3.74E-

WNU80 1.27E-02 4 9 WNU80 3 22

1 6 02

0.79 0.76 4.49E-

WNU80 6.15E-02 6 28 WNU80 6 7

0 5 02

0.70 0.71 7.00E-

WNU80 7.89E-02 6 25 WNU80 6 33

2 7 02

0.86 0.72 6.54E-

WNU80 1.16E-02 6 8 WNU80 6 26

7 5 02

0.73 0.86 1.12E-

WNU80 6.08E-02 6 35 WNU80 6 16

3 9 02

0.71 0.91 4.13E-

WNU80 7.22E-02 6 27 WNU80 6 5

3 3 03

0.70 0.71 7.00E-

WNU80 7.67E-02 6 30 WNU80 6 29

5 7 02

0.97 0.74 5.64E-

WNU80 3.02E-04 6 17 WNU80 6 31

0 2 02

0.73 0.86 1.30E-

WNU80 5.78E-02 6 6 WNU80 6 14

9 0 02

0.71 0.79 3.19E-

WNU80 7.00E-02 6 36 WNU80 6 9

7 7 02

0.77 0.78 3.74E-

WNU80 4.06E-02 6 18 WNU80 6 11

5 3 02

0.79 0.77 4.08E-

WNU80 1.94E-02 7 28 WNU81 1 16

1 5 02 Corr. Corr.

Gene Exp Gene Exp.

R P value Set R Set Name . set Name set

ID ID

0.73 0.88 7.94E-

WNU81 6.04E-02 1 10 WNU81 1 9

4 6 03

0.78 0.86 5.47E-

WNU81 6.29E-02 5 12 WNU81 2 24

7 6 03

0.82 0.77 3.96E-

WNU81 2.11E-02 4 16 WNU82 1 13

9 8 02

0.90 0.83 4.08E-

WNU82 1.29E-02 5 25 WNU82 5 12

6 0 02

0.73 0.80 1.50E-

WNU82 3.90E-02 2 23 WNU82 2 4

2 9 02

0.88 0.71 1.10E-

WNU82 1.77E-02 6 28 WNU83 5 5

9 6 01

0.72 0.70 5.11E-

WNU83 4.03E-02 2 12 WNU83 2 9

9 4 02

0.71

WNU83 4.87E-02 2 11

0

Table 37. "Corr. ID " - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

Table 38

Correlation between the expression level of WNU selected genes of some embodiments of the invention in various tissues and the phenotypic performance under low nitrogen fertilization conditions across maize accessions

Ex Cor.

Gene Cor. Gene Exp.

R P value

Name P- R P value Set

Set ID Name set set ID

LAB290_H 0.83 5.55E- LAB290_ 0.74 9.19E-

5 23 6 28 0 1 03 HO 1 02

LAB290_H 0.74 8.94E- LAB290_ 0.72 1.02E-

6 20 6 19 0 5 02 HO 7 01

LAB290_H 0.70 1.20E- LAB290_ 0.84 3.23E-

6 21 6 13 0 2 01 HO 9 02

LAB290_H 0.72 1.01E- LAB290_ 0.77 4.17E-

6 26 7 28 0 8 01 HO 3 02

LAB290_H 0.78 2.13E- LAB290_ 0.70 5.29E-

7 8 7 17 0 4 02 HO 1 02

LAB290_H 0.81 1.34E- LAB290_ 0.73 3.78E-

7 21 2 8 0 6 02 HO 5 02

LAB290_H 0.88 7.43E- LAB290_ 0.72 6.80E-

4 16 4 18 0 9 03 HO 0 02

0.75 8.05E- 0.81 4.94E-

LYM213 6 3 LYM213 6 22

8 02 3 02

0.88 7.81E- 0.79 3.30E-

LYM213 2 28 LYM213 4 25

7 03 4 02

0.80 2.88E- 0.70 1.20E-

LYM213 4 3 WNU 104 1 28

5 02 2 01

0.93 2.31E- 0.72 6.54E-

WNU 104 1 8 WNU 104 1 21

1 03 5 02 Ex Cor.

Gene Cor. Gene Exp.

R P value R P value Set Name P- Set ID Name set

set ID

0.73 6.08E- 0.75 4.84E-

WNU104 1 1 WNU104 1 18

3 02 8 02

0.95 6.89E- 0.70 7.53E-

WNU104 1 9 WNU104 1 23

8 04 8 02

0.87 9.64E- 0.85 7.54E-

WNU104 1 10 WNU104 5 28

6 03 0 03

0.73 2.37E- 0.80 5.19E-

WNU104 5 26 WNU104 6 11

6 02 8 02

0.70 1.19E- 0.80 5.28E-

WNU104 6 5 WNU104 6 34

3 01 6 02

0.70 1.20E- 0.80 5.57E-

WNU104 6 2 WNU104 6 1

2 01 1 02

0.85 2.91E- 0.79 5.96E-

WNU104 6 18 WNU104 6 9

7 02 3 02

0.85 3.03E- 0.71 1.08E-

WNU104 6 6 WNU104 6 30

4 02 8 01

0.70 2.31E- 0.83 2.75E-

WNU104 3 8 WNU104 3 20

4 02 3 03

0.78 7.18E- 0.73 1.64E-

WNU104 3 7 WNU104 3 9

5 03 1 02

0.76 4.52E- 0.86 6.01E-

WNU104 2 28 WNU104 2 21

5 02 1 03

0.70 5.03E- 0.75 5.00E-

WNU104 2 9 WNU104 4 20

6 02 4 02

0.72 6.71E- 0.89 6.38E-

WNU104 4 24 WNU104 4 22

2 02 6 03

0.88 7.42E- 0.87 2.33E-

WNU104 4 6 WNU75 1 34

9 03 3 02

0.91 5.93E- 0.84 3.27E-

WNU75 5 22 WNU75 6 25

3 04 9 02

0.76 1.02E- 0.76 2.65E-

WNU75 3 25 WNU75 8 25

4 02 7 02

0.79 1.86E- 0.88 3.23E-

WNU75 8 5 WNU75 8 32

4 02 8 03

0.70 4.92E- 0.88 3.23E-

WNU75 8 6 WNU75 8 27

8 02 8 03

0.75 4.84E- 0.70 7.77E-

WNU75 4 13 WNU76

8 02 4 02 1 33

0.70 7.77E- 0.94 1.16E-

WNU76 WNU76

4 02 1 29

8 03 1 20

0.82 2.36E- 0.88 8.79E-

WNU76 WNU76

1 02 1 35

1 03 1 21

0.90 5.11E- 0.87 9.10E-

WNU76 2 WNU76

5 03 1 9 03 1 1

0.70 7.77E- 0.74 5.72E-

WNU76 WNU76 31

4 02 1 36

0 02 1

0.88 8.35E- 0.83 1.83E-

WNU76 6

3 03 1 24 WNU7

9 02 1 32 Ex Cor.

Gene Cor. Gene Exp.

R P value R P value Set Name P- Set ID Name set

set ID

0.72 6.45E- 0.92 2.63E-

WNU76 1 3 WNU76 1 18

6 02 7 03

0.73 5.95E- 0.73 6.21E-

WNU76 1 15 WNU76 1 12

6 02 1 02

0.85 1.34E- 0.83 1.83E-

WNU76 1 23 WNU76 1 27

8 02 9 02

0.74 2.17E- 0.81 7.50E-

WNU76 5 25 WNU76 5 22

4 02 5 03

0.73 9.71E- 0.88 1.95E-

WNU76 6 33 WNU76 6 25

3 02 4 02

0.73 9.71E- 0.84 3.49E-

WNU76 6 29 WNU76 6 34

3 02 3 02

0.77 6.89E- 0.73 9.71E-

WNU76 6 2 WNU76 6 36

7 02 3 02

0.80 5.26E- 0.77 6.96E-

WNU76 6 4 WNU76 6 3

6 02 6 02

0.71 1.98E- 0.87 4.76E-

WNU76 3 25 WNU76 8 25

6 02 2 03

0.77 2.36E- 0.81 1.33E-

WNU76 8 4 WNU76 8 22

6 02 7 02

0.77 2.53E- 0.81 1.46E-

WNU76 2 25 WNU76 2 5

0 02 1 02

0.70 5.15E- 0.71 4.56E-

WNU76 2 13 WNU76 2 24

4 02 6 02

0.72 4.14E- 0.85 6.33E-

WNU76 2 32 WNU76 2 4

6 02 9 03

0.74 3.59E- 0.77 2.45E-

WNU76 2 18 WNU76 2 6

0 02 3 02

0.83 1.02E- 0.72 4.14E-

WNU76 2 23 WNU76 2 27

3 02 6 02

0.70 7.91E- 0.70 7.91E-

WNU76 4 33 WNU76 4 29

1 02 1 02

0.87 9.34E- 0.81 2.60E-

WNU76 4 35 WNU76 4 16

8 03 4 02

0.77 4.17E- 0.70 7.91E-

WNU76 4 2 WNU76 4 36

3 02 1 02

0.77 4.00E- 0.80 2.80E-

WNU76 4 31 WNU77 1 5

7 02 8 02

0.85 1.49E- 0.83 1.82E-

WNU77 1 1 WNU77 1 7

2 02 9 02

0.82 2.23E- 0.78 1.27E-

WNU77 1 6 WNU77 5 22

5 02 2 02

0.81 4.66E- 0.81 4.46E-

WNU77 6 13 WNU77 3 25

8 02 0 03

0.76 4.59E- 0.81 1.49E-

WNU77 7 28 WNU77 2 25

3 02 0 02

0.72 4.01E- 0.86 5.28E-

WNU77 2 20 WNU77 2 21

9 02 7 03 Ex Cor.

Gene Cor. Gene Exp.

R P value R P value Set Name P- Set ID Name set

set ID

0.89 2.99E- 0.71 4.42E-

WNU77 2 24 WNU77 2 3

1 03 9 02

0.71 4.65E- 0.75 5.08E-

WNU77 2 18 WNU77 4 16

4 02 3 02

0.87 2.07E- 0.82 4.21E-

WNU78 5 25 WNU78 6 25

4 03 7 02

0.79 5.93E- 0.76 2.57E-

WNU78 6 3 WNU78 8 25

4 02 9 02

0.71 4.68E- 0.86 2.46E-

WNU78 7 25 WNU80 28

4 02 9 02 1

0.71 6.85E- 0.83 1.88E-

WNU80 0

9 02 1 33 WNU8

7 02 1 11

0.74 5.25E- 0.71 6.85E-

WNU80 5 WNU80

9 02 1 9 02 1 29

0.83 2.06E- 0.89 6.27E-

WNU80 WNU80 20

1 02 1 14

6 03 1

0.77 4.01E- 0.82 2.21E-

WNU80 80

6 02 1 35 WNU

6 02 1 21

0.71 6.85E- 0.88 8.17E-

WNU80 80

9 02 1 36 WNU

5 03 1 24

0.90 5.41E- 0.75 4.96E-

WNU80 4 80

3 03 1 WNU

5 02 1 3

0.89 6.70E- 0.85 1.48E-

WNU80 7

4 03 1 WNU80

3 02 1 18

0.78 3.75E- 0.86 1.12E-

WNU80 26 WNU80

3 02 1 9 02 1 6

0.72 6.39E- 0.72 2.83E-

WNU80 30 WNU80 5 33

8 02 1 1 02

0.93 2.64E- 0.72 2.83E-

WNU80 5 11 WNU80 5 29

1 04 1 02

0.71 3.15E- 0.75 1.77E-

WNU80 5 20 WNU80 5 35

2 02 9 02

0.75 1.77E- 0.72 2.83E-

WNU80 5 19 WNU80 5 36

9 02 1 02

0.72 2.68E- 0.80 8.74E-

WNU80 5 31 WNU80 5 7

6 02 6 03

0.71 3.21E- 0.80 8.58E-

WNU80 5 9 WNU80 5 26

0 02 7 03

0.70 3.46E- 0.71 2.91E-

WNU80 5 30 WNU80 5 10

3 02 9 02

0.93 5.64E- 0.93 6.37E-

WNU80 6 28 WNU80 6 8

8 03 4 03

0.74 9.22E- 0.73 9.64E-

WNU80 6 21 WNU80 6 9

1 02 4 02

0.72 1.04E- 0.73 9.93E-

WNU80 6 26 WNU80 6 10

3 01 0 02

0.72 1.76E- 0.85 1.37E-

WNU80 3 26 WNU80 8 28

5 02 7 02 Ex Cor.

Gene Cor. Gene Exp.

R P value R P value Set Name P- Set ID Name set

set ID

0.88 3.61E- 0.72 4.07E-

WNU80 8 8 WNU80 8 17

4 03 8 02

0.77 2.38E- 0.79 1.98E-

WNU80 8 21 WNU80 8 18

5 02 0 02

0.94 4.18E- 0.72 4.22E-

WNU80 8 9 WNU80 8 26

4 04 4 02

0.78 2.16E- 0.92 2.90E-

WNU80 8 10 WNU80 7 28

3 02 4 03

0.87 4.53E- 0.71 4.80E-

WNU80 7 8 WNU80 7 17

4 03 1 02

0.72 4.30E- 0.82 1.14E-

WNU80 7 9 WNU80 7 26

2 02 6 02

0.87 4.33E- 0.72 4.36E-

WNU80 7 10 WNU80 2 24

6 03 1 02

0.80 1.71E- 0.80 1.71E-

WNU80 2 32 WNU80 2 27

0 02 0 02

0.89 7.02E- 0.77 3.88E-

WNU80 4 28 WNU80 4 8

1 03 9 02

0.79 3.43E- 0.79 3.21E-

WNU80 4 21 WNU80 4 26

1 02 6 02

0.91 3.89E- 0.74 5.41E-

WNU80 4 10 WNU81 1 11

5 03 6 02

0.88 7.99E- 0.71 7.25E-

WNU81 1 17 WNU81 1 1

6 03 2 02

0.76 4.51E- 0.95 3.26E-

WNU81 1 10 WNU81 6 33

5 02 3 03

0.74 9.24E- 0.95 3.26E-

WNU81 6 5 WNU81 6 29

0 02 3 03

0.83 3.75E- 0.91 1.06E-

WNU81 6 35 WNU81 6 34

7 02 5 02

0.85 2.87E- 0.81 4.60E-

WNU81 6 2 WNU81 6 1

8 02 9 02

0.95 3.26E- 0.96 2.42E-

WNU81 6 36 WNU81 6 31

3 03 0 03

0.74 8.91E- 0.77 7.30E-

WNU81 6 4 WNU81 6 6

5 02 0 02

0.96 1.53E- 0.82 3.44E-

WNU81 6 30 WNU81 3 3

8 03 3 03

0.75 3.20E- 0.70 7.53E-

WNU81 7 1 WNU81 4 21

0 02 8 02

0.82 2.25E- 0.72 6.62E-

WNU81 4 24 WNU81 4 9

5 02 3 02

0.79 3.38E- 0.70 7.59E-

WNU82 1 19 WNU82 1 13

2 02 7 02

0.76 4.42E- 0.84 4.64E-

WNU82 1 26 WNU82 5 22

7 02 0 03

0.71 1.07E- 0.84 1.89E-

WNU82 6 5 WNU82 3 25

9 01 9 03 Ex Cor.

Gene Cor. Gene Exp.

R P value R P value Set Name P- Set ID Name set

set ID

0.71 4.54E- 0.75 2.98E-

WNU82 8 5 WNU82 2 25

7 02 7 02

0.80 1.63E- 0.70 4.89E-

WNU82 2 3 WNU82 2 12

3 02 9 02

0.92 7.54E- 0.85 3.04E-

WNU83 6 5 WNU83 6 6

8 03 4 02

0.81 2.44E- 0.81 2.66E-

WNU83 4 28 WNU83 4 5

8 02 2 02

0.70 7.51E- 0.70 7.98E-

WNU83 4 20 WNU83 4 21

8 02 0 02

0.81 2.64E- 0.70 7.74E-

WNU83 4 26 WNU83 4 6

2 02 4 02

0.86 1.24E-

WNU83 4 10

3 02

Table 38. "Corr. ID " - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

EXAMPLE 10

PRODUCTION OF MAIZE 60K TRANSCRIPTOME OLIGONUCLEOTIDE

MICRO-ARRAYS

Genes under differential display associating with Agronomical Nitrogen Use Efficiency. Two maize commercial hybrids and 2 maize inbred lines were grown in 5 repetitive plots in the field under six different N fertilization regimes. Maize seeds were planted and plants were grown in the field using commercial fertilization and irrigation protocols (485 cubic meters of irrigation per dunam, 30 units of 21% uran (N fertilization) per entire growth period- Normal conditions 100% Nitrogen). In addition, the rest of 5 Nitrogen treatments included: 140% of Normal, 50%, 30%, 10% and 0%. In order to define association between the levels of RNA expression with yield components, biomass related parameters and NUE various indices including Agronomical NUE, two maize hybrids and one maize inbred line were selected for RNA expression analysis. The genes up-regulated under certain N fertilization with highest Agronomical NUE or yield or biomass parameters were considered as associated with Agronomical NUE, NUE and yield.

Analyzed Maize tissues - At total 3 maize lines were sampled at V12 developmental stage (tasseling) and R3 (milky) developmental stage. Plant tissues [leaves, lower and upper internodes, flower] were sampled and RNA was extracted as described above. Each micro-array expression information tissue type has received a Set ID as summarized in Table 39 below.

Table 39

Maize transcriptome expression sets

Table 39: Provided are the maize transcriptome expression sets The following parameters were collected either by sampling 6 plants per plot or by measuring the parameter across all the plants within the plot.

Grain weight (yield) per plant (kg.) - At the end of the experiment all ears from plots were collected. All ears from the plot were separately threshed and grains were weighted, all additional ears were threshed together and weighted as well. The average grain weight per ear was calculated by dividing the total grain weight by number of total ears per plot (based on plot).

Agronomical NUE (Agronomical Nitrogen Use Efficiency) - Agronomical NUE coefficient measures the ability of plant to efficiently use the each additional unit of Nitrogen added as fertilizer and was calculated using Formula XXXVI (Agronomical NUE, described above).

Table 40

Correlated parameters in Maize accessions throughout all N levels (e.g., 140%, 100%, 50%,

30%, 10% and 0%)

Table 40. "NHI (N harvest index)" = the ratio between total grain N and total plant N (=total shoot N + total grain N). Table 41

Measured parameters in Maize

Table 41.

Table 42

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under normal or low nitrogen fertilization conditions across Arabidopsis accessions

Table 42. "Corr. ID " - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

EXAMPLE 11

PRODUCTION OF BRACHYPODIUM TRANSCRIPTOME AND HIGH

THROUGHPUT CORRELATION ANALYSIS USING 60K BRACHYPODIUM

OLIGONUCLEOTIDE MICRO-ARRAY

In order to produce a high throughput correlation analysis comparing between plant phenotype and gene expression level, the present inventors utilized a brachypodium oligonucleotide micro-array, produced by Agilent Technologies [chem. (dot) agilent (dot) com/Scripts/PDS (dot) asp?lPage=50879] . The array oligonucleotide represents about 60K brachypodium genes and transcripts. In order to define correlations between the levels of RNA expression and yield or vigor related parameters, various plant characteristics of 24 different brachypodium accessions were analyzed. Among them, 22 accessions encompassing the observed variance were selected for RNA expression analysis and comparative genomic hybridization (CGH) analysis.

The correlation between the RNA levels and the characterized parameters was analyzed using Pearson correlation test [davidmlane (dot) com/hyperstat/A34739 (dot) html] .

Additional correlation analysis was done by comparing plant phenotype and gene copy number. The correlation between the normalized copy number hybridization signal and the characterized parameters was analyzed using Pearson correlation test [davidmlane (dot) com/hyperstat/A34739 (dot) html] .

Experimental procedures

Twenty four brachypodium accessions were grown in 4-6 repetitive plots (8 plant per plot) in a green house. The growing protocol was as follows: brachypodium seeds were sown in plots and grown under normal condition (6 mM of Nitrogen as ammonium nitrate) or reduced N level (low N, 35% of normal nitrogen fertilization).

Analyzed Brachypodium tissues - two tissues [leaf and spike] were sampled and RNA was extracted as described above. Each micro-array expression information tissue type has received a Set ID as summarized in Tables 43-44 below.

Table 43

Brachypodium transcriptome expression sets under low N conditions

Table 43. Provided are the brachypodium transcriptome expression sets under low N conditions.

Table 44

Brachypodium transcriptome expression sets under Normal conditions

Table 44. Provided are the brachypodium transcriptome expression sets under normal conditions

Brachypodium yield components and vigor related parameters assessment - Plants were continuously phenotyped during the growth period and at harvest (Table 45-46, below). The image analysis system included a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.37 [Java based image processing program, which was developed at the U.S. National Institutes of Health and freely available on the internet rsbweb (dot) nih (dot) gov/] . Next, analyzed data was saved to text files and processed using the JMP statistical analysis software (SAS institute).

At the end of the growing period the grains were separated from the spikes and the following parameters were measured using digital imaging system and collected:

No. of tillering- all tillers were counted per plant at harvest (mean per plot). Head number - At the end of the experiment, heads were harvested from each plot and were counted.

Total Grains weight per plot (gr.) - At the end of the experiment (plant 'Heads') heads from plots were collected, the heads were threshed and grains were weighted. In addition, the average grain weight per head was calculated by dividing the total grain weight by number of total heads per plot (based on plot).

Highest number of spikelets - The highest spikelet number per head was calculated per plant (mean per plot).

Mean number of spikelets - The mean spikelet number per head was calculated per plot.

Plant height - Each of the plants was measured for its height using measuring tape. Height was measured from ground level to spike base of the longest spike at harvest.

Spikelets weight (gr.)- The biomass and spikes weight of each plot was separated, measured per plot.

Average head weight - calculated by dividing spikelets weight with head number (gr.).

Harvest Index - The harvest index was calculated using Formula XXXVII (Harvest Index for brachypodium, described above).

Spikelets Index - The Spikelets index was calculated using Formula XXXI

(above).

Percent Number of heads with spikelets - The number of heads with more than one spikelet per plant were counted and the percent from all heads per plant was calculated.

Total dry mater per plot - Calculated as Vegetative portion above ground plus all the spikelet dry weight per plot.

1000 grain weight - At the end of the experiment all grains from all plots were collected and weighted and the weight of 1000 were calculated.

The following parameters were collected using digital imaging system:

At the end of the growing period the grains were separated from the spikes and the following parameters were measured and collected: (i) Average Grain Area (cm ) - A sample of -200 grains was weighted, photographed and images were processed using the below described image processing system. The grain area was measured from those images and was divided by the number of grains.

(ii) Average Grain Length, perimeter and width (cm) - A sample of -200 grains was weighted, photographed and images were processed using the below described image processing system. The sum of grain lengths and width (longest axis) was measured from those images and was divided by the number of grains.

The image processing system used consisted of a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.37, Java based image processing software, which was developed at the U.S. National Institutes of Health and is freely available on the internet at rsbweb (dot) nih (dot) gov/. Images were captured in resolution of 10 Mega Pixels (3888x2592 pixels) and stored in a low compression JPEG (Joint Photographic Experts Group standard) format. Next, image processing output data for seed area and seed length was saved to text files and analyzed using the JMP statistical analysis software (SAS institute).

Maintenance of performance under low N conditions: Expressed as ratio of the specific parameter under low N condition divided by Normal conditions results (maintenance of phenotype under low N in comparison to normal conditions).

Table 45

Brachypodium correlated parameters under low N conditions (vectors)

Correlation set Correlation ID

% Number of heads with spikelets 1

1000 grain weight [gr] 2

Avr head weight [gr] 3

Grain Perimeter [mm] 4

Grain area [mm ² ] 5

Grains weight per plant [gr] 6

Grains weight per plot [gr] 7

Harvest index 8

Heads per plant 9

Heads per plot 10

Mean number of spikelets per plot 11

Number of heads with spikelets per plant 12

Plant Vegetative DW [gr] 13

Plant height [cm] 14

Spikelets DW per plant [gr] 15 Correlation set Correlation ID

Spikelets weight [gr] 16

Tillering 17

Total dry mater per plant [gr] 18

Total dry mater per plot [gr] 19

Vegetative DW [gr] 20

Table 45. Provided are the brachypodium correlated parameters. "Avr" = average; "gr" = grams; "cm" = centimeter; "mm" = millimeter.

Table 46

Brachypodium correlated parameters under normal conditions (vectors)

Table 46. Provided are the brachypodium correlated parameters. "Avr" = average; "gr" = grams; "cm" = centimeter; "mm" = millimeter.

Experimental Results

Twenty five different Brachypodium accessions were grown and characterized for different parameters as described above. The average for each of the measured parameter was calculated using the JMP software and values are summarized in Tables 47-48 below. Subsequent correlation analysis between the various transcriptome sets and the average parameters was conducted (Tables 53-55). Follow, results were integrated to the database.

Table 47

Measured parameters of correlation IDs in Brachypodium accessions under low N conditions

Table 47. Correlation (Cor.) IDs: 1, 2, 3, 4, 5, ...etc. refer to those described in Table 45 above [Brachypodium correlated parameters (vectors)]. The Brachypodium accession numbers are Line 12, Line 13, Line 13, etc.

Table 48

Measured parameters of correlation IDs in additional brachypodium accessions under low N conditions

Cor.

ID/ L-13 L-14 L-15 L-16 L-17 L-18 L-19 L-20 L-21 L-22 L-23 L-24 Line

10.0 10.8 39.5 37.2 37.5 21.1 48.7 15.0 11.0 40.2 34.7 10.0

1

9 2 3 8 6 9 0 7 1 9 0 9

2 5.24 4.94 4.38 4.09 5.93 4.63 3.53 3.92 4.73 6.24 5.29 5.24

3 0.04 0.05 0.08 0.07 0.07 0.05 0.05 0.04 0.06 0.08 0.09 0.04 Cor.

ID/ L-13 L-14 L-15 L-16 L-17 L-18 L-19 L-20 L-21 L-22 L-23 L-24

Line

4 1.79 1..74 1.84 1.70 1.84 1.71 1.68 1.65 1.85 1.88 1.88 1.79

5 0.12 0.10 0.10 0.08 0.12 0.09 0.09 0.09 0.11 0.12 0.11 0.12

6 0.14 0.09 0.17 0.35 0.13 0.18 0.20 0.20 0.27 0.06 0.48 0.14

7 1.07 0.71 1.34 2.49 0.91 1.33 1.58 1.55 2.16 0.45 3.65 1.07

8 0.15 0.13 0.10 0.23 0.17 0.18 0.18 0.25 0.20 0.05 0.28 0.15

12.1 12.2 12.8 12.2 10.7 15.8 13.2 12.1 12.1

9 9.03 7.95 2.38

1 3 0 0 3 1 2 6 1

93.2 69.7 97.8 91.0 57.8 92.3 85.8 125. 105. 19.0 91.8 93.2

10

5 5 3 0 3 3 0 00 75 0 8 5

11 1.64 1.52 2.17 2.04 1.93 1.89 2.10 1.87 1.72 0.81 2.35 1.64

12 1.37 1.11 5.04 4.99 3.04 2.64 5.38 2.18 1.66 0.94 3.89 1.37

13 0.39 0.22 0.58 0.50 0.27 0.37 0.33 0.30 0.33 1.03 0.73 0.39

34.9 21.2 38.3 36.2 30.2 28.9 34.7 21.9 29.5 21.6 41.9 34.9

14

8 7 5 4 3 6 0 4 9 3 2 8

15 0.53 0.47 0.98 0.92 0.54 0.59 0.58 0.61 0.76 0.18 1.01 0.53

16 4.10 3.56 7.87 6.56 3.92 4.41 4.67 4.83 6.07 1.43 7.51 4.10

12.2 12.4 13.7 12.7 10.8 16.7 13.1 14.6 12.9 12.2

17 9.42 7.99

1 8 4 4 0 2 9 7 8 1

18 0.92 0.68 1.57 1.42 0.82 0.95 0.91 0.91 1.09 1.21 1.74 0.92

12.5 10.0 12.8

19 7.10 5.23 5.86 7.07 7.31 7.20 8.71 9.67 7.10

4 8 9

20 3.00 1.67 4.67 3.53 1.94 2.66 2.64 2.37 2.64 8.24 5.38 3.00

Table 48. Correlation (Cor.) IDs: 1, 2, 3, 4, 5, ...etc. refer to those described in Table 45 above [Brachypodium correlated parameters (vectors)]. The Brachypodium accession numbers are Line 13, Line 14, etc.

Table 49

Measured parameters of correlation IDs in Brachypodium accessions under normal conditions

Line

1

L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9 L-10 L-ll L-12

Cor.

ID

1 3.75 3.78 3.35 4.89 5.54 4.98 4.83 5.54 3.84 4.76 4.73 5.24

2 0.06 0.04 0.05 0.08 0.04 0.06 0.05 0.04 0.08 0.06 0.05 0.05

3 1.67 1.62 1.62 1.69 1.82 1.83 1.75 1.93 1.68 1.82 1.69 1.91

4 0.10 0.10 0.09 0.09 0.11 0.11 0.10 0.11 0.10 0.11 0.10 0.12

5 0.73 0.72 0.72 0.74 0.83 0.82 0.78 0.90 0.75 0.79 0.75 0.86

6 0.18 0.17 0.17 0.16 0.16 0.17 0.17 0.16 0.17 0.18 0.17 0.19

7 0.14 0.06 0.08 0.26 0.14 0.14 0.14 0.11 0.08 0.07 0.39 0.14

8 1.05 0.44 0.61 1.96 1.11 1.07 1.09 0.84 0.50 0.39 3.07 1.09

9 0.13 0.14 0.15 0.21 0.20 0.16 0.14 0.26 0.07 0.11 0.22 0.09

16.3 11.6 10.4 14.1 11.8 23.7 16.0

10 7.08 6.59 9.09 5.88 8.02

0 3 8 3 9 5 6 Line

1

L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9 L-10 L-ll L-12

Cor.

ID

121. 56.6 52.7 83.4 82.4 70.1 110. 47.0 81.5 48.6 185. 125.

11

75 0 5 0 0 3 33 0 0 0 50 00

12 3.00 2.60 3.00 2.20 2.00 2.25 1.83 2.00 3.50 2.00 2.50 2.40

13 2.10 2.10 1.72 1.69 1.38 1.65 1.43 1.25 2.41 1.56 1.76 1.83

14 5.27 2.50 2.06 2.08 0.71 1.94 1.08 0.35 7.59 1.87 4.98 3.70

27.6 35.3 21.6 14.0 15.4 55.4 16.5 15.5 20.3

15 5.42 6.40 4.51

2 3 7 0 2 1 1 2 4

16 0.42 0.12 0.13 0.38 0.32 0.32 0.39 0.13 0.44 0.31 0.87 0.69

31.6 23.4 22.7 31.9 34.3 28.6 28.8 24.7 31.4 29.1 37.3 45.0

17

5 4 5 5 6 5 8 4 0 5 0 9

18 7.50 8.00 8.00 7.20 7.80 7.75 7.83 8.00 6.50 6.40 7.75 8.00

19 0.96 0.31 0.33 0.88 0.44 0.56 0.67 0.26 0.92 0.45 1.14 0.83

20 7.18 2.50 2.68 6.42 3.45 4.29 5.29 2.04 6.25 2.66 8.89 6.65

21 0.71 0.72 0.73 0.71 0.58 0.66 0.64 0.66 0.69 0.61 0.59 0.54

16.8 11.9 10.6 14.5 12.3 25.5 16.5

22 7.20 7.00 9.38 6.35 8.61

4 7 7 8 8 0 6

23 1.38 0.43 0.47 1.25 0.76 0.88 1.06 0.38 1.36 0.76 2.01 1.53

10.2 15.7 12.2

24 3.45 3.74 9.12 6.00 6.78 8.34 3.04 9.21 4.47

6 9 0

25 3.08 0.95 1.06 2.69 2.55 2.48 3.05 1.00 2.96 1.81 6.89 5.55

Table 49. Correlation (Cor.) IDs: 1, 2, 3, 4, 5, ...etc. refer to those described in Table 46 above [Brachypodium correlated parameters (vectors)]. The Brachypodium accession numbers are Line 12, Line 13, Line 13, etc.

Table 50

Measured parameters of correlation IDs in additional brachypodium

normal conditions

Line/

Cor. L-13 L-14 L-15 L-16 L-17 L-18 L-19 L-20 L-21 L-22 ID

1 4.96 4.00 4.26 5.99 4.34 3.70 3.90 4.82 4.87 3.76

2 0.06 0.10 0.08 0.08 0.06 0.09 0.04 0.06 0.09 0.09

3 1.71 1.81 1.76 1.87 1.66 1.65 1.60 1.80 1.90 1.68

4 0.10 0.10 0.09 0.12 0.09 0.09 0.09 0.11 0.11 0.09

5 0.74 0.84 0.80 0.84 0.74 0.75 0.72 0.79 0.87 0.76

6 0.17 0.15 0.14 0.18 0.16 0.15 0.15 0.17 0.17 0.15

7 0.13 0.37 0.49 0.31 0.20 0.35 0.27 0.32 0.44 0.30

8 1.07 2.99 3.52 2.41 1.47 2.58 2.04 2.58 3.40 1.92

9 0.18 0.09 0.16 0.18 0.11 0.21 0.17 0.15 0.18 0.09

10 9.74 22.19 24.32 13.25 19.22 16.11 21.40 25.88 17.05 25.54

11 80.75 177.5 172.8 98.6 143.2 123.5 156.8 207 135 177

12 2.00 3.50 3.80 2.80 2.83 2.83 2.33 2.60 4.50 3.17

13 1.42 2.71 2.61 2.12 2.16 2.17 1.85 1.93 2.85 2.79

14 0.89 12.58 12.13 6.35 7.15 9.44 5.02 4.90 7.72 15.36

15 8.11 53.21 47.81 42.81 34.92 52.41 20.84 17.55 47.73 59.01 Line/

Cor. L-13 L-14 L-15 L-16 L-17 L-18 L-19 L-20 L-21 L-22 ID

16 0.34 1.72 1.32 0.48 0.63 0.82 0.68 0.87 1.05 1.73

17 22.39 55.04 45.34 40.20 39.18 45.35 29.41 38.39 46.74 58.82

18 8.25 8.00 7.00 7.60 7.33 7.50 7.33 8.00 7.88 6.83

19 0.59 2.27 1.91 1.09 1.26 1.46 0.96 1.56 1.42 2.25

20 4.92 18.15 13.49 8.35 9.42 11.31 7.16 12.44 11.05 15.55

21 0.68 0.56 0.59 0.70 0.66 0.68 0.60 0.65 0.58 0.57

22 10.54 27.15 26.30 13.56 20.79 16.99 23.61 27.20 18.25 29.09

23 0.94 3.99 3.23 1.57 1.89 2.28 1.63 2.43 2.47 3.98

24 7.76 31.94 22.78 12.04 14.14 17.78 12.29 19.40 19.27 27.67

25 2.84 13.80 9.28 3.70 4.72 6.47 5.13 6.96 8.23 12.12

Table 50. Correlation (Cor.) IDs: 1, 2, 3, 4, 5, ...etc. refer to those described in Table 46 above [Brachypodium correlated parameters (vectors)]. The Brachypodium accession numbers are Line 12, Line 13, Line 13, etc.

Table 51

Measured parameters of correlation IDs in Brachypodium accessions under low N vs. normal conditions

Table 51. Correlation IDs: 1, 2, 3, 4, 5, ...etc. refer to those described in Table 45 above [Brachypodium correlated parameters (vectors)]. The Brachypodium accession numbers are Line 1, Line 2, etc. Phenotypic ratio of low N versus normal conditions (Maintenance of performance under low N conditions) was calculated and correlation of this ratio with expression under low N conditions was calculated. Table 52

Measured parameters of correlation IDs in additional brachypodium accessions under low N vs. normal conditions

Table 52: Correlation IDs: 1, 2, 3, 4, 5, ...etc. refer to those described in Table 45 above [Brachypodium correlated parameters (vectors)]. The Brachypodium accession numbers are Line 12, Line 13, etc. Phenotypic ratio of low N versus normal conditions (Maintenance of performance under low N conditions) was calculated and correlation of this ratio with expression under low N conditions was calculated.

Table 53

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under low nitrogen fertilization conditions across brachypodium accessions

Gene Exp Cor. Gene Exp. Cor.

R P value R P value

Name . set Set ID Name set Set ID

1.05E-

WNU45 0.705 19 WNU45 0.727 7.40E-03

02 1 1 15

8.54E-

WNU45 0.718

03 1 13 WNU45 0.704 1.06E-02 1 16

7.33E-

WNU45 0.727

03 1 18 WNU46 0.828 8.80E-04 1 10

2.32E-

WNU46 0.870 WNU46 0.905 5.28E-05 19

04 1 17 1

4.75E-

WNU46 0.907 .712 9.41E-03

05 1 15 WNU46 0 1 1 Gene Exp Cor. Gene Exp. Cor.

R P value R P value

Name . set Set ID Name set Set ID

6.89E-

WNU46 0.899 908 4.46E-05 1 13

05 1 20 WNU46 0.

1.57E-

WNU46 0.805 12 WNU46 0.900 6.73E-05 1 16

03 1

4.49E-

WNU46 0.851 WNU46 0.732 6.77E-03 1 14

04 1 11

3.51E-

WNU46 0.858 9 WNU46 0.792 2.15E-03 1 3

04 1

3.46E-

WNU46 0.913 18 WNU47 0.801 1.74E-03 2 1

05 1

1.29E-

WNU47 0.813 12 WNU47 0.747 5.28E-03 2 11

03

9.40E-

WNU47 0.712

03 1 10 WNU47 0.704 1.07E-02 1 17

5.42E-

WNU47 0.745

03 1 9 WNU50 0.790 2.22E-03 2 10

2.47E-

WNU49 0.785

03 1 2 WNU50 0.816 1.20E-03 2 19

5.01E-

WNU50 0.749 2 17 WNU50 0.855 3.95E-04 2 1

03

2.20E-

WNU50 0.791 2 15 WNU50 0.789 2.30E-03 2 13

03

1.48E-

WNU50 0.808 2 20 WNU50 0.814 1.26E-03 2 16

03

6.40E-

WNU50 0.901 2 12 WNU50 0.797 1.90E-03 2 14

05

4.28E-

WNU50 0.852 2 11 WNU50 0.795 2.02E-03 2 18

04

3.18E-

WNU50 0.773 2 9 WNU51 0.838 6.71E-04 2 15

03

2.93E-

WNU51 0.864 2 19 WNU51 0.890 1.07E-04 2 20

04

6.06E-

WNU51 0.841 2 6 WNU51 0.747 5.23E-03 2 12

04

9.39E-

WNU51 0.893 2 13 WNU51 0.770 3.38E-03 2 11

05

6.89E-

WNU51 0.837 2 16 WNU51 0.839 6.47E-04 2 7

04

1.88E-

WNU51 0.798 2 14 WNU51 0.781 2.71E-03 2 3

03

1.06E-

WNU51 0.704 2 9 WNU52 0.718 8.52E-03

02 1 19

2.72E-

WNU51 0.866 2 18 WNU52 0.871 2.29E-04

04 1 1

8.04E-

WNU52 0.722 1 15 WNU52 0.708 9.92E-03

03 1 13

1.03E-

WNU52 0.706 1 20 WNU52 0.720 8.25E-03

02 1 16

4.19E-

WNU52 0.853 1 12 WNU52 0.788 2.35E-03

04 1 14 Gene Exp Cor. Gene Exp. Cor.

R P value R P value

Name . set Set ID Name set Set ID

4.32E-

WNU52 0.852 1 11 WNU52 0.720 8.22E-03 1 18

04

9.45E-

WNU52 0.712 1 9

03

Table 53. "Cor. ID " - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

Table 54

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under normal nitrogen fertilization conditions across brachypodium accessions

Table 54. "Cor. ID " - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

Table 55

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under low nitrogen fertilization vs. normal conditions across brachypodium accessions

Table 55. "Corr. ID " - correlation set ID according to the correlated parameters Table above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

EXAMPLE 12

PRODUCTION OF FOXTAIL MILLET TRANSCRIPTOME AND HIGH THROUGHPUT CORRELATION ANALYSIS USING 60K FOXTAIL MILLET

OLIGONUCLEOTIDE MICRO-ARRAY

In order to produce a high throughput correlation analysis comparing between plant phenotype and gene expression level, the present inventors utilized a foxtail millet oligonucleotide micro-array, produced by Agilent Technologies [chem. (dot) agilent (dot) com/Scripts/PDS (dot) asp?lPage=50879]. The array oligonucleotide represents about 60K foxtail millet genes and transcripts. In order to define correlations between the levels of RNA expression and yield or vigor related parameters, various plant characteristics of 14 different foxtail millet accessions were analyzed. Among them, 11 accessions encompassing the observed variance were selected for RNA expression analysis. The correlation between the RNA levels and the characterized parameters was analyzed using Pearson correlation test [davidmlane (dot) com/hyperstat/A34739 (dot) html] .

Experimental procedures

Fourteen Foxtail millet accessions in 5 repetitive plots, in the field. Foxtail millet seeds were sown in soil and grown under normal condition [15 units of Nitrogen (kg nitrogen per dunam)], reduced nitrogen fertilization (2.5-3.0 units of Nitrogen in the soil (based on soil measurements) and reduced stands in the field [i.e., 8 plants per meter per row as compared to "standard" stands of 17 plants per meter row] .

Analyzed Foxtail millet tissues - three tissues at different developmental stages [leaf, flower, and stem], representing different plant characteristics, were sampled and RNA was extracted as described above. Each micro-array expression information tissue type has received a Set ID as summarized in Tables 56-57 below.

Table 56

Foxtail millet transcriptome expression sets under normal conditions

Table 56. Provided are the foxtail millet transcriptome expression sets under normal conditions

Table 57

Foxtail millet transcriptome expression sets under low N conditions

Expression Set Set ID

Low N/flag leaf:Low N:grainfilling: 1

Low N/flag leaf:Low N:heading: 2

Low N/flower:Low N:heading: 3

Low N/head:Low N:grainfilling: 4 Low N/low stem:Low N:heading: 5

Low N/mature leaf:Low N:grainfilling: 6

Low N/stem node:Low N:grainfilling: 7

Low N/up stem:Low N:grainfilling: 8

Low N/up stem:Low N:heading: 9

Low N/vein:Low N:grainfilling: 10

Table 57. Provided are the foxtail millet transcriptome expression sets under low N conditions

Foxtail millet yield components and vigor related parameters assessment - Plants were continuously phenotyped during the growth period and at harvest (Tables 58-59, below). The image analysis system included a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.37 (Java based image processing program, which was developed at the U.S. National Institutes of Health and freely available on the internet [rsbweb (dot) nih (dot) gov/]. Next, analyzed data was saved to text files and processed using the JMP statistical analysis software (SAS institute).

The following parameters were collected using digital imaging system:

At the end of the growing period the grains were separated from the Plant 'Head' and the following parameters were measured and collected:

(i) Average Grain Area (cm ) - A sample of -200 grains was weighted, photographed and images were processed using the below described image processing system. The grain area was measured from those images and was divided by the number of grains.

(ii) Average Grain Length and width (cm) - A sample of -200 grains was weighted, photographed and images were processed using the below described image processing system. The sum of grain lengths and width (longest axis) was measured from those images and was divided by the number of grains.

At the end of the growing period 14 'Heads' were photographed and images were processed using the below described image processing system.

(i) Head Average Area (cm ) - The 'Head' area was measured from those images and was divided by the number of 'Heads' .

(ii) Head Average Length (mm) - The 'Head' length (longest axis) was measured from those images and was divided by the number of 'Heads' .

The image processing system was used, which consists of a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.37, Java based image processing software, which was developed at the U.S. National Institutes of Health and is freely available on the internet at rsbweb (dot) nih (dot) gov/. Images were captured in resolution of 10 Mega Pixels (3888x2592 pixels) and stored in a low compression JPEG (Joint Photographic Experts Group standard) format. Next, image processing output data for seed area and seed length was saved to text files and analyzed using the JMP statistical analysis software (SAS institute).

Additional parameters were collected either by sampling 5 plants per plot (SP) or by measuring the parameter across all the plants within the plot (RP).

Total Grain Weight (gr.) - At the end of the experiment (plant 'Heads') heads from plots were collected, the heads were threshed and grains were weighted. In addition, the average grain weight per head was calculated by dividing the total grain weight by number of total heads per plot (based on plot).

Head weight and head number - At the end of the experiment, heads were harvested from each plot and were counted and weighted (kg.).

Biomass at harvest - At the end of the experiment the vegetative material from plots was weighted.

Dry weight - total weight of the vegetative portion above ground (excluding roots) after drying at 70°C in oven for 48 hours at harvest.

Total dry mater per plot - Calculated as Vegetative portion above ground plus all the heads dry weight per plot.

Num days to anthesis - Calculated as the number of days from sowing till 50% of the plot arrives anthesis.

Total No. of tillers - all tillers were counted per plot at two time points at the Vegetative growth (30 days after sowing) and at harvest.

SPAD - Chlorophyll content was determined using a Minolta SPAD 502 chlorophyll meter and measurement was performed at time of flowering. SPAD meter readings were done on young fully developed leaf. Three measurements per leaf were taken per plot.

Root FW (gr.), root length (cm) and No. of lateral roots - one plant per plot (5 repeated plots) were selected for measurement of root weight, root length and for counting the number of lateral roots formed. Shoot FW (fresh weight) - weight of one plant per plot were recorded at different time- points.

Grain N (H) - % N content of dry matter in the grain at harvest.

Head N (GF) - % N content of dry matter in the head at grainfilling.

Total shoot N - calculated as the % N content multiplied by the weight of plant shoot Total grain N - calculated as the % N content multiplied by the weight of plant grain yield.

NUE [kg/kg] - is the ratio between total grain yield per total N applied in soil.

NUpE [kg/kg] - is the ratio between total plant biomass per total N applied in soil. Grain NUtE - is the ratio between grain yield per total shoot N.

Total NUtE - is the ratio between grain and shoot biomass per total shoot N.

Stem Volume of lower stem - the calculated volume of the lowest internode.

Stem Volume of upper stem - the calculated volume of the internode just below the head.

Stem density - is the ratio between internode dry weight and internode volume.

Maintenance of performance under low N conditions - Represent ratio for the specified parameter of low N condition results divided by Normal conditions results (maintenance of phenotype under low N in comparison to normal conditions).

Data parameters collected are summarized in Tables 58-59 herein below

Table 58

Foxtail millet correlated parameters under normal conditions (vectors)

Correlation set Correlation ID

Grain N (H) [%] 1

Grains Yield per plant (RP) [gr] 2

Grains yield (RP) [gr] 3

Head N (GF) [%] 4

Heads FW (RP) [gr] 5

Heads FW (SP) [gr] 6

Heads num (SP) 7

Heads weight (RP) [gr] 8

Heads weight (SP) [gr] 9

Heads weight per plant (RP) [gr] 10

Leaves num 1 11

Leaves num 2 12

Leaves num 3 13

Leaves num 4 14

Leaves temperature 1 [C] 15

Table 58. Provided are the foxtail millet collected parameters under normal conditions.

"num" = number. Table 59

Foxtail millet correlated parameters under low N conditions (vectors)

Correlation set Correlation ID

Plant height 4 NUE ratio 48

Plant num at harvest 49

Plant weight growth [gr/day] 50

Plant weight growth NUE ratio 51

Root length [cm] 52

Root length NUE ratio 53

SPAD (F) 54

SPAD (F) NUE ratio 55

SPAD 1 56

SPAD 2 57

Shoot C (H) [%] 58

Shoot DW 1 [gr] 59

Shoot DW 2[gr] 60

Shoot DW 3[gr] 61

Shoot DW 3 NUE ratio 62

Shoot N (H) [%] 63

Shoot N (H) NUE ratio 64

Tillering 1 65

Tillering 2 66

Tillering 3 67

Tillering 3 NUE ratio 68

Total grain N (H) [mg] 69

Total grain N (H) NUE ratio 70

Total shoot N (H) [mg] 71

Total shoot N (H) NUE ratio 72

Upper Stem DW (F)[gr] 73

Upper Stem FW (F) [gr] 74

Upper Stem length (F) [cm] 75

Upper Stem width (F) [cm] 76

Upper stem DW/cm [gr/cm] 77

Upper stem DW/cm NUE ratio 78

Upper stem density [gr/cm ³ ] 79

Upper stem density NUE ratio 80

Vegetative DW (RP) [gr] 81

Vegetative DW (SP) [gr] 82

Vegetative DW per plant[gr] 83

Vegetative DW per plant NUE ratio 84

Vegetative FW (RP) [gr] 85

Vegetative FW (SP) [gr] 86 grain NUtE 87 grain NUtE NUE ratio 88 lower stem volume (F) 89 lower stem volume (F) NUE ratio 90 shoot C/N (H) 91 shoot C/N (H) NUE ratio 92 total NUtE 93 total NUtE NUE ratio 94 upper stem volume [cm ³ ] 95 upper stem volume NUE ratio 96

Table 59. Provided are the foxtail millet collected parameters unc er low N conditions. Experimental Results

Fourteen different foxtail millet accessions were grown and characterized for different parameters as described above. The average for each of the measured parameters was calculated using the JMP software and values are summarized in Tables 60-61 below. Subsequent correlation analysis between the various transcriptome sets and the average parameters was conducted. Follow, results were integrated to the database.

Table 60

Measured parameters of correlation IDs in foxtail millet accessions under

normal conditions

Cor.

ID/ L- L- L- L- L-

L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

Lin 10 11 12 13 14 e

1 1.77 2.36 NA 1.98 2.07 2.13 2.13 NA 1.79 3.05 NA 1.85 NA 1.97

34.7 23.0 24.8 31.0 26.6 28.3 34.9 26.4 48.3 22.3 31.5 30.1 29.9

2 9.38

1 0 4 7 4 2 2 0 5 5 3 0 8

108 679. 727. 797. 792. 856. 902. 803. 112 584. 268. 818. 800. 818.

3

6.00 20 60 60 40 80 80 60 0.80 40 00 80 80 40

4 1.72 2.21 NA 2.30 1.97 2.07 2.45 NA 1.93 1.81 NA 2.17 NA 2.26

5 1.80 1.12 1.07 1.34 1.32 1.11 1.36 1.16 1.69 1.44 0.57 1.13 1.23 1.27

6 0.24 0.17 0.18 0.27 0.21 0.23 0.28 0.25 0.39 0.25 0.13 0.25 0.31 0.29

94.0 87.6 295. 114. 122. 29.8 129. 11.0 13.2 53.6 32.8 60.6 323.

7 7.20

0 0 40 00 40 0 20 0 0 0 0 0 20

8 1.31 0.87 0.89 1.07 1.02 0.98 1.10 0.98 1.29 1.03 0.42 1.00 0.99 1.02

9 0.18 0.10 0.12 0.24 0.21 0.23 0.22 0.24 0.30 0.18 0.10 0.22 0.24 0.23

41.7 29.3 30.2 41.5 34.3 32.5 41.8 32.1 60.6 39.9 14.6 38.4 37.4 37.4

10

8 3 6 7 8 2 1 0 1 1 1 1 7 2

11 4.07 5.33 4.13 5.07 5.00 4.27 3.67 3.77 3.79 3.73 4.00 3.90 4.03 5.23

12 NA NA NA NA NA NA NA NA NA NA NA NA NA NA

13 5.30 2.90 2.94 3.55 3.90 4.13 4.40 4.10 3.90 4.35 3.25 3.30 3.75 3.70

14 7.90 4.70 4.50 5.30 6.55 6.35 7.15 7.00 6.65 5.90 4.80 5.20 5.20 9.25

27.7 28.0 28.3 28.2 27.9 27.5

15 NA NA NA NA NA NA NA NA

0 2 5 3 6 4

30.1 30.9

16 NA NA NA NA NA NA NA NA NA NA NA NA 8 2

17 0.71 NA 0.30 0.16 0.15 0.20 0.61 0.17 0.86 NA NA 0.55 0.93 0.09

18 4.21 NA 1.43 0.69 0.64 0.64 2.50 0.76 3.13 NA NA 3.64 5.49 0.39

10.2 10.1 12.2

19 8.35 NA 8.75 6.69 7.64 8.08 7.15 9.15 NA NA 8.98

5 8 6

20 7.24 NA 4.16 3.12 3.33 3.18 5.57 3.61 6.95 NA NA 6.23 6.75 2.24

21 0.08 NA 0.03 0.02 0.02 0.03 0.08 0.02 0.09 NA NA 0.05 0.08 0.01

22 0.21 NA 0.22 0.23 0.26 0.33 0.31 0.23 0.25 NA NA 0.18 0.21 0.24

23 1.83 1.21 1.31 1.64 1.40 1.49 1.84 1.39 2.54 1.18 0.49 1.66 1.58 1.58

24 0.91 0.87 NA 0.93 0.92 0.93 0.93 NA 0.93 0.88 NA 0.90 NA 0.87

35.5 32.8 34.7 31.4 33.9 41.8 48.9 40.6 34.0 35.9

25 NA NA 0.00 NA

4 5 2 0 0 2 0 0 4 0 Cor.

ID/ L- L- L- L- L-

L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

Lin 10 11 12 13 14 e

54.0 63.4 59.4 39.6 46.0 40.8 50.0 39.0 54.0 71.0 61.0 63.0 61.0 42.0

26

0 0 0 0 0 0 0 0 0 0 0 0 0 0

75.0 75.0 75.0 98.0 109. 98.0 98.0

27 NA NA NA NA NA NA NA

0 0 0 0 00 0 0

28 NA NA NA NA NA NA NA NA NA NA NA NA NA NA

29 2.10 1.42 1.32 2.10 1.93 2.44 1.84 2.56 1.91 0.97 1.16 1.35 1.50 2.12

30 3.72 2.92 3.25 3.55 3.45 3.68 2.92 3.63 4.12 2.47 3.10 3.58 3.43 3.63

31 NA NA NA NA NA NA NA NA NA NA NA NA NA NA

26.6 17.6 18.0 25.8 23.3 28.6 21.5 30.5 26.0 16.7 17.8 19.5 20.7 24.5

32

3 8 0 3 5 0 3 3 3 8 0 3 5 5

45.9 31.8 29.7 46.0 42.8 53.6 40.6 55.6 42.1 20.5 25.7 30.3 33.3 47.3

33

8 0 5 8 8 3 8 3 0 3 5 0 0 1

31.4 29.6 29.8 26.0 30.0 30.2 27.7 30.7 23.6 26.0 29.4 26.2 27.0 27.4

34

0 0 0 0 0 0 5 5 0 0 0 0 0 0

35 2.85 3.12 5.11 4.35 2.87 3.11 2.93 3.40 4.79 3.15 3.41 3.12 2.04 4.51

36 NA NA NA NA NA NA NA NA NA NA NA NA NA NA

60.8 54.6 49.9 57.4 58.5 55.4 55.0 55.9

37 NA NA NA NA NA NA

2 8 3 7 9 0 4 0

54.6 49.9 57.4 58.5 55.4 55.9

38 NA NA NA NA NA NA NA NA

8 3 7 9 0 0

60.8 55.0

39 NA NA NA NA NA NA NA NA NA NA NA NA 2 4

12.7 19.5 14.4 20.7 20.6 21.0 14.0 18.8 14.1 11.6 19.6 18.3 10.8 17.1

40

5 2 3 0 3 1 1 0 7 2 2 6 1 3

57.0 65.7 54.2 59.7 60.7 71.9 53.9 71.6 87.5 52.6 52.3 77.3 63.5 66.4

41

6 0 9 8 6 9 8 8 5 3 3 1 0 8

88.8 97.8 162. 135. 100. 103. 97.3 118. 142. 98.2 116. 103. 72.9 143.

42

7 7 66 96 39 33 1 42 38 3 82 25 4 65

43 1.87 1.52 NA 1.78 1.99 1.79 1.63 NA 1.53 1.21 NA 1.23 NA 2.60

44 NA NA NA NA NA NA NA NA NA NA NA NA NA NA

21.1 16.7 34.3 17.1 10.8 11.8 39.1

45 1.06 3.29 2.20 3.00 9.50 6.80 4.45

5 5 0 5 5 1 0

10.3 10.7 16.7

46 1.40 7.60 6.40 9.20 2.22 4.67 2.70 3.50 6.50 5.80 6.80

0 0 0

612. 543. 613. 551. 602. 742. 865. 682. 583. 590.

47 NA NA NA NA

84 69 75 78 01 76 05 14 65 90

62.4 80.4 45.8 44.7 42.0 51.8 64.0 89.2 63.0 91.2

48 NA NA NA NA

0 7 8 9 5 5 3 2 5 7

49 0.81 NA 0.24 0.24 0.14 0.21 0.32 0.53 0.41 NA NA 0.37 0.77 0.08

50 3.24 NA 0.48 0.67 0.43 0.50 1.28 0.93 1.49 NA NA 0.68 0.89 0.21

33.6 17.6 36.2 19.6 27.8 26.1 38.7 24.4 21.9 16.4 21.9

51 NA NA NA

7 6 5 0 8 8 4 7 3 7 0

52 3.68 NA 1.78 1.51 1.59 1.50 2.55 1.90 3.19 NA NA 1.92 2.70 0.97

53 0.02 NA 0.01 0.01 0.01 0.01 0.01 0.01 0.02 NA NA 0.02 0.05 0.00

54 0.23 NA 0.55 0.38 0.35 0.42 0.24 0.48 0.21 NA NA 0.59 0.82 0.51

55 1.06 1.56 1.17 0.67 0.67 0.71 0.87 0.58 0.98 1.91 2.80 1.34 1.53 0.88

56 0.13 0.23 0.21 0.11 0.11 0.13 0.16 0.12 0.18 0.34 0.57 0.29 0.44 0.18

33.3 52.7 41.1 25.8 22.5 23.5 31.9 18.9 41.9 73.7 101. 51.4 57.7 35.0

57

5 7 0 0 2 4 0 3 6 1 16 5 0 7

58 3.19 3.85 2.78 1.98 2.15 1.57 2.19 1.68 2.42 5.52 5.17 3.34 3.63 2.05

59 0.45 0.57 0.53 0.39 0.27 0.37 NA 0.37 0.58 0.97 1.10 0.71 1.04 0.44

60 0.56 0.29 NA 0.68 0.59 0.67 0.67 NA 0.76 0.25 NA 0.50 NA 0.33 Cor.

ID/ L- L- L- L- L-

L-l L-2 L-3 L-4 L-5 L-6 L-7 L-9

Lin 10 11 12 13 14 e

61 3.44 NA 1.39 0.67 0.58 0.61 1.97 0.73 3.47 NA NA 3.10 4.38 0.35

62 0.10 0.12 NA 0.09 0.08 0.08 0.08 NA 0.10 0.12 NA 0.13 NA 0.10

63 3.57 NA 0.44 0.65 0.39 0.49 1.34 1.10 1.96 NA NA 0.64 0.94 0.16

Table 60: Provided are the values of each of the parameters (as described in Table 58 above) measured in Foxtail millet accessions (lines; "L") under normal growth conditions. Growth conditions are specified in the experimental procedure section. "NA" = not available.

Table 61

Additional measured parameters of correlation IDs in foxtail millet accessions under low N conditions

Cor

L- L- L- L- L-

ID/ L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

10 11 12 13 14 Lin

e

2.0 1.6 1.9 2.2 1.4

1 NA 1.86 1.59 NA 1.76 NA 1.81 NA 1.94

3 0 7 6 3

0.8 0.8 0.9 0.8

2 NA NA 0.77 NA NA 0.58 NA 0.98 NA 0.98

6 1 3 0

29. 20. 34.4 29. 22.3 23. 22.5 20. 37. 25.3 20. 33.9 34. 26.2

3

85 46 4 75 1 02 9 66 09 9 97 6 85 2

0.8 0.8 0.9 0.8 0.7 0.7 2.2 1.1

4 1.39 0.84 0.65 1.14 1.08 0.87

6 9 6 1 8 7 4 6

936 622 923. 819 726. 683 622. 636 944 693. 644 866. 896 662.

5

.40 .80 60 .50 80 .50 80 .50 .00 60 .80 40 .00 50

1.9 1.2 1.2 1.9 1.9

6 NA 1.84 1.64 NA 1.71 NA 2.10 NA 2.13

7 0 3 1 2

0.8 0.5 0.5 1.0

7 NA NA 0.83 NA NA 0.95 NA 0.97 NA 0.94

9 2 9 0

1.6 1.0 1.4 0.8 0.9 1.5 0.9 1.2

8 1.38 1.14 0.97 1.48 1.15 0.98 0 1 2 9 8 2 9 8

0.2 0.1 0.2 0.1 0.1 0.3 0.1 0.3

9 0.22 0.15 0.19 0.28 0.27 0.23

5 6 6 8 7 1 5 0

8.2 57. 64.6 214 69.2 117 31.8 99. 7.0 14.6 30. 28.8 68. 215.

10

0 00 0 .00 0 .75 0 20 0 0 80 0 20 25

1.1 0.6 0.7 0.9 0.7 0.6 0.5 1.1

11 0.74 0.61 1.07 1.11 0.88 0.67 4 1 2 6 7 4 7 3

1.1 0.8 1.0 0.7 0.7 1.1 0.8 1.0

12 1.17 0.88 0.76 1.07 1.01 0.82

8 1 6 7 8 4 0 9

0.1 0.1 0.2 0.1 0.1 0.2 0.1 0.2

13 0.18 0.17 0.14 0.21 0.24 0.17

8 6 3 9 8 4 2 6

37. 26. 37.2 38. 26.9 25. 27.6 25. 45. 39.2 26. 39.7 42. 32.6

14

59 53 2 71 8 86 1 30 06 6 08 2 38 7

0.9 0.9 0.9 0.8 0.7 0.7 1.7 1.1

15 1.23 0.78 0.66 0.98 1.03 0.87 0 0 3 0 9 4 8 3

4.2 2.6 2.5 2.2 3.0 3.4 2.9 3.3

16 2.80 2.60 3.57 3.83 3.07 3.20 7 0 3 8 0 0 0 7

17 NA NA NA NA NA NA NA NA NA NA NA NA NA NA Cor

L- L- L- L- L-

ID/ L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

10 11 12 13 14 Lin

e

5.9 3.4 3.5 4.1 5.0 3.9 3.5 3.8

18 3.20 3.95 4.90 4.45 3.75 3.35 0 5 0 5 0 5 5 0

6.5 3.6 3.9 5.0 5.2 4.7 3.2 4.3

19 3.15 3.75 6.15 5.15 3.65 3.30 0 5 0 5 0 5 0 0

0.8 0.7 0.7 0.8 0.7 0.7 0.6 0.8

20 0.70 0.57 0.86 0.87 0.70 0.36

2 8 4 0 4 1 7 3

26. 27.0 27. 27.6 27. 27.1

21 NA NA NA NA NA NA NA NA

30 9 81 5 92 8

30. 30.

22 NA NA NA NA NA NA NA NA NA NA NA NA

83 61

0.9 0.1 0.2 0.1 0.9 0.9

23 NA 0.30 0.14 0.55 NA NA 0.48 0.08

9 8 5 6 6 4

3.5 0.6 0.9 0.5 2.9 4.3

24 NA 1.50 0.54 1.93 NA NA 3.93 0.30 7 8 4 4 8 9

6.8 10.4 8.3 7.4 7.1 8.5 11.

25 NA 6.76 6.44 NA NA 9.94 8.67

1 6 4 6 6 0 84

6.8 2.9 3.1 3.1 6.4 6.0

26 NA 3.89 3.19 5.08 NA NA 6.52 2.13

5 6 8 1 3 8

0.1 0.0 0.0 0.0 0.1 0.0

27 NA 0.03 0.02 0.09 NA NA 0.05 0.01

5 2 3 2 1 8

1.7 1.2 1.2 0.9 1.1 1.0

28 NA 0.96 0.93 1.14 NA NA 0.89 0.96

2 1 8 6 9 4

0.4 0.3 0.4 0.3 0.3 0.2

29 NA 0.24 0.26 0.42 NA NA 0.14 0.26 0 1 2 0 5 7

1.9 1.3 1.2 1.3 1.3 1.2

30 NA 1.09 1.01 1.38 NA NA 0.81 1.06

2 5 8 0 9 8

29. 20. 34.4 29. 22.3 23. 22.5 20. 37. 25.3 20. 33.9 34. 26.2

31

85 46 4 75 1 02 9 66 09 9 97 6 85 2

16. 16. 26.3 18. 15.9 15. 12.2 14. 14. 21.5 42. 20.4 22. 16.6

32

34 90 4 19 1 45 9 87 57 8 49 7 00 2

0.8 0.9 0.9 0.9 0.9

33 NA 0.93 0.93 NA 0.86 NA 0.93 NA 0.90

9 2 4 5 3

1.0 0.9 1.0 0.9

34 NA NA 1.01 NA NA 0.97 NA 1.03 NA 1.04

3 9 0 9

464 688. 516 380. 484 493 572 517. 0.0 661. 565.

35 NA NA NA

.77 20 .07 02 .90 .50 .76 93 0 86 17

14. 14. 12.1 14. 11. 12.7 19.4 15.7

36 NA NA NA NA NA NA

15 87 0 30 71 6 5 4

54. 64. 58.6 40. 46.0 41. 51.6 39. 55. 72.4 61. 62.2 62. 42.8

37

00 00 0 40 0 60 0 00 40 0 00 0 40 0

1.0 1.0 1.0 1.0 1.0 1.0 1.0 1.0

38 0.99 1.00 1.03 1.02 0.99 1.02 0 1 2 2 0 3 0 2

90. 90. 90.0 75.0 75. 90. 98.0 109 98.0 98.

39 NA NA NA NA 00 00 0 0 00 00 0 .00 0 00

40 NA NA NA NA NA NA NA NA NA NA NA NA NA NA

41 NA NA NA NA NA NA NA NA NA NA NA NA NA NA

1.6 1.0 1.8 1.8 2.1 1.4 0.8 1.1

42 1.01 1.50 1.38 0.84 1.10 1.25 4 0 1 8 0 7 3 8

0.7 0.7 0.8 0.7 0.8 0.7 0.7 0.7

43 0.77 0.77 0.75 0.87 0.82 0.59

8 0 6 7 2 7 2 9 Cor

L- L- L- L- L-

ID/ L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

10 11 12 13 14 Lin

e

4.2 3.7 3.8 4.1 3.7 4.6 3.5 3.7

44 3.72 4.27 3.43 3.11 4.01 3.48

1 6 7 9 2 6 7 5

45 NA NA NA NA NA NA NA NA NA NA NA NA NA NA

22. 13. 16.2 23. 20.9 25. 17.7 24. 20. 15.0 14. 17.6 17. 19.1

46

50 98 0 93 5 05 8 19 66 6 03 8 45 8

37. 24. 23.5 40. 34.3 41. 31.3 47. 32. 18.2 19. 25.6 27. 27.9

47

08 13 5 30 3 91 8 50 75 3 80 3 18 5

0.8 0.7 0.8 0.7 0.8 0.7 0.7 0.8

48 0.79 0.80 0.77 0.89 0.85 0.59

1 6 7 8 5 8 7 2

31. 31. 28.6 27. 32.4 30. 28.2 30. 25. 27.6 30. 26.8 26. 25.5

49

40 00 0 50 0 00 0 80 20 0 60 0 60 0

2.2 3.4 2.2 3.7 2.1 2.5 2.3 4.0

50 3.31 2.83 1.75 2.71 2.63 3.44

1 2 1 9 8 2 7 9

0.7 1.1 0.5 1.2 0.6 0.5 0.7 2.0

51 0.65 0.98 0.60 0.86 0.84 0.76

7 0 1 2 4 3 0 1

52 NA NA NA NA NA NA NA NA NA NA NA NA NA NA

53 NA NA NA NA NA NA NA NA NA NA NA NA NA NA

58. 35. 39.0 48. 40.6 52. 59.1 52. 52. 43.7 36. 38.7 46. 45.3

54

57 92 5 28 5 33 0 85 22 6 61 4 16 8

0.9 0.8 0.9 0.9 0.9

55 NA NA 0.81 1.01 NA NA NA NA 0.81

6 8 1 5 5

57. 35. 39.0 48. 40.6 52. 59.1 52. 52. 43.7 36. 38.7 46. 45.3

56

92 92 5 28 5 33 0 85 32 6 61 4 16 8

60. 52.

57 NA NA NA NA NA NA NA NA NA NA NA NA

61 50

38. 37.8 38. 37.7 32. 38. 36. 38.1 37.4 39.4

58 NA NA NA NA

88 6 46 9 51 37 93 8 4 0

11. 8.1 14. 13.4 14. 12. 7.8 9.9 7.6 12.7

59 9.42 8.04 5.62 8.69

04 8 44 6 92 85 8 0 1 0

54. 53. 70.2 67. 76.0 85. 48.2 64. 54. 47.9 34. 40.2 61. 92.3

60

66 94 2 83 2 68 8 02 78 8 78 8 96 8

67. 101 95.2 66. 84.3 100 55.0 65. 74. 69.4 76. 81.1 118 94.5

61

28 .45 1 74 2 .27 5 93 17 7 90 0 .81 9

0.7 1.0 0.4 0.9 0.5 0.5 0.6 1.6

62 0.59 0.84 0.57 0.71 0.79 0.66

6 4 9 7 6 2 6 3

1.3 1.8 1.6 1.7 1.4

63 NA 1.28 1.68 NA 1.20 NA 1.05 NA 1.96

8 6 1 3 7

0.9 1.0 0.9 0.9

64 NA NA 0.85 NA NA 0.99 NA 0.85 NA 0.75

0 5 0 7

65 NA NA NA NA NA NA NA NA NA NA NA NA NA NA

1.0 10. 12.3 22. 14.0 10. 8.4 1.2 7.8 7.5 26.9

66 1.60 2.20 4.90

5 95 5 60 0 60 5 0 0 6 5

1.3 9.1 17. 12. 5.4 1.9 6.1 8.6 20.6

67 8.25 8.10 2.20 3.30 4.00

0 0 00 25 0 0 1 0 3

0.9 0.8 1.5 1.3 1.1 0.7 0.9 1.2

68 1.09 1.27 0.99 0.94 0.69 1.24

3 8 9 3 6 0 4 6

415 640. 475 353. 453 466 529 446. 614. 508.

69 NA NA NA NA

.32 96 .71 87 .77 .84 .91 46 57 79

0.7 0.7 0.7 0.6

70 NA NA 0.64 NA NA 0.65 NA 1.05 NA 0.86

6 8 5 1 Cor

L- L- L- L- L-

ID/ L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

10 11 12 13 14 Lin

e

49. 47.2 40. 26.1 31. 26. 42. 71.4 47.2 56.3

71 NA NA NA NA

45 4 36 5 13 66 84 7 9 8

0.6 0.8 0.7 0.6

72 NA NA 0.58 NA NA 0.80 NA 0.75 NA 0.62

1 8 4 7

0.7 0.1 0.2 0.3 0.5 0.7

73 NA 0.31 0.18 0.51 NA NA 0.68 0.09

5 8 5 4 1 6

2.6 0.5 0.5 0.7 1.5 1.3

74 NA 0.59 0.49 1.57 NA NA 0.90 0.20

5 4 5 2 3 4

29. 20.0 34. 26.9 32. 28.3 38. 22. 27.1 18. 26.9

75 NA NA NA

08 7 93 5 65 1 64 29 7 07 1

3.2 1.3 1.5 1.7 2.8 2.5

76 NA 1.71 1.53 2.58 NA NA 2.00 0.90

9 4 4 2 2 7

0.0 0.0 0.0 0.0 0.0 0.0

77 NA 0.02 0.01 0.02 NA NA 0.03 0.00

3 1 1 1 2 4

1.0 0.7 1.0 0.6 1.3 0.9

78 NA 1.14 0.97 1.47 NA NA 1.48 0.87

8 7 4 4 5 0

0.3 0.3 0.4 0.3 0.3 0.8

79 NA 0.68 0.37 0.35 NA NA 0.80 0.52 0 7 2 8 6 1

1.3 0.9 0.9 0.7 1.7 0.9

80 NA 1.23 1.06 1.44 NA NA 1.37 1.01

5 9 9 8 3 9

0.9 1.1 0.5 0.5 0.4 0.7 2.3 1.5

81 1.14 0.51 0.56 1.74 1.17 0.74

7 1 9 8 7 4 9 3

0.1 0.1 0.1 0.1 0.0 0.1 0.3 0.3

82 0.18 0.08 0.11 0.33 0.28 0.13

3 6 1 2 8 3 5 8

30. 35. 36.8 21. 15.5 19. 20.2 15. 29. 59.5 76. 45.1 59. 28.7

83

75 92 7 66 4 35 1 38 06 4 55 8 12 2

0.9 0.6 0.8 0.8 0.8 0.6 0.7 1.0

84 0.90 0.69 0.63 0.81 0.88 0.82

2 8 4 2 1 9 6 2

3.0 2.5 2.2 1.2 1.3 1.9 4.3 2.6

85 2.86 1.97 1.37 4.55 2.75 1.43

3 5 2 1 5 9 7 7

0.3 0.3 0.3 0.3 0.2 0.4 0.6 0.8

86 0.44 0.19 NA 0.87 0.65 0.33

9 6 8 2 4 3 4 0

0.4 0.7 0.7 0.7 0.8

87 NA 0.73 0.85 NA 0.36 NA 0.72 NA 0.47

1 4 4 7 7

1.4 1.0 1.1 1.1

88 NA NA 1.43 NA NA 1.42 NA 1.44 NA 1.42

5 9 0 5

2.5 0.5 0.5 0.5 2.7 3.4

89 NA 1.24 0.54 1.30 NA NA 3.31 0.31

1 7 9 4 6 4

0.7 0.8 0.9 0.7 0.8 0.7

90 NA 0.89 0.93 0.66 NA NA 1.07 0.88

3 6 8 4 0 8

28. 29.5 20. 22.4 20. 22. 25. 31.8 35.7 20.0

91 NA NA NA NA

24 5 64 5 20 14 05 1 7 8

1.0 0.9 1.0 1.0

92 NA NA 1.14 NA NA 1.00 NA 1.16 NA 1.28

2 0 1 0

0.1 0.1 0.0 0.0 0.1

93 NA 0.10 0.10 NA 0.16 NA 0.12 NA 0.10

2 0 9 7 2

1.0 1.1 1.0 1.1

94 NA NA 1.21 NA NA 1.32 NA 0.93 NA 1.02

0 6 9 9

2.4 0.4 0.6 0.8 1.3 0.9

95 NA 0.46 0.49 1.48 NA NA 0.85 0.17

6 9 0 9 9 4 Cor

L- L- L- L- L-

ID/ L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

10 11 12 13 14 Lin

e

0.6 0.7 1.2 0.8 0.7 1.0

96 NA 1.05 1.26 1.11 NA NA 1.34 1.06

9 5 3 1 1 0

Table 61 : Provided are the va ues oi each of the parameters (as describee in Ta ble 59 above) measured in Foxtail millet accessions (lines; "L") under low N conditions. Growth conditions are specified in the experimental procedure section. "NA" = not available. Table 62

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under low nitrogen fertilization conditions across foxtail millet accessions

Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

1.77E- 0.74 1.40E-

WNU1 0.938 3 34 WNU1 3 4

03 2 02

6.20E- 0.84 4.46E-

WNU1 0.731 3 2 WNU1 3 25

02 1 03

7.91E- 0.83 4.72E-

WNU1 0.701 3 92 WNU1 3 79

02 9 03

4.53E- 0.76 1.04E-

WNU1 0.765 3 36 WNU1 3 15

02 2 02

2.66E- 0.74 5.35E-

WNU1 0.812 3 70 WNU1 3 88

02 7 02

1.64E- 0.74 1.40E-

WNU1 0.765 3 71 WNU1 3 32

02 2 02

2.48E- 0.74 3.43E-

WNU1 0.772 8 91 WNU1 8 93

02 4 02

2.23E- 0.72 1.86E-

WNU1 0.707 9 81 WNU1 9 83

02 1 02

1.20E- 0.73 6.18E-

WNU1 0.893 9 71 WNU1 9 39

03 1 02

7.31E- 0.86 2.63E-

WNU1 0.816 1 90 WNU1 1 79

03 5 03

4.80E- 0.74 5.39E-

WNU1 0.759 1 36 WNU1 1 70

02 7 02

2.95E- 0.72 2.57E-

WNU1 0.718 1 96 WNU1 1 91

02 9 02

5.61E- 0.82 1.27E-

WNU1 0.864 4 90 WNU1 4 79

03 0 02

9.07E- 0.72 4.14E-

WNU1 0.840 4 96 WNU1 4 88

03 6 02

WNU5 4.25E- 0.77 4.29E-

0.771 3 34 WNU53 3 7 3 02 0 02

WNU5 6.29E- 0.71 3.18E-

0.729 3 2 WNU53 3 6 3 02 1 02 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU5 2.26E- 0.85 3.08E-

0.705 3 82 WNU53 3 79 3 02 8 03

WNU5 4.08E- 0.80 2.85E-

0.775 3 36 WNU53 3 70 3 02 6 02

WNU5 1.93E- 0.70 7.43E-

0.753 3 91 WNU53 8 25 3 02 9 02

WNU5 1.04E- 0.70 3.49E-

0.724 8 92 WNU53 8 60 3 01 2 02

WNU5 1.74E- 0.86 5.11E-

0.760 8 15 WNU53 8 63 3 02 9 03

WNU5 3.53E- 0.74 2.10E-

0.741 8 91 WNU53 8 66 3 02 6 02

WNU5 3.36E- 0.76 9.96E-

0.706 9 73 WNU53 9 16 3 02 5 03

WNU5 3.35E- 0.75 1.17E-

0.854 9 76 WNU53 9 18 3 03 4 02

WNU5 1.55E- 0.78 1.27E-

0.884 9 95 WNU53 9 23 3 03 2 02

WNU5 3.53E- 0.85 3.03E-

0.701 9 26 WNU53 9 27 3 02 9 03

WNU5 1.19E- 0.88 1.69E-

0.753 9 19 WNU53 9 74 3 02 1 03

WNU5 2.73E- 0.85 3.71E-

0.949 1 4 WNU53 1 25 3 05 0 03

WNU5 3.90E- 0.92 1.16E-

0.848 1 79 WNU53 1 15 3 03 7 04

WNU5 2.73E- 0.79 1.12E-

0.949 1 32 WNU53 1 91 3 05 1 02

WNU5 2.19E- 0.76 1.56E-

0.743 1 69 WNU53 1 35 3 02 8 02

WNU5 1.07E- 0.87 4.14E-

0.760 4 4 WNU53 4 25 3 02 8 03

WNU5 1.04E- 0.80 1.52E-

0.924 4 79 WNU53 4 36 3 03 8 02

WNU5 1.39E- 0.77 7.99E-

0.861 4 15 WNU53 4 42 3 03 8 03

WNU5 1.30E- 0.77 8.34E-

0.818 4 70 WNU53 4 47 3 02 6 03

WNU5 1.07E- 0.87 4.69E-

0.760 4 32 WNU53 4 75 3 02 3 03

WNU5 8.95E- 0.86 1.26E-

0.772 4 46 WNU53 2 34 3 03 2 02

WNU5 2.52E- 0.86 2.79E-

0.816 2 2 WNU53 2 25 3 02 2 03

WNU5 5.53E- 0.86 1.22E-

0.915 2 79 WNU53 2 36 3 04 4 02

WNU5 6.42E- 0.86 2.61E-

0.895 2 70 WNU53 2 69 3 03 5 03

WNU5 5.50E- 0.71 2.11E-

0.831 2 35 WNU54 3 38 3 03 1 02 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU5 1.19E- 0.83 1.94E-

0.787 3 75 WNU54 3 72 4 02 5 02

WNU5 3.92E- 0.71 6.92E-

0.778 8 73 WNU54 8 76 4 02 8 02

WNU5 6.51E- 0.77 1.39E-

0.725 8 28 WNU54 8 20 4 02 6 02

WNU5 7.75E- 0.77 4.20E-

0.887 8 30 WNU54 8 95 4 03 2 02

WNU5 3.42E- 0.83 3.74E-

0.704 8 86 WNU54 8 64 4 02 8 02

WNU5 1.56E- 0.74 2.04E-

0.896 8 55 WNU54 8 11 4 02 8 02

WNU5 5.25E- 0.81 5.03E-

0.749 8 74 WNU54 8 72 4 02 1 02

WNU5 7.45E- 0.83 2.92E-

0.768 8 39 WNU54 9 67 4 02 1 03

WNU5 7.04E- 0.76 9.86E-

0.883 9 10 WNU54 9 60 4 04 6 03

WNU5 4.16E- 0.87 8.46E-

0.921 9 63 WNU54 9 66 4 04 8 04

WNU5 3.16E- 0.77 8.69E-

0.711 WNU54

4 02 1 73

3 03 1 16

WNU5 2.77E- 0.81 7.39E-

0.862 6 WNU54

4 03 1 7

5 03 1 28

WNU5 2.07E- 0.76 1.02E-

0.713 WNU54

4 02 1 12

3 02 1 8

WNU5 6.65E- 0.88 1.57E-

0.821 U54

4 03 1 30 WN

4 03 1 95

WNU5 2.14E- 0.72 2.86E-

0.873 4

4 03 1 23 WNU5

0 02 1 77

WNU5 1.71E- 0.91 5.89E-

0.762

4 02 1 26 WNU54

3 04 1 27

WNU5 3.08E- 0.71 1.95E-

0.928 74 WNU54 5 4 04 1 8 02 1

WNU5 1.62E- 0.93 5.77E-

0.912 4 25 WNU54 4 79 4 03 8 04

WNU5 3.21E- 0.72 1.75E-

0.750 4 36 WNU54 4 15 4 02 6 02

WNU5 2.57E- 0.80 5.16E-

0.769 4 70 WNU54 2 9 4 02 3 03

WNU5 1.47E- 0.77 1.34E-

0.772 2 76 WNU54 2 89 4 02 9 02

WNU5 1.92E- 0.73 1.63E-

0.719 2 14 WNU54 2 37 4 02 1 02

WNU5 5.20E- 0.74 2.05E-

0.834 2 23 WNU54 2 77 4 03 8 02

WNU5 2.70E- 0.73 2.48E-

0.864 2 80 WNU54 2 24 4 03 3 02

WNU5 7.33E- 0.75 1.86E-

0.816 2 26 WNU54 2 78 4 03 5 02 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU5 2.03E- 0.73 2.30E-

0.749 2 27 WNU54 2 93 4 02 9 02

WNU5 6.05E- 0.75 1.13E-

0.898 3 34 WNU55 3 62 5 03 7 02

WNU5 3.03E- 0.91 4.85E-

0.801 3 88 WNU55 8 81 5 02 8 04

WNU5 3.53E- 0.88 1.66E-

0.842 8 7 WNU55 8 85 5 02 2 03

WNU5 1.97E- 0.94 1.63E-

0.876 8 83 WNU55 8 37 5 03 0 04

WNU5 1.93E- 0.82 6.53E-

0.753 8 4 WNU55 8 82 5 02 2 03

WNU5 2.34E- 0.73 2.49E-

0.737 8 86 WNU55 8 15 5 02 2 02

WNU5 4.08E- 0.73 3.97E-

0.830 8 88 WNU55 8 71 5 02 0 02

WNU5 1.93E- 0.98 7.96E-

0.753 8 32 WNU55 8 91 5 02 5 06

WNU5 9.18E- 0.92 7.98E-

0.839 8 93 WNU55 8 39 5 03 6 03

WNU5 5.35E- 0.78 6.79E-

0.801 9 81 WNU55 9 85 5 03 8 03

WNU5 1.43E- 0.72 1.89E-

0.741 9 83 WNU55 9 86 5 02 0 02

WNU5 2.21E- 0.79 1.12E-

0.742 9 71 WNU55 9 93 5 02 0 02

WNU5 2.08E- 0.88 5.74E-

0.845 WNU55 83 5 03 1 81

9 04 1

WNU5 3.59E- 0.75 1.24E-

0.821 37 5

5 03 1 WNU5

1 02 1 4

WNU5 3.70E- 0.94 3.82E-

0.850 25 WNU55

5 03 1 5 05 1 82

WNU5 1.44E- 0.87 9.90E-

0.942 79 WNU55 86 5 04 1 2 04 1

WNU5 1.81E- 0.72 2.67E-

0.723

5 02 1 15 WNU55

6 02 1 71

WNU5 1.24E- 0.94 1.44E-

0.751 WNU 91 5 02 1 32 55

2 04 1

WNU5 2.14E- 0.77 4.30E-

0.744 55

5 02 1 93 WNU

0 02 1 39

WNU5 9.42E- 0.71 4.68E-

0.768 4 37 WNU55 4 25 5 03 4 02

WNU5 1.09E- 0.74 1.44E-

0.759 4 91 WNU55 2 67 5 02 0 02

WNU5 1.33E- 0.90 6.77E-

0.746 2 10 WNU55 2 1 5 02 9 04

WNU5 9.77E- 0.70 7.94E-

0.766 2 66 WNU56 3 36 5 03 1 02

WNU5 7.95E- 0.70 2.25E-

0.701 3 70 WNU56 3 19 6 02 6 02 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU5 3.88E- 0.72 6.40E-

0.779 8 73 WNU56 8 76 6 02 7 02

WNU5 1.94E- 0.80 8.67E-

0.752 8 56 WNU56 8 18 6 02 6 03

WNU5 7.95E- 0.79 3.46E-

0.701 8 30 WNU56 8 95 6 02 0 02

WNU5 4.93E- 0.71 4.83E-

0.813 8 2 WNU56 8 1 6 02 0 02

WNU5 2.90E- 0.71 2.96E-

0.759 8 33 WNU56 8 42 6 02 7 02

WNU5 7.16E- 0.75 1.80E-

0.773 8 55 WNU56 8 54 6 02 8 02

WNU5 2.17E- 0.70 7.93E-

0.743 8 47 WNU56 8 27 6 02 1 02

WNU5 6.63E- 0.70 3.39E-

0.723 8 74 WNU56 8 49 6 02 5 02

WNU5 5.23E- 0.88 8.57E-

0.750 9 34 WNU56 9 2 6 02 2 03

WNU5 2.96E- 0.73 2.49E-

0.717 9 77 WNU56 9 79 6 02 2 02

WNU5 1.26E- 0.74 2.12E-

0.862 9 36 WNU56 9 1 6 02 5 02

WNU5 1.16E- 0.84 1.58E-

0.867 9 70 WNU56 9 55 6 02 8 02

WNU5 9.68E- 0.72 2.68E-

0.800 9 69 WNU56 9 35 6 03 6 02

WNU5 4.28E- 0.80 5.15E-

0.770 1 2 WNU56 1 42 6 02 3 03

WNU5 5.55E- 0.75 1.16E-

0.799 1 47 WNU56 1 59 6 03 5 02

WNU5 2.02E- 0.79 6.09E-

0.749 1 75 WNU56 1 46 6 02 4 03

WNU5 2.01E- 0.75 1.12E-

0.715 4 56 WNU56 4 42 6 02 7 02

WNU5 1.98E- 0.74 1.30E-

0.716 4 54 WNU56 4 47 6 02 7 02

WNU5 1.92E- 0.77 8.35E-

0.792 4 75 WNU56 4 46 6 02 6 03

WNU5 4.28E- 0.81 7.15E-

0.770 2 2 WNU56 2 1 6 02 7 03

WNU5 2.31E- 0.79 3.10E-

0.738 2 75 WNU57 3 94 6 02 9 02

WNU5 7.89E- 0.80 8.56E-

0.812 8 42 WNU57 8 47 7 03 7 03

WNU5 4.23E- 0.73 2.39E-

0.724 8 63 WNU57 8 59 7 02 6 02

WNU5 2.90E- 0.74 2.14E-

0.805 8 75 WNU57 8 46 7 02 5 02

WNU5 3.36E- 0.88 5.87E-

0.824 9 67 WNU57 9 10 7 03 9 04 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU5 1.16E- 0.90 9.13E-

0.755 9 60 WNU57 9 63 7 02 1 04

WNU5 1.87E- 0.79 5.76E-

0.720 9 59 WNU57 9 66 7 02 7 03

WNU5 1.49E- 0.70 7.45E-

0.772 1 96 WNU57 2 36 7 02 9 02

WNU5 2.60E- 0.71 1.13E-

0.729 2 69 WNU58 8 34 7 02 1 01

WNU5 5.76E- 0.85 1.40E-

0.739 8 90 WNU58 8 25 8 02 6 02

WNU5 2.84E- 0.79 1.03E-

0.807 8 79 WNU58 8 61 8 02 6 02

WNU5 2.06E- 0.76 9.66E-

0.713 9 67 WNU58 9 10 8 02 7 03

WNU5 2.73E- 0.71 1.92E-

0.810 9 2 WNU58 9 66 8 02 9 02

WNU5 2.11E- 0.71 2.97E-

0.711 1 10 WNU58 1 63 8 02 7 02

WNU5 4.81E- 0.84 9.03E-

0.711 4 90 WNU58 4 79 8 02 0 03

WNU5 3.60E- 0.76 9.42E-

0.740 4 88 WNU58 4 91 8 02 8 03

WNU6 2.26E- 0.91 1.76E-

0.706 1 10 WNU60 1 68 0 02 8 04

WNU6 1.55E- 0.72 1.74E-

0.857 1 59 WNU60 1 46 0 03 6 02

WNU6 1.79E- 0.72 1.73E-

0.724 4 42 WNU60 4 47 0 02 7 02

WNU6 2.72E- 0.71 2.03E-

0.764 4 75 WNU60 4 46 0 02 4 02

WNU6 1.35E- 0.72 1.86E-

0.745 2 82 WNU60 2 86 0 02 1 02

WNU6 9.50E- 0.76 1.04E-

0.801 2 91 WNU61 3 67 0 03 2 02

WNU6 9.15E- 0.72 1.81E-

0.879 3 34 WNU61 3 10 1 03 3 02

WNU6 3.44E- 0.87 1.04E-

0.790 3 2 WNU61 3 36 1 02 2 02

WNU6 5.69E- 0.80 5.55E-

0.900 3 70 WNU61 8 94 1 03 1 02

WNU6 9.38E- 0.74 2.09E-

0.738 8 2 WNU61 8 48 1 02 6 02

WNU6 3.09E- 0.73 9.95E-

0.890 8 33 WNU61 8 64 1 03 0 02

WNU6 3.08E- 0.73 3.78E-

0.714 8 43 WNU61 8 87 1 02 5 02

WNU6 5.31E- 0.92 1.03E-

0.700 8 91 WNU61 9 81 1 02 9 04

WNU6 5.41E- 0.81 4.21E-

0.746 9 7 WNU61 9 85 1 02 3 03 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU6 1.49E- 0.82 3.27E-

0.922 9 83 WNU61 9 37 1 04 5 03

WNU6 1.16E- 0.73 2.43E-

0.755 9 4 WNU61 9 25 1 02 4 02

WNU6 3.31E- 0.84 4.14E-

0.904 9 82 WNU61 9 79 1 04 5 03

WNU6 2.88E- 0.71 1.98E-

0.831 9 86 WNU61 9 15 1 03 6 02

WNU6 1.17E- 0.86 2.54E-

0.866 9 88 WNU61 9 71 1 02 6 03

WNU6 1.16E- 0.77 1.35E-

0.755 9 32 WNU61 9 91 1 02 8 02

WNU6 1.22E- 0.77 3.89E-

0.785 9 93 WNU61 9 39 1 02 9 02

WNU6 1.48E- 0.72 1.84E-

0.852 34 WN

1 02 1 U61

2 02 1 10

WNU6 6.40E- 0.73 1.48E-

0.959 92 WNU61

1 04 1 8 02 1 60

WNU6 7.80E- 0.73 2.38E-

0.703 36 WNU61

1 02 1 6 02 1 1

WNU6 6.78E- 0.79 3.12E-

0.720 WNU61

1 02 1 70

9 02 1 88

WNU6 7.88E- 0.75 1.82E-

0.779 9 WNU61

1 03 1 5

7 02 1 75

WNU6 1.88E- 0.78 2.23E-

0.720 4 67 WNU61 4 34 1 02 0 02

WNU6 3.70E- 0.72 6.30E-

0.737 4 92 WNU61 2 34 1 02 9 02

WNU6 8.74E- 0.90 5.67E-

0.806 2 79 WNU61 2 36 1 03 1 03

WNU6 5.17E- 0.72 2.73E-

0.904 2 70 WNU61 2 69 1 03 4 02

WNU6 2.99E- 0.72 6.39E-

0.716 2 35 WNU63 3 34 1 02 7 02

WNU6 3.77E- 0.85 USE-

0.819 3 81 WNU63 3 83 3 03 1 OS

WNU6 2.26E- 0.76 1.54E-

0.824 3 7 WNU63 3 25 3 02 9 02

WNU6 1.14E- 0.78 1.31E-

0.756 3 37 WNU63 3 6 3 02 0 02

WNU6 3.72E- 0.81 8.13E-

0.783 3 92 WNU63 3 79 3 02 0 03

WNU6 1.12E- 0.76 1.65E-

0.757 3 82 WNU63 3 91 3 02 4 02

WNU6 2.67E- 0.74 5.30E-

0.726 3 71 WNU63 8 73 3 02 8 02

WNU6 5.60E- 0.77 4.16E-

0.742 3 39 WNU63 8 76 3 02 3 02

WNU6 1.82E- 0.86 1.11E-

0.879 8 16 WNU63 8 89 3 03 9 02 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU6 2.31E- 0.78 1.21E-

0.738 8 12 WNU63 8 85 3 02 6 02

WNU6 8.26E- 0.70 3.35E-

0.976 8 7 WNU63 8 37 3 04 6 02

WNU6 1.68E- 0.80 3.05E-

0.763 8 8 WNU63 8 23 3 02 1 02

WNU6 5.23E- 0.84 1.72E-

0.750 8 95 WNU63 8 80 3 02 3 02

WNU6 1.11E- 0.82 2.16E-

0.869 8 77 WNU63 8 26 3 02 7 02

WNU6 2.51E- 0.97 1.22E-

0.816 8 24 WNU63 8 88 3 02 1 03

WNU6 2.64E- 0.89 2.61E-

0.813 8 27 WNU63 8 91 3 02 6 03

WNU6 4.51E- 0.78 2.12E-

0.717 8 71 WNU63 8 93 3 02 4 02

WNU6 3.28E- 0.74 2.01E-

0.794 8 74 WNU63 9 73 3 02 9 02

WNU6 1.20E- 0.70 3.42E-

0.702 8 39 WNU63 9 76 3 01 4 02

WNU6 2.02E- 0.79 9.79E-

0.715 9 16 WNU63 9 95 3 02 9 03

WNU6 2.59E- 0.84 1.69E-

0.729 9 28 WNU63 9 36 3 02 4 02

WNU6 1.72E- 0.84 1.79E-

0.727 9 84 WNU63 9 70 3 02 0 02

WNU6 3.01E- 0.84 4.26E-

0.716 9 24 WNU63 9 69 3 02 4 03

WNU6 1.68E- 0.86 2.34E-

0.763 9 27 WNU63 9 35 3 02 9 03

WNU6 4.83E- 0.87 1.02E-

0.838 9 74 WNU63 1 82 3 03 2 03

WNU6 1.16E- 0.78 7.08E-

0.755 1 83 WNU63 1 86 3 02 6 03

WNU6 6.40E- 0.86 2.45E-

0.823 1 79 WNU63 1 91 3 03 7 03

WNU6 2.78E- 0.88 3.71E-

0.723 1 78 WNU63 4 73 3 02 2 03

WNU6 4.18E- 0.74 1.27E-

0.773 1 39 WNU63 4 37 3 02 9 02

WNU6 1.14E- 0.78 7.02E-

0.921 4 89 WNU63 4 82 3 03 6 03

WNU6 4.51E- 0.91 1.33E-

0.874 4 77 WNU63 4 24 3 03 7 03

WNU6 3.23E- 0.71 4.58E-

0.749 4 79 WNU63 4 70 3 02 6 02

WNU6 6.51E- 0.91 2.13E-

0.857 4 26 WNU63 4 91 3 03 4 04

WNU6 5.76E- 0.72 1.77E-

0.863 4 78 WNU63 2 82 3 03 5 02 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU6 4.40E- 0.81 2.46E-

0.768 4 39 WNU63 2 36 3 02 8 02

WNU6 1.91E- 0.74 2.10E-

0.753 2 79 WNU63 2 91 3 02 6 02

WNU6 3.57E- 0.70 7.81E-

0.787 2 70 WNU63 2 39 3 02 3 02

WNU6 3.53E- 0.86 2.50E-

0.701 2 35 WNU65 3 25 3 02 7 03

WNU6 7.38E- 0.89 1.25E-

0.710 3 34 WNU65 3 79 5 02 1 03

WNU6 1.85E- 0.80 2.86E-

0.722 3 82 WNU65 3 70 5 02 6 02

WNU6 3.69E- 0.73 2.32E-

0.784 3 36 WNU65 3 71 5 02 8 02

WNU6 1.63E- 0.71 3.08E-

0.765 3 29 WNU65 8 16 5 02 4 02

WNU6 4.38E- 0.81 2.49E-

0.910 8 73 WNU65 8 28 5 03 7 02

WNU6 1.45E- 0.92 3.13E-

0.943 8 76 WNU65 8 89 5 03 2 03

WNU6 9.98E- 0.87 1.97E-

0.798 8 81 WNU65 8 85 5 03 6 03

WNU6 6.25E- 0.87 1.10E-

0.788 8 94 WNU65 8 30 5 02 0 02

WNU6 1.01E- 0.95 9.24E-

0.797 8 83 WNU65 8 95 5 02 2 04

WNU6 3.18E- 0.95 1.02E-

0.711 8 37 WNU65 8 23 5 02 1 03

WNU6 2.05E- 0.82 6.00E-

0.831 8 25 WNU65 8 82 5 02 7 03

WNU6 1.14E- 0.88 1.56E-

0.867 8 77 WNU65 8 86 5 02 4 03

WNU6 5.44E- 0.95 9.70E-

0.746 8 79 WNU65 8 26 5 02 1 04

WNU6 3.46E- 0.96 4.74E-

0.919 8 24 WNU65 8 27 5 03 4 04

WNU6 3.04E- 0.87 4.38E-

0.715 8 11 WNU65 8 93 5 02 6 03

WNU6 2.03E- 0.70 3.27E-

0.974 8 74 WNU65 9 93 5 04 8 02

WNU6 4.66E- 0.86 1.38E-

0.762 9 94 WNU65 1 81 5 02 1 03

WNU6 1.42E- 0.79 6.24E-

0.741 9 49 WNU65 1 83 5 02 3 03

WNU6 1.30E- 0.72 2.80E-

0.863 1 85 WNU65 1 6 5 03 2 02

WNU6 8.52E- 0.71 7.35E-

0.877 1 37 WNU65 1 70 5 04 1 02

WNU6 1.63E- 0.73 3.87E-

0.731 1 86 WNU65 4 94 5 02 3 02 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU6 8.76E- 0.76 2.66E-

0.806 1 93 WNU65 4 36 5 03 6 02

WNU6 2.84E- 0.72 1.79E-

0.761 4 79 WNU65 4 91 5 02 4 02

WNU6 2.52E- 0.86 2.43E-

0.771 4 70 WNU65 2 76 5 02 8 03

WNU6 2.37E- 0.75 1.19E-

0.702 4 93 WNU65 2 85 5 02 3 02

WNU6 4.99E- 0.73 1.65E-

0.755 2 94 WNU65 2 37 5 02 0 02

WNU6 2.34E- 0.83 4.68E-

0.703 2 10 WNU65 2 23 5 02 9 03

WNU6 1.83E- 0.70 3.52E-

0.756 2 95 WNU65 2 63 5 02 2 02

WNU6 3.51E- 0.75 1.83E-

0.702 2 80 WNU65 2 74 5 02 6 02

WNU6 5.53E- 0.82 2.29E-

0.831 2 27 WNU66 3 7 5 03 3 02

WNU6 6.42E- 0.81 2.62E-

0.823 2 93 WNU66 8 73 5 03 3 02

WNU6 2.42E- 0.78 3.53E-

0.819 3 92 WNU66 8 89 6 02 8 02

WNU6 5.17E- 0.70 3.38E-

0.751 8 76 WNU66 8 20 6 02 5 02

WNU6 2.59E- 0.73 2.40E-

0.729 8 50 WNU66 8 62 6 02 5 02

WNU6 1.45E- 0.84 1.67E-

0.854 8 90 WNU66 8 77 6 02 5 02

WNU6 7.67E- 0.74 5.28E-

0.705 8 23 WNU66 8 26 6 02 9 02

WNU6 5.13E- 0.90 1.33E-

0.752 8 24 WNU66 8 55 6 02 4 02

WNU6 2.12E- 0.82 1.28E-

0.829 8 96 WNU66 8 91 6 02 0 02

WNU6 1.65E- 0.78 3.60E-

0.764 8 51 WNU66 9 34 6 02 6 02

WNU6 9.63E- 0.78 3.83E-

0.735 8 39 WNU66 9 2 6 02 1 02

WNU6 3.08E- 0.93 2.19E-

0.714 9 90 WNU66 9 36 6 02 2 03

WNU6 1.19E- 0.71 2.07E-

0.787 9 79 WNU66 9 61 6 02 3 02

WNU6 1.16E- 0.72 4.20E-

0.948 9 70 WNU66 4 25 6 03 5 02

WNU6 1.43E- 0.77 1.40E-

0.741 1 46 WNU66 2 76 6 02 6 02

WNU6 1.49E- 0.94 1.09E-

0.885 2 73 WNU66 2 89 6 03 7 04

WNU6 1.09E- 0.78 7.74E-

0.759 2 81 WNU66 2 83 6 02 0 03 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU6 5.59E- 0.79 1.10E-

0.743 2 1 WNU66 2 23 6 02 1 02

WNU6 2.48E- 0.85 1.66E-

0.838 2 37 WNU66 2 82 6 03 4 03

WNU6 1.42E- 0.85 1.59E-

0.942 2 77 WNU66 2 86 6 04 6 03

WNU6 1.53E- 0.90 9.36E-

0.770 2 80 WNU66 2 26 6 02 0 04

WNU6 2.59E- 0.72 1.69E-

0.932 2 24 WNU66 2 11 6 04 8 02

WNU6 6.57E- 0.86 2.38E-

0.822 2 78 WNU66 2 91 6 03 9 03

WNU6 1.75E- 0.72 2.70E-

0.760 2 27 WNU67 8 67 6 02 5 02

WNU6 2.46E- 0.79 3.40E-

0.929 2 39 WNU67 8 90 6 03 1 02

WNU6 1.81E- 0.91 5.63E-

0.757 8 50 WNU67 8 60 7 02 4 04

WNU6 9.28E- 0.88 1.46E-

0.740 8 2 WNU67 8 68 7 02 6 03

WNU6 5.62E- 0.75 1.88E-

0.901 8 96 WNU67 8 51 7 03 4 02

WNU6 5.12E- 0.80 8.93E-

0.704 8 63 WNU67 8 59 7 02 5 03

WNU6 3.20E- 0.81 2.60E-

0.750 8 87 WNU67 9 70 7 02 4 02

WNU6 2.20E- 0.79 5.98E-

0.826 9 36 WNU67 4 54 7 02 5 03

WNU6 5.92E- 0.72 1.79E-

0.796 4 56 WNU67 2 62 7 03 4 02

WNU6 2.41E- 0.80 2.92E-

0.735 2 90 WNU67 2 70 7 02 4 02

WNU6 2.25E- 0.76 4.52E-

0.824 2 36 WNU67 2 88 7 02 5 02

WNU6 3.41E- 0.91 5.12E-

0.705 2 96 WNU68 8 81 7 02 6 04

WNU6 2.03E- 0.92 3.36E-

0.832 3 7 WNU68 8 83 8 02 6 04

WNU6 8.25E- 0.94 1.63E-

0.809 8 85 WNU68 8 82 8 03 0 04

WNU6 5.46E- 0.82 1.25E-

0.831 8 37 WNU68 8 71 8 03 1 02

WNU6 5.10E- 0.85 7.46E-

0.917 8 86 WNU68 8 93 8 04 0 03

WNU6 1.14E- 0.89 1.06E-

0.826 8 91 WNU68 9 73 8 02 7 03

WNU6 6.35E- 0.73 2.29E-

0.787 8 39 WNU68 9 89 8 02 9 02

WNU6 8.27E- 0.85 3.49E-

0.809 9 76 WNU68 9 77 8 03 3 03 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU6 1.58E- 0.81 8.07E-

0.767 9 95 WNU68 9 26 8 02 0 03

WNU6 1.47E- 0.74 1.29E-

0.772 9 24 WNU68

8 02 8 02 1 81

WNU6 2.11E- 0.81 3.85E-

0.745 9 74 WNU68

8 02 8 03 1 83

WNU6 3.21E- 0.80 8.59E-

0.710 8

8 02 1 89 WNU6

7 03 1 25

WNU6 6.14E- 0.88 1.47E-

0.794

8 03 1 37 WNU68

6 03 1 79

WNU6 8.67E- 0.76 1.54E-

0.877 2 WNU68

8 04 1 8

9 02 1 78

WNU6 7.11E- 0.95 6.41E-

0.785 1 86 WNU68

8 03 4 05 1 91

WNU6 2.17E- 0.75 1.77E-

0.743 71 WNU68

8 02 1 9 02 1 35

WNU6 3.19E- 0.83 2.84E-

0.711 WNU68 4 81

02 1 69

8 2 03

WNU6 2.00E- 0.72 4.10E-

0.833 8 4 89 8 02 1 39 WNU6

7 02

WNU6 6.52E- 0.73 3.85E-

0.790 4 12 WNU68 4 94 8 03 3 02

WNU6 1.34E- 0.83 2.80E-

0.745 4 14 WNU68 4 8 8 02 3 03

WNU6 2.14E- 0.87 1.00E-

0.844 4 85 WNU68 4 37 8 03 2 03

WNU6 2.16E- 0.75 2.90E-

0.844 4 83 WNU68 4 77 8 03 9 02

WNU6 9.60E- 0.76 2.79E-

0.837 4 25 WNU68 4 80 8 03 2 02

WNU6 1.05E- 0.70 4.98E-

0.761 4 82 WNU68 4 24 8 02 7 02

WNU6 8.18E- 0.79 6.32E-

0.777 4 86 WNU68 4 91 8 03 2 03

WNU6 1.68E- 0.92 2.62E-

0.729 4 71 WNU68 4 39 8 02 7 03

WNU6 5.11E- 0.70 2.37E-

0.803 4 93 WNU68 2 14 8 03 2 02

WNU6 1.66E- 0.75 1.26E-

0.764 2 89 WNU68 2 37 8 02 0 02

WNU6 3.52E- 0.79 1.07E-

0.788 2 7 WNU68 2 80 8 02 3 02

WNU6 3.33E- 0.77 1.41E-

0.707 2 77 WNU68 2 91 8 02 5 02

WNU6 2.20E- 0.70 7.49E-

0.742 2 78 WNU69 3 88 8 02 8 02

WNU6 7.53E- 0.78 7.62E-

0.888 3 34 WNU69 9 14 9 03 1 03

WNU6 5.83E- 0.77 8.90E-

0.796 9 9 WNU69 9 83 9 03 2 03 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU6 3.52E- 0.78 1.17E-

0.788 9 1 WNU69 9 25 9 02 8 02

WNU6 2.07E- 0.74 1.38E-

0.713 9 37 WNU69 9 82 9 02 3 02

WNU6 2.73E- 0.83 5.24E-

0.863 9 6 WNU69 9 71 9 03 4 03

WNU6 6.19E- 0.71 2.96E-

0.793 9 86 WNU69 9 35 9 03 7 02

WNU6 4.74E- 0.92 1.01E-

0.839 9 93 WNU69

9 03 9 04 1 81

WNU6 4.11E- 0.86 1.33E-

0.774 9 39 WNU69

9 02 2 03 1 83

WNU6 6.73E- 0.73 1.53E-

0.885 85 NU69

9 04 1 W

6 02 1 4

WNU6 1.51E- 0.77 8.70E-

0.858 9

9 03 1 37 WNU6

3 03 1 86

WNU6 4.57E- 0.72 2.88E-

0.809 71 9 03 1 82 WNU69

0 02 1

WNU6 1.88E- 0.83 5.12E-

0.720 15 WNU69

9 02 1 5 03 1 91

WNU6 1.53E- 0.74 5.27E-

0.736 2 WNU69 39 9 02 1 3

9 02 1

WNU6 2.08E- 0.91 2.33E-

0.747 93 WNU69 2 81 9 02 1 2 04

WNU6 1.56E- 0.86 1.26E-

0.734 2 16 WNU69 2 83 9 02 4 03

WNU6 2.53E- 0.74 2.24E-

0.837 2 85 WNU69 2 77 9 03 1 02

WNU6 6.64E- 0.75 1.20E-

0.885 2 37 WNU69 2 86 9 04 3 02

WNU6 1.45E- 0.75 1.85E-

0.740 2 82 WNU69 2 91 9 02 6 02

WNU6 7.13E- 0.82 2.38E-

0.817 2 71 WNU69 2 39 9 03 0 02

WNU6 1.05E- 0.81 2.55E-

0.795 2 93 WNU70 3 34 9 02 5 02

WNU7 1.20E- 0.84 3.45E-

0.866 3 50 WNU70 8 64 0 03 4 02

WNU7 6.09E- 0.76 1.71E-

0.888 3 61 WNU70 8 13 0 04 2 02

WNU7 1.18E- 0.74 5.64E-

0.704 8 72 WNU70 9 7 0 01 2 02

WNU7 7.78E- 0.73 1.60E-

0.780 9 81 WNU70 9 37 0 03 2 02

WNU7 2.32E- 0.83 5.10E-

0.841 9 83 WNU70 9 25 0 03 5 03

WNU7 5.25E- 0.90 7.22E-

0.749 9 2 WNU70 9 79 0 02 8 04

WNU7 1.87E- 0.81 6.91E-

0.849 9 82 WNU70 9 71 0 03 9 03 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU7 1.33E- 0.74 2.08E-

0.745 9 86 WNU70 9 69 0 02 7 02

WNU7 1.33E- 0.81 4.36E-

0.779 9 91 WNU70 12 0 02 2 03 1

WNU7 2.65E- 0.73 1.66E-

0.812 9 39 WNU70

0 02 0 02 1 42

WNU7 7.42E- 0.73 1.47E-

0.783 1 8 WNU70 47 0 03 9 02 1

WNU7 1.46E- 0.70 3.26E-

0.859 1 68 WNU70

0 03 9 02 1 75

WNU7 7.46E- 0.70 2.22E-

0.782 1 59 WNU70

0 03 7 02 1 5

WNU7 1.88E- 0.77 8.20E-

0.720 1 46 WNU70 4 4 0 02 7 03

WNU7 1.76E- 0.85 7.50E-

0.725 4 56 WNU70 4 79 0 02 0 03

WNU7 1.94E- 0.82 3.08E-

0.791 4 25 WNU70 4 15 0 02 8 03

WNU7 3.33E- 0.72 1.75E-

0.747 4 36 WNU70 4 54 0 02 6 02

WNU7 3.38E- 0.70 4.90E-

0.745 4 70 WNU70 4 75 0 02 9 02

WNU7 8.20E- 0.71 1.94E-

0.777 4 32 WNU70 2 37 0 03 8 02

WNU7 8.54E- 0.75 1.83E-

0.774 2 81 WNU71 3 75 0 03 6 02

WNU7 5.39E- 0.70 7.57E-

0.746 3 64 WNU71 8 26 1 02 7 02

WNU7 3.63E- 0.79 1.13E-

0.785 3 72 WNU71 9 90 1 02 0 02

WNU7 1.10E- 0.83 2.53E-

0.715 8 88 WNU71 4 48 1 01 7 03

WNU7 5.35E- 0.73 1.49E-

0.747 9 2 WNU71 4 91 1 02 8 02

WNU7 9.47E- 0.75 1.81E-

0.768 4 43 WNU72 3 25 1 03 7 02

WNU7 2.62E- 0.81 2.48E-

0.728 2 1 WNU72 3 70 1 02 7 02

WNU7 2.90E- 0.75 1.83E-

0.805 3 36 WNU72 3 69 2 02 6 02

WNU7 3.45E- 0.78 3.75E-

0.703 3 71 WNU72 3 72 2 02 3 02

WNU7 1.21E- 0.77 6.83E-

0.786 3 35 WNU72 8 64 2 02 8 02

WNU7 3.16E- 0.70 3.31E-

0.712 8 15 WNU72 8 13 2 02 7 02

WNU7 4.32E- 0.93 5.58E-

0.769 8 96 WNU72 9 10 2 02 9 05

WNU7 1.94E- 0.70 3.35E-

0.916 9 67 WNU72 9 79 2 04 6 02 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU7 8.93E- 0.83 1.91E-

0.962 9 84 WNU72 9 70 2 06 6 02

WNU7 1.85E- 0.70 2.38E-

0.838 9 36 WNU72 9 11 2 02 1 02

WNU7 1.57E- 0.86 2.69E-

0.734 9 68 WNU72 9 35 2 02 4 03

WNU7 4.33E- 0.72 6.49E-

0.843 9 69 WNU72 9 39 2 03 6 02

WNU7 4.25E- 0.81 3.72E-

0.898 9 66 WNU72

2 04 9 03 1 10

WNU7 1.84E- 0.90 7.17E-

0.722 67 WNU72

2 02 1 8 04 1 79

WNU7 6.54E- 0.71 3.13E-

0.822 25 WNU72

2 03 1 2 02 1 1

WNU7 1.88E- 0.78 1.20E-

0.937 WNU72 69 2 03 1 36

6 02 1

WNU7 2.53E- 0.78 1.24E-

0.928 72

2 03 1 70 WNU

4 02 1 35

WNU7 2.43E- 0.89 2.62E-

0.734 WNU72 4 7 2 02 1 75

6 03

WNU7 1.76E- 0.75 3.01E-

0.726 66 WNU72 4 36 2 02 1 6 02

WNU7 2.90E- 0.72 4.31E-

0.759 4 92 WNU72 4 72 2 02 2 02

WNU7 4.09E- 0.75 1.96E-

0.727 4 70 WNU72 2 89 2 02 1 02

WNU7 2.23E- 0.83 2.00E-

0.741 2 73 WNU72 2 36 2 02 3 02

WNU7 2.35E- 0.80 2.75E-

0.737 2 77 WNU72 2 70 2 02 9 02

WNU7 1.89E- 0.81 7.53E-

0.754 2 24 WNU72 2 69 2 02 4 03

WNU7 5.37E- 0.70 3.55E-

0.747 2 55 WNU73 8 67 2 02 1 02

WNU7 1.98E- 0.79 5.94E-

0.751 2 35 WNU73 8 2 2 02 4 02

WNU7 2.87E- 0.89 3.07E-

0.720 8 10 WNU73 8 63 3 02 0 03

WNU7 6.27E- 0.82 3.45E-

0.824 8 60 WNU73 9 67 3 03 3 03

WNU7 1.74E- 0.77 8.48E-

0.760 8 59 WNU73 9 66 3 02 5 03

WNU7 6.25E- 0.84 1.87E-

0.793 9 10 WNU73 1 10 3 03 9 03

WNU7 1.61E- 0.75 1.14E-

0.732 1 67 WNU73 4 63 3 02 6 02

WNU7 7.54E- 0.78 3.63E-

0.814 1 63 WNU73 2 36 3 03 6 02

WNU7 5.44E- 0.74 5.61E-

0.746 2 2 WNU74 3 34 3 02 2 02 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

WNU7 4.09E- 0.76 4.58E-

0.774 2 70 WNU74 3 92 3 02 4 02

WNU7 7.15E- 0.82 2.30E-

0.714 3 2 WNU74 3 70 4 02 3 02

WNU7 3.30E- 0.78 3.51E-

0.794 3 36 WNU74 8 90 4 02 8 02

WNU7 2.93E- 0.84 3.27E-

0.860 8 50 WNU74 8 2 4 03 8 02

WNU7 7.07E- 0.89 1.00E-

0.908 8 62 WNU74 8 61 4 04 8 03

WNU7 1.92E- 0.78 3.69E-

0.836 8 96 WNU74 9 34 4 02 4 02

WNU7 1.28E- 0.71 2.98E-

0.944 8 51 WNU74 9 25 4 04 7 02

WNU7 2.24E- 0.92 2.99E-

0.825 9 2 WNU74 9 36 4 02 3 03

WNU7 3.02E- 0.73 1.53E-

0.859 9 79 WNU74 9 66 4 03 6 02

WNU7 2.21E- 0.79 3.32E-

0.932 9 70 WNU74 1 2 4 03 4 02

WNU7 2.27E- 0.71 2.15E-

0.705 1 50 WNU74 1 61 4 02 0 02

WNU7 1.71E- 0.80 1.63E-

0.762 1 1 WNU74 4 89 4 02 4 02

WNU7 3.47E- 0.75 3.07E-

0.885 4 73 WNU74 4 77 4 03 4 02

WNU7 5.27E- 0.77 2.44E-

0.701 4 25 WNU74 4 26 4 02 3 02

WNU7 1.79E- 0.74 5.64E-

0.797 4 24 WNU74 2 34 4 02 2 02

WNU7 1.05E- 0.83 2.08E-

0.722 4 55 WNU74 2 92 4 01 0 02

WNU7 7.27E- 0.77 8.33E-

0.712 2 7 WNU74 2 82 4 02 6 03

WNU7 3.54E- 0.75 5.05E-

0.852 2 6 WNU74 2 36 4 03 4 02

WNU7 1.72E- 0.90 4.85E-

0.761 2 79 WNU74 2 88 4 02 7 03

WNU7 5.94E- 0.70 3.47E-

0.736 2 70 WNU74 2 69 4 02 3 02

WNU7 2.24E- 0.71 3.06E-

0.741 2 91 WNU74 2 35 4 02 4 02

Table 62. "Corr. ID " - correlation set ID according to the correlated parameters Table 59 above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value. Table 63

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under normal fertilization conditions across foxtail millet accessions

Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

WNU1 0.722 1.84E-02 3 35 WNU1 0.722 1.84E-02 3 42

WNU1 0.853 3.49E-03 2 29 WNU1 0.853 3.43E-03 2 33

WNU1 0.715 3.05E-02 2 30 WNU1 0.844 4.24E-03 2 40

WNU1 0.873 2.11E-03 2 32 WNU1 0.775 2.38E-02 11 1

WNU1 0.768 9.51E-03 11 56 WNU1 0.735 5.96E-02 9 52

WNU1 0.773 1.45E-02 12 62 WNU1 0.726 4.14E-02 12 54

WNU53 0.703 1.19E-01 8 41 WNU53 0.714 3.06E-02 4 7

WNU53 0.937 1.82E-03 4 54 WNU53 0.914 1.51E-03 3 4

WNU53 0.834 1.97E-02 2 4 WNU53 0.900 9.31E-04 5 46

WNU53 0.724 6.57E-02 5 20 WNU53 0.861 2.86E-03 5 7

WNU53 0.872 4.73E-03 5 4 WNU53 0.803 9.21E-03 5 45

WNU53 0.755 5.00E-02 5 53 WNU53 0.708 2.21E-02 11 29

WNU53 0.713 2.06E-02 11 33 WNU53 0.942 4.78E-04 11 43

WNU53 0.718 1.93E-02 11 7 WNU53 0.730 3.99E-02 11 19

WNU53 0.740 1.44E-02 1 26 WNU53 0.780 1.32E-02 1 19

WNU53 0.894 2.75E-03 1 62 WNU53 0.714 2.03E-02 1 56

WNU53 0.823 6.49E-03 9 46 WNU53 0.827 5.95E-03 9 29

WNU53 0.846 4.06E-03 9 33 WNU53 0.838 9.46E-03 9 43

WNU53 0.778 1.37E-02 9 7 WNU53 0.778 3.93E-02 9 19

WNU53 0.700 5.32E-02 9 4 WNU53 0.716 3.02E-02 9 45

WNU53 0.706 3.37E-02 9 59 WNU53 0.716 3.02E-02 12 47

WNU53 0.718 2.95E-02 12 25 WNU54 0.864 1.22E-02 4 49

WNU54 0.759 4.79E-02 4 20 WNU54 0.777 4.00E-02 4 52

WNU54 0.777 3.99E-02 4 61 WNU54 0.762 1.71E-02 4 55

WNU54 0.753 8.42E-02 4 37 WNU54 0.725 2.70E-02 4 58

WNU54 0.739 5.76E-02 4 21 WNU54 0.734 2.43E-02 4 26

WNU54 0.850 1.53E-02 4 63 WNU54 0.718 6.91E-02 4 19

WNU54 0.856 1.40E-02 4 50 WNU54 0.725 6.51E-02 4 17

WNU54 0.712 3.12E-02 4 62 WNU54 0.838 1.86E-02 4 53

WNU54 0.828 2.13E-02 4 18 WNU54 0.865 5.51E-03 3 48

WNU54 0.911 4.28E-03 2 20 WNU54 0.749 5.28E-02 2 52

WNU54 0.883 8.37E-03 2 61 WNU54 0.782 3.79E-02 2 21

WNU54 0.791 3.43E-02 2 17 WNU54 0.828 2.15E-02 2 53

WNU54 0.923 2.99E-03 2 18 WNU54 0.826 6.06E-03 5 46

WNU54 0.719 4.44E-02 5 43 WNU54 0.767 1.59E-02 5 7

WNU54 0.701 3.54E-02 5 14 WNU54 0.828 2.13E-02 11 37

WNU54 0.756 3.00E-02 11 19 WNU54 0.845 4.17E-03 1 49

WNU54 0.791 1.12E-02 1 52 WNU54 0.722 1.84E-02 1 8

WNU54 0.715 2.00E-02 1 13 WNU54 0.768 9.42E-03 1 5

WNU54 0.923 3.93E-04 1 63 WNU54 0.946 1.15E-04 1 50

WNU54 0.784 1.24E-02 1 53 WNU54 0.728 2.61E-02 9 46

WNU54 0.730 2.55E-02 9 11 WNU54 0.731 3.93E-02 9 43

WNU55 0.726 4.13E-02 3 1 WNU55 0.789 6.61E-03 3 40 Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

WNU55 0.829 2.11E-02 2 1 WNU55 0.788 3.53E-02 2 54

WNU55 0.742 5.60E-02 5 20 WNU55 0.803 2.95E-02 5 52

WNU55 0.762 4.63E-02 5 61 WNU55 0.828 2.14E-02 5 21

WNU55 0.716 7.05E-02 5 63 WNU55 0.793 3.33E-02 5 17

WNU55 0.754 5.05E-02 5 53 WNU55 0.749 3.24E-02 11 1

WNU55 0.790 6.58E-03 11 55 WNU55 0.715 2.02E-02 11 58

WNU55 0.725 1.77E-02 11 57 WNU55 0.812 4.31E-03 11 26

WNU55 0.820 1.27E-02 11 62 WNU55 0.737 1.51E-02 11 56

WNU55 0.705 3.41E-02 11 59 WNU55 0.736 1.53E-02 1 55

WNU55 0.717 1.97E-02 1 57 WNU55 0.787 6.85E-03 1 26

WNU55 0.848 3.84E-03 1 19 WNU55 0.927 9.03E-04 1 62

WNU55 0.809 4.59E-03 1 56 WNU55 0.718 2.93E-02 1 59

WNU55 0.719 6.89E-02 9 49 WNU55 0.713 7.21E-02 9 20

WNU55 0.742 5.64E-02 9 52 WNU55 0.766 4.48E-02 9 61

WNU55 0.774 4.09E-02 9 21 WNU55 0.794 3.29E-02 9 63

WNU55 0.767 2.63E-02 9 47 WNU55 0.784 3.69E-02 9 50

WNU55 0.812 2.65E-02 9 17 WNU55 0.842 8.79E-03 9 25

WNU55 0.848 3.89E-03 12 1 WNU55 0.770 9.16E-03 12 55

WNU55 0.716 1.99E-02 12 58 WNU55 0.781 7.71E-03 12 57

WNU55 0.800 5.46E-03 12 56 WNU55 0.835 5.14E-03 12 59

WNU56 0.854 3.03E-02 8 41 WNU56 0.791 1.12E-02 4 29

WNU56 0.778 1.36E-02 4 33 WNU56 0.850 1.54E-02 4 22

WNU56 0.765 1.62E-02 4 32 WNU56 0.751 1.23E-02 3 30

WNU56 0.855 1.62E-03 3 14 WNU56 0.711 3.18E-02 3 51

WNU56 0.722 1.83E-02 3 32 WNU56 0.728 1.69E-02 3 9

WNU56 0.727 6.41E-02 2 24 WNU56 0.842 4.36E-03 2 29

WNU56 0.841 4.48E-03 2 33 WNU56 0.727 6.42E-02 2 22

WNU56 0.742 2.22E-02 2 32 WNU56 0.713 7.20E-02 5 54

WNU56 0.724 6.56E-02 5 18 WNU56 0.759 2.89E-02 1 24

WNU56 0.825 3.31E-03 1 29 WNU56 0.814 4.19E-03 1 33

WNU56 0.814 7.64E-03 1 22 WNU56 0.750 3.20E-02 1 60

WNU56 0.776 2.36E-02 1 4 WNU56 0.777 8.19E-03 1 32

WNU56 0.704 7.76E-02 9 54 WNU56 0.836 9.74E-03 12 52

WNU56 0.777 8.23E-03 12 2 WNU56 0.756 1.14E-02 12 29

WNU56 0.817 3.95E-03 12 8 WNU56 0.777 8.23E-03 12 23

WNU56 0.750 1.24E-02 12 33 WNU56 0.768 2.60E-02 12 21

WNU56 0.835 5.12E-03 12 60 WNU56 0.845 2.07E-03 12 30

WNU56 0.812 1.43E-02 12 63 WNU56 0.759 2.90E-02 12 50

WNU56 0.736 3.73E-02 12 17 WNU56 0.749 1.27E-02 12 32

WNU56 0.753 1.20E-02 12 9 WNU56 0.923 1.42E-04 12 3

WNU57 0.829 4.15E-02 8 14 WNU57 0.818 4.66E-02 8 34

WNU57 0.702 3.48E-02 2 29 WNU57 0.713 3.12E-02 5 29

WNU57 0.824 1.20E-02 5 43 WNU57 0.743 2.18E-02 5 14

WNU57 0.711 3.18E-02 5 32 WNU57 0.800 3.06E-02 9 22

WNU57 0.702 3.51E-02 9 14 WNU57 0.881 7.60E-04 12 29

WNU57 0.880 7.86E-04 12 33 WNU57 0.743 2.18E-02 12 43

WNU57 0.859 1.44E-03 12 32 WNU57 0.753 1.19E-02 12 34

WNU58 0.715 l.lOE-01 8 6 WNU58 0.702 1.20E-01 8 8 Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

WNU58 0.837 4.89E-03 5 46 WNU58 0.857 6.49E-03 5 43

WNU58 0.809 8.32E-03 5 7 WNU58 0.829 5.75E-03 5 14

WNU58 0.721 2.85E-02 5 45 WNU58 0.824 6.36E-03 1 49

WNU58 0.798 1.00E-02 1 51 WNU58 0.899 9.71E-04 9 46

WNU58 0.796 1.80E-02 9 43 WNU58 0.879 1.79E-03 9 7

WNU58 0.807 1.54E-02 9 4 WNU58 0.843 4.28E-03 9 45

WNU58 0.702 5.22E-02 12 49 WNU58 0.771 9.00E-03 12 29

WNU58 0.769 9.26E-03 12 33 WNU58 0.778 1.36E-02 12 43

WNU58 0.833 1.03E-02 12 51 WNU58 0.805 4.99E-03 12 32

WNU59 0.727 4.10E-02 12 18 WNU60 0.701 3.54E-02 4 29

WNU60 0.772 1.48E-02 4 43 WNU60 0.756 1.85E-02 4 14

WNU60 0.858 1.34E-02 2 1 WNU60 0.848 3.84E-03 2 55

WNU60 0.907 7.40E-04 2 58 WNU60 0.853 1.47E-02 2 48

WNU60 0.793 1.08E-02 2 57 WNU60 0.793 1.07E-02 2 26

WNU60 0.848 1.58E-02 2 62 WNU60 0.826 6.11E-03 2 56

WNU60 0.810 1.49E-02 2 59 WNU60 0.952 2.68E-04 11 43

WNU60 0.753 1.91E-02 1 49 WNU60 0.729 2.57E-02 1 52

WNU60 0.767 9.69E-03 1 8 WNU60 0.737 1.51E-02 1 5

WNU60 0.839 4.70E-03 1 63 WNU60 0.807 8.50E-03 1 50

WNU60 0.729 1.67E-02 1 3 WNU60 0.735 1.55E-02 12 29

WNU60 0.729 1.68E-02 12 33 WNU60 0.815 1.36E-02 12 51

WNU60 0.796 5.86E-03 12 34 WNU61 0.810 2.74E-02 4 49

WNU61 0.790 3.47E-02 4 20 WNU61 0.748 2.05E-02 4 29

WNU61 0.809 2.77E-02 4 61 WNU61 0.749 2.01E-02 4 33

WNU61 0.728 6.38E-02 4 63 WNU61 0.748 5.33E-02 4 50

WNU61 0.702 7.85E-02 4 17 WNU61 0.862 1.27E-02 4 53

WNU61 0.770 1.53E-02 4 3 WNU61 0.887 7.81E-03 4 18

WNU61 0.755 1.16E-02 3 34 WNU61 0.893 6.73E-03 2 62

WNU61 0.703 7.80E-02 5 20 WNU61 0.774 4.11E-02 5 52

WNU61 0.742 5.64E-02 5 53 WNU61 0.768 9.53E-03 1 29

WNU61 0.756 1.14E-02 1 33 WNU61 0.729 2.59E-02 1 51

WNU61 0.819 1.29E-02 1 4 WNU61 0.806 4.86E-03 1 32

WNU61 0.832 2.02E-02 9 49 WNU61 0.864 1.22E-02 9 20

WNU61 0.897 6.15E-03 9 52 WNU61 0.792 3.36E-02 9 61

WNU61 0.720 2.88E-02 9 55 WNU61 0.737 2.36E-02 9 58

WNU61 0.883 8.42E-03 9 21 WNU61 0.770 1.52E-02 9 57

WNU61 0.810 2.73E-02 9 63 WNU61 0.842 1.75E-02 9 50

WNU61 0.847 1.61E-02 9 17 WNU61 0.772 4.20E-02 9 53

WNU61 0.748 2.06E-02 9 56 WNU61 0.865 2.61E-03 9 59

WNU61 0.739 5.79E-02 9 18 WNU61 0.721 1.85E-02 12 46

WNU61 0.793 1.07E-02 12 1 WNU61 0.731 1.64E-02 12 11

WNU61 0.730 1.66E-02 12 57 WNU63 0.705 3.40E-02 4 55

WNU63 0.783 1.26E-02 4 58 WNU63 0.706 3.34E-02 4 48

WNU63 0.773 1.47E-02 4 57 WNU63 0.721 2.85E-02 4 26

WNU63 0.728 6.37E-02 4 63 WNU63 0.739 5.75E-02 4 50

WNU63 0.774 1.43E-02 4 56 WNU63 0.821 6.66E-03 4 59

WNU63 0.710 2.14E-02 3 6 WNU63 0.716 4.58E-02 3 48

WNU63 0.816 4.01E-03 3 57 WNU63 0.856 1.58E-03 3 14 Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

WNU63 0.799 9.73E-03 3 19 WNU63 0.710 4.83E-02 3 62

WNU63 0.758 1.11E-02 3 56 WNU63 0.812 7.85E-03 3 59

WNU63 0.729 6.30E-02 2 20 WNU63 0.709 3.24E-02 2 55

WNU63 0.716 3.00E-02 2 58 WNU63 0.718 6.91E-02 2 21

WNU63 0.776 1.39E-02 2 57 WNU63 0.726 2.67E-02 2 26

WNU63 0.755 4.97E-02 2 17 WNU63 0.815 7.50E-03 2 56

WNU63 0.963 1.28E-04 2 59 WNU63 0.848 1.60E-02 5 20

WNU63 0.892 6.97E-03 5 61 WNU63 0.762 1.69E-02 5 55

WNU63 0.784 3.71E-02 5 21 WNU63 0.779 1.33E-02 5 57

WNU63 0.786 1.20E-02 5 26 WNU63 0.825 2.23E-02 5 17

WNU63 0.927 9.16E-04 5 62 WNU63 0.795 3.25E-02 5 53

WNU63 0.801 9.52E-03 5 56 WNU63 0.770 1.52E-02 5 59

WNU63 0.913 4.03E-03 5 18 WNU63 0.738 3.67E-02 11 1

WNU63 0.723 4.28E-02 11 49 WNU63 0.894 6.63E-03 11 37

WNU63 0.735 3.80E-02 11 50 WNU63 0.794 1.07E-02 1 49

WNU63 0.854 3.38E-03 1 20 WNU63 0.790 1.13E-02 1 52

WNU63 0.827 5.99E-03 1 61 WNU63 0.729 1.69E-02 1 55

WNU63 0.722 6.70E-02 1 37 WNU63 0.818 7.04E-03 1 21

WNU63 0.741 1.43E-02 1 5 WNU63 0.729 1.68E-02 1 57

WNU63 0.746 1.31E-02 1 26 WNU63 0.858 3.09E-03 1 63

WNU63 0.845 4.09E-03 1 50 WNU63 0.793 1.08E-02 1 17

WNU63 0.740 3.59E-02 1 62 WNU63 0.751 1.97E-02 1 53

WNU63 0.822 3.53E-03 1 56 WNU63 0.822 6.57E-03 1 59

WNU63 0.905 7.78E-04 1 18 WNU63 0.725 6.53E-02 9 20

WNU63 0.752 5.11E-02 9 61 WNU63 0.719 2.89E-02 9 41

WNU63 0.791 3.42E-02 9 18 WNU63 0.798 9.97E-03 12 1

WNU63 0.718 6.93E-02 12 37 WNU63 0.724 1.79E-02 12 58

WNU63 0.748 3.28E-02 12 19 WNU63 0.712 3.16E-02 12 62

WNU65 0.748 8.71E-02 8 26 WNU65 0.770 7.31E-02 8 55

WNU65 0.873 2.32E-02 8 13 WNU65 0.741 5.67E-02 4 52

WNU65 0.757 4.89E-02 4 21 WNU65 0.711 7.31E-02 4 17

WNU65 0.797 5.77E-03 3 55 WNU65 0.787 6.92E-03 3 58

WNU65 0.723 1.80E-02 3 26 WNU65 0.705 5.10E-02 3 62

WNU65 0.745 5.47E-02 2 24 WNU65 0.934 2.22E-04 2 29

WNU65 0.933 2.44E-04 2 55 WNU65 0.874 2.06E-03 2 58

WNU65 0.928 3.04E-04 2 33 WNU65 0.873 1.03E-02 2 43

WNU65 0.755 4.97E-02 2 60 WNU65 0.909 4.55E-03 2 48

WNU65 0.925 3.55E-04 2 57 WNU65 0.935 2.18E-04 2 26

WNU65 0.962 5.33E-04 2 19 WNU65 0.897 6.18E-03 2 51

WNU65 0.929 2.52E-03 2 62 WNU65 0.878 1.85E-03 2 32

WNU65 0.926 3.36E-04 2 56 WNU65 0.868 5.23E-03 2 59

WNU65 0.811 8.06E-03 5 6 WNU65 0.768 1.57E-02 5 8

WNU65 0.799 9.76E-03 5 14 WNU65 0.763 1.68E-02 5 9

WNU65 0.804 1.61E-02 11 1 WNU65 0.859 6.24E-03 11 54

WNU65 0.779 2.27E-02 1 1 WNU65 0.739 1.46E-02 1 55

WNU65 0.787 6.85E-03 1 58 WNU65 0.765 1.00E-02 1 26

WNU65 0.715 4.64E-02 1 62 WNU65 0.820 6.85E-03 1 54

WNU65 0.854 3.39E-03 9 6 WNU65 0.818 7.02E-03 9 8 Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

WNU65 0.732 2.49E-02 9 10 WNU65 0.730 2.57E-02 9 5

WNU65 0.852 7.25E-03 9 48 WNU65 0.709 3.24E-02 9 14

WNU65 0.728 2.61E-02 9 32 WNU65 0.826 6.02E-03 9 9

WNU65 0.877 1.91E-03 12 1 WNU65 0.839 9.19E-03 12 20

WNU65 0.777 2.32E-02 12 52 WNU65 0.795 1.83E-02 12 61

WNU65 0.853 1.70E-03 12 55 WNU65 0.890 5.54E-04 12 58

WNU65 0.717 1.96E-02 12 7 WNU65 0.934 6.83E-04 12 21

WNU65 0.856 1.57E-03 12 57 WNU65 0.787 6.86E-03 12 26

WNU65 0.925 1.01E-03 12 17 WNU65 0.775 8.47E-03 12 56

WNU65 0.864 2.66E-03 12 59 WNU65 0.765 2.70E-02 12 18

WNU66 0.704 1.18E-01 8 46 WNU66 0.834 3.89E-02 8 11

WNU66 0.862 2.73E-02 8 45 WNU66 0.767 1.59E-02 4 48

WNU66 0.763 4.62E-02 4 19 WNU66 0.776 1.40E-02 3 22

WNU66 0.759 4.80E-02 2 19 WNU66 0.792 3.39E-02 2 62

WNU66 0.718 6.90E-02 2 54 WNU66 0.714 3.09E-02 5 46

WNU66 0.713 3.10E-02 5 29 WNU66 0.731 2.53E-02 5 33

WNU66 0.755 3.03E-02 5 43 WNU66 0.785 1.23E-02 5 7

WNU66 0.817 1.33E-02 11 1 WNU66 0.747 3.30E-02 11 49

WNU66 0.783 2.16E-02 11 20 WNU66 0.802 1.66E-02 11 52

WNU66 0.743 3.48E-02 11 61 WNU66 0.938 5.86E-05 11 55

WNU66 0.839 1.83E-02 11 37 WNU66 0.965 6.62E-06 11 58

WNU66 0.707 4.97E-02 11 21 WNU66 0.886 6.35E-04 11 57

WNU66 0.865 1.21E-03 11 26 WNU66 0.838 9.41E-03 11 63

WNU66 0.881 3.86E-03 11 50 WNU66 0.905 2.02E-03 11 62

WNU66 0.820 1.27E-02 11 53 WNU66 0.842 2.25E-03 11 56

WNU66 0.843 4.28E-03 11 59 WNU66 0.873 4.66E-03 11 18

WNU66 0.842 1.74E-02 1 37 WNU66 0.705 3.40E-02 1 19

WNU66 0.798 3.17E-02 9 19 WNU66 0.792 1.10E-02 12 43

WNU67 0.756 8.20E-02 8 11 WNU67 0.860 2.80E-02 8 45

WNU67 0.865 2.61E-02 8 35 WNU67 0.802 5.47E-02 8 7

WNU67 0.785 6.43E-02 8 42 WNU67 0.797 1.00E-02 4 13

WNU67 0.837 3.76E-02 4 37 WNU67 0.737 5.87E-02 4 63

WNU67 0.712 3.15E-02 4 14 WNU67 0.750 5.24E-02 4 50

WNU67 0.853 1.69E-03 3 29 WNU67 0.860 1.43E-03 3 33

WNU67 0.707 2.23E-02 3 32 WNU67 0.705 3.39E-02 2 46

WNU67 0.712 7.24E-02 2 48 WNU67 0.861 1.28E-02 2 62

WNU67 0.807 8.59E-03 2 45 WNU67 0.948 1.17E-03 2 54

WNU67 0.840 1.80E-02 5 51 WNU67 0.716 1.99E-02 1 40

WNU67 0.757 1.81E-02 1 54 WNU67 0.720 2.86E-02 9 11

WNU67 0.749 2.02E-02 9 40 WNU67 0.704 3.41E-02 9 34

WNU68 0.784 6.48E-02 8 13 WNU68 0.716 l. lOE-01 8 58

WNU68 0.815 4.84E-02 8 5 WNU68 0.902 8.73E-04 4 55

WNU68 0.839 4.74E-03 4 58 WNU68 0.795 1.04E-02 4 48

WNU68 0.911 6.40E-04 4 57 WNU68 0.869 2.36E-03 4 26

WNU68 0.898 6.02E-03 4 19 WNU68 0.898 1.01E-03 4 62

WNU68 0.856 3.21E-03 4 56 WNU68 0.858 3.05E-03 4 59

WNU68 0.756 1.85E-02 2 55 WNU68 0.758 4.85E-02 2 48

WNU68 0.803 9.16E-03 2 57 WNU68 0.823 6.48E-03 2 26 Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

WNU68 0.929 2.52E-03 2 19 WNU68 0.864 1.22E-02 2 62

WNU68 0.804 9.06E-03 2 56 WNU68 0.737 3.71E-02 2 59

WNU68 0.767 4.40E-02 5 19 WNU68 0.742 5.63E-02 5 18

WNU68 0.835 9.92E-03 11 1 WNU68 0.807 4.77E-03 11 55

WNU68 0.751 1.23E-02 11 58 WNU68 0.819 3.77E-03 11 57

WNU68 0.728 1.69E-02 11 26 WNU68 0.851 1.81E-03 11 56

WNU68 0.917 5.04E-04 11 59 WNU68 0.920 1.65E-04 1 55

WNU68 0.838 2.45E-03 1 58 WNU68 0.893 5.06E-04 1 57

WNU68 0.863 1.32E-03 1 26 WNU68 0.824 6.36E-03 1 19

WNU68 0.961 1.47E-04 1 62 WNU68 0.941 4.80E-05 1 56

WNU68 0.890 1.31E-03 1 59 WNU68 0.795 3.27E-02 9 49

WNU68 0.809 2.75E-02 9 20 WNU68 0.862 1.26E-02 9 61

WNU68 0.716 7.01E-02 9 21 WNU68 0.728 2.63E-02 9 26

WNU68 0.853 1.46E-02 9 19 WNU68 0.796 3.24E-02 9 17

WNU68 0.790 1.96E-02 9 62 WNU68 0.873 1.02E-02 9 53

WNU68 0.867 1.16E-02 9 18 WNU68 0.727 4.09E-02 12 22

WNU69 0.774 7.07E-02 8 41 WNU69 0.893 1.18E-03 3 54

WNU69 0.737 1.50E-02 3 56 WNU69 0.783 1.26E-02 2 55

WNU69 0.737 2.34E-02 2 58 WNU69 0.804 2.94E-02 2 48

WNU69 0.734 2.43E-02 2 57 WNU69 0.814 7.63E-03 2 26

WNU69 0.839 1.83E-02 2 19 WNU69 0.919 3.40E-03 2 62

WNU69 0.747 2.07E-02 2 56 WNU69 0.751 3.18E-02 11 1

WNU69 0.811 4.38E-03 11 55 WNU69 0.745 1.35E-02 11 58

WNU69 0.757 1.12E-02 11 57 WNU69 0.809 4.55E-03 11 26

WNU69 0.756 1.15E-02 11 56 WNU69 0.760 1.75E-02 11 59

WNU69 0.772 2.48E-02 1 1 WNU69 0.795 5.94E-03 1 55

WNU69 0.887 6.24E-04 1 58 WNU69 0.719 1.91E-02 1 57

WNU69 0.736 1.52E-02 1 26 WNU69 0.702 7.89E-02 9 17

WNU70 0.830 4.08E-02 8 41 WNU70 0.797 1.01E-02 4 32

WNU70 0.757 1.83E-02 4 9 WNU70 0.760 2.85E-02 3 1

WNU70 0.752 1.95E-02 3 19 WNU70 0.780 2.24E-02 3 62

WNU70 0.739 2.29E-02 3 59 WNU70 0.724 2.73E-02 2 30

WNU70 0.742 5.64E-02 2 19 WNU70 0.880 8.89E-03 2 62

WNU70 0.766 4.45E-02 2 54 WNU70 0.806 8.65E-03 2 34

WNU70 0.761 4.71E-02 5 19 WNU70 0.784 7.27E-03 11 30

WNU70 0.705 2.29E-02 11 32 WNU70 0.728 1.70E-02 11 41

WNU70 0.771 1.50E-02 1 22 WNU70 0.938 5.69E-04 1 4

WNU70 0.788 2.01E-02 9 25 WNU70 0.744 2.17E-02 12 60

WNU71 0.701 2.38E-02 3 42 WNU71 0.877 9.56E-03 2 62

WNU71 0.895 6.54E-03 2 54 WNU71 0.752 1.95E-02 5 6

WNU71 0.899 5.91E-03 5 49 WNU71 0.924 2.97E-03 5 20

WNU71 0.875 9.93E-03 5 52 WNU71 0.744 2.14E-02 5 2

WNU71 0.940 1.62E-03 5 61 WNU71 0.712 3.15E-02 5 8

WNU71 0.841 4.52E-03 5 10 WNU71 0.744 2.14E-02 5 23

WNU71 0.948 1.14E-03 5 21 WNU71 0.703 3.45E-02 5 5

WNU71 0.951 9.94E-04 5 63 WNU71 0.899 2.36E-03 5 47

WNU71 0.939 1.70E-03 5 50 WNU71 0.958 6.84E-04 5 17

WNU71 0.907 1.88E-03 5 25 WNU71 0.786 3.59E-02 5 53 Cor.

Gene Exp. Gene Exp. Cor.

R P value Set R P value

Name set Name set Set ID

ID

WNU71 0.745 2.14E-02 5 59 WNU71 0.887 7.78E-03 5 18

WNU71 0.705 2.27E-02 1 58 WNU71 0.735 1.55E-02 1 26

WNU72 0.711 3.16E-02 4 55 WNU72 0.748 2.04E-02 4 57

WNU72 0.715 3.02E-02 4 26 WNU72 0.803 9.13E-03 4 40

WNU72 0.793 1.08E-02 4 62 WNU72 0.738 5.84E-02 4 54

WNU72 0.872 2.19E-03 4 56 WNU72 0.761 1.73E-02 4 59

WNU72 0.792 6.27E-03 3 46 WNU72 0.749 1.27E-02 3 29

WNU72 0.850 1.82E-03 3 55 WNU72 0.720 1.89E-02 3 58

WNU72 0.761 1.06E-02 3 33 WNU72 0.826 3.24E-03 3 7

WNU72 0.712 3.14E-02 3 22 WNU72 0.758 1.12E-02 3 57

WNU72 0.724 1.79E-02 3 26 WNU72 0.799 9.74E-03 3 19

WNU72 0.802 1.66E-02 3 62 WNU72 0.732 1.61E-02 3 45

WNU72 0.731 1.63E-02 3 56 WNU72 0.843 4.31E-03 2 55

WNU72 0.847 3.98E-03 2 58 WNU72 0.853 1.46E-02 2 48

WNU72 0.777 1.38E-02 2 57 WNU72 0.823 6.37E-03 2 26

WNU72 0.732 6.16E-02 2 19 WNU72 0.834 1.96E-02 2 62

WNU72 0.727 2.64E-02 2 56 WNU72 0.730 3.98E-02 2 59

WNU72 0.881 8.76E-03 5 22 WNU72 0.707 4.97E-02 5 48

WNU72 0.810 4.52E-03 11 30 WNU72 0.731 3.95E-02 11 19

WNU72 0.745 3.39E-02 1 24 WNU72 0.845 4.09E-03 1 22

WNU72 0.729 4.03E-02 1 60 WNU72 0.741 2.22E-02 1 54

WNU72 0.701 5.27E-02 9 48 WNU72 0.749 1.27E-02 12 46

WNU72 0.778 8.00E-03 12 11 WNU72 0.715 2.00E-02 12 7

WNU72 0.786 6.97E-03 12 45 WNU73 0.703 3.47E-02 5 46

WNU73 0.725 4.19E-02 5 43 WNU73 0.749 2.01E-02 5 14

WNU73 0.729 1.68E-02 11 29 WNU73 0.713 2.05E-02 11 33

WNU73 0.743 1.38E-02 11 32 WNU73 0.708 2.20E-02 1 29

WNU73 0.709 2.17E-02 1 40 WNU73 0.829 5.70E-03 9 46

WNU73 0.896 2.57E-03 9 43 WNU73 0.753 1.92E-02 9 7

WNU73 0.715 3.03E-02 9 14 WNU73 0.759 1.77E-02 9 45

WNU73 0.746 2.10E-02 12 43 WNU74 0.744 5.51E-02 4 22

WNU74 0.776 1.40E-02 4 40 WNU74 0.727 1.72E-02 3 34

WNU74 0.713 3.09E-02 2 11 WNU74 0.776 1.39E-02 2 55

WNU74 0.837 1.89E-02 2 48 WNU74 0.716 2.99E-02 2 26

WNU74 0.810 2.73E-02 2 19 WNU74 0.730 6.25E-02 2 62

WNU74 0.723 2.78E-02 2 45 WNU74 0.782 3.77E-02 2 54

WNU74 0.711 7.33E-02 5 54 WNU74 0.807 8.63E-03 9 40

WNU74 0.763 1.03E-02 12 29 WNU74 0.766 9.79E-03 12 33

WNU74 0.825 6.23E-03 12 43 WNU74 0.744 1.35E-02 12 40

Table 63. "Corr. ID" - correlation set ID according to the correlated parameters Table 58 above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value. EXAMPLE 13

PRODUCTION OF WHEAT TRANSCRIPTOME AND HIGH THROUGHPUT CORRELATION ANALYSIS USING 60K WHEAT OLIGONUCLEOTIDE MICRO- ARRAY

In order to produce a high throughput correlation analysis comparing between plant phenotype and gene expression level, the present inventors utilized a Wheat oligonucleotide micro-array, produced by Agilent Technologies [chem. (dot) agilent (dot) com/Scripts/PDS (dot) asp?lPage=50879]. The array oligonucleotide represents about 60K Wheat genes and transcripts. In order to define correlations between the levels of RNA expression and yield or vigor related parameters, various plant characteristics of 14 different Wheat accessions were analyzed. Among them, 10 accessions encompassing the observed variance were selected for RNA expression analysis. The correlation between the RNA levels and the characterized parameters was analyzed using Pearson correlation test [davidmlane (dot) com/hyperstat/A34739 (dot) html].

Experimental procedures

14 Wheat accessions in 5 repetitive blocks, each containing 8 plants per pot were grown at net house. Three different treatments were applied: plants were regularly fertilized and watered during plant growth until harvesting (as recommended for commercial growth, plants were irrigated 2-3 times a week, and fertilization was given in the first 1.5 months of the growth period) or under low Nitrogen (70% percent less Nitrogen) or under drought stress (cycles of drought and re-irrigating were conducted throughout the whole experiment, overall 40% less water were given in the drought treatment).

Analyzed Wheat tissues - Five tissues at different developmental stages [leaf, stem, root tip and adventitious root, flower], representing different plant characteristics, were sampled and RNA was extracted as described above. Each micro-array expression information tissue type has received a Set ID as summarized in Table 64 below.

Table 64

Wheat transcriptome expression sets under normal conditions

Expression Set Set ID adv root:Normal:first tillering: 1 basal lemma:Normal:grain filling: 2 basal spike:Normal:flowering: 3 basal spike:Normal:grain filling: 4

leaf: Normal: flowering : 5 leaf: Normal: grain filling: 6 root tip:Normal:first tillering: 7 stem:Normal:flowering: 8 stem:Normal:grain filling: 9

Table 64. Provided are the wheat transcriptome expression sets under normal conditions.

Table 65

Wheat transcriptome expression sets under low N conditions

Expression Set Set ID adv root:Low N:first tillering 1 basal spike:Low N:flowering 2 basal spike:Low N:grain filling 3

leafLow N:flowering 4 leafLow N:grain filling 5 root tip:Low N:first tillering 6 wheat/evogene exp848 Low N/stem:Low N:flowering 7 wheat/evogene exp848 Low N/stem:Low N:grain filling 8

Table 65. Provided are the wheat transcriptome expression sets under low N conditions.

Table 66

Wheat transcriptome expression sets low N vs. normal conditions

Expression Set Set ID

Low N vs. normal/adv root:Low N:first tillering 1

Low N vs. normal/basal spike:Low N:flowering 2

Low N vs. normal/basal spike:Low N:grain filling 3

Low N vs. normal/leafLow N:flowering 4

Low N vs. normal/leafLow N:grain filling 5

Low N vs. normal/root tip:Low N:first tillering 6

Low N vs. normal/stem: Low N:flowering 7

Low N vs. normal/stem: Low N:grain filling 8

Table 66. Provided are the wheat transcriptome expression sets at low N versus (vs.) normal conditions.

Wheat yield components and vigor related parameters assessment - Plants were phenotyped on a daily basis following the parameters listed in Tables 67-68 below. Harvest was conducted while all the spikes were dry. All material was oven dried and the seeds were threshed manually from the spikes prior to measurement of the seed characteristics (weight and size) using scanning and image analysis. The image analysis system included a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.37 (Java based image processing program, which was developed at the U.S. National Institutes of Health and freely available on the internet [rsbweb (dot) nih (dot) gov/]. Next, analyzed data was saved to text files and processed using the JMP statistical analysis software (SAS institute).

Grain yield (gr.) - At the end of the experiment all spikes of the pots were collected. The total grains from all spikes that were manually threshed were weighted. The grain yield was calculated by per plot or per plant.

Spike length and width analysis - At the end of the experiment the length and width of five chosen spikes per plant were measured using measuring tape excluding the awns.

Spike number analysis - The spikes per plant were counted.

Plant height - Each of the plants was measured for its height using measuring tape. Height was measured from ground level to top of the longest spike excluding awns at two time points at the Vegetative growth (30 days after sowing) and at harvest.

Spike weight - The biomass and spikes weight of each plot was separated, measured and divided by the number of plants.

Dry weight - total weight of the vegetative portion above ground (excluding roots) after drying at 70°C in oven for 48 hours at two time points at the Vegetative growth (30 days after sowing) and at harvest.

Spikelet per spike - number of spikelets per spike was counted.

Root/Shoot Ratio - The Root/Shoot Ratio is calculated using Formula XXII described above.

Total No. of tillers- all tillers were counted per plot at two time points at the Vegetative growth (30 days after sowing) and at harvest.

Node number- number of nodes in the main stem.

Percent of reproductive tillers - the number of reproductive tillers barring a spike at harvest was divided by the total numbers of tillers.

SPAD - Chlorophyll content was determined using a Minolta SPAD 502 chlorophyll meter and measurement was performed at time of flowering. SPAD meter readings were done on young fully developed leaf. Three measurements per leaf were taken per plot.

Root FW (gr.), root length (cm) and No. of lateral roots - 3 plants per plot were selected for measurement of root weight, root length and for counting the number of lateral roots formed. Shoot FW (fresh weight) - weight of 3 plants per plot were recorded at different time- points.

Average Grain Area (cm ) - At the end of the growing period the grains were separated from the spike. A sample of -200 grains was weighted, photographed and images were processed using the below described image processing system. The grain area was measured from those images and was divided by the number of grains.

Average Grain Length and width (cm) - At the end of the growing period the grains were separated from the spike. A sample of -200 grains was weighted, photographed and images were processed using the below described image processing system. The sum of grain lengths or width (longest axis) was measured from those images and was divided by the number of grains.

Average Grain perimeter (cm) - At the end of the growing period the grains were separated from the spike. A sample of -200 grains was weighted, photographed and images were processed using the below described image processing system. The sum of grain perimeter was measured from those images and was divided by the number of grains.

Heading date - the day in which booting stage was observed was recorded and number of days from sowing to heading was calculated.

Relative water content - Fresh weight (FW) of three leaves from three plants each from different seed ID was immediately recorded; then leaves were soaked for 8 hours in distilled water at room temperature in the dark, and the turgid weight (TW) was recorded. Total dry weight (DW) was recorded after drying the leaves at 60°C to a constant weight. Relative water content (RWC) is calculated according to Formula I above.

Tiller abortion rate (hd to F)- difference between tiller number at heading and tillet number at flowering divided by tiller number at heading.

Tiller abortion rate- difference between tiller number at harvest and tillet number at flowering divided by tiller number at flowering.

Grain N (H)- % N content of dry matter in the grain at harvest.

Head N ( GF)- % N content of dry matter in the head at grainfilling.

Total shoot N-calculated as the % N content multiplied by the weight of plant shoot. Total grain N- calculated as the % N content multiplied by the weight of plant grain yield.

NUE [kg/kg] (N use efficiency) - is the ratio between total grain yield per total N applied in soil.

NUpE [kg/kg] (N uptake efficiency) - is the ratio between total plant biomass per total N applied in soil.

Grain NUtE (N utilization efficiency) - is the ratio between grain yield per total shoot N Total NUtE - is the ratio between grain and shoot biomass per total shoot N.

Stem Volume - (lower stem is the lowest intemode and upper stem is the intemode just below the head)- calculated volume of intemode part.

Stem density - is the ratio between intemode dry weight and intemode volume.

NHI (N harvest index) - is the ratio between total grain N and total plant N (= total shoot N + total grain N).

BPE (Biomass production efficiency) - is the ratio between plant biomass and total shoot N.

Grain fill duration - the difference between number of days to maturity and number of days to flowering.

Harvest Index (for Wheat) - The harvest index was calculated using Formula XVIII described above.

Growth rate: the growth rate (GR) of Plant Height (Formula III described above), SPAD (Formula IV described above) and number of tillers (Formula V described above) were calculated with the indicated Formulas.

Specific N absorption - N absorbed per root biomass.

Specific root length - root biomass per root length.

Ratio low N/Normal: Represents ratio for the specified parameter of Drought condition results divided by Normal conditions results (maintenance of phenotype under drought in comparison to normal conditions).

Table 67

Wheat correlated parameters under normal and low N conditions (vectors)

Correlation set Correlation ID

1000 grain weight [gr] 1

Avr spike DW (SS) [gr] 2

Avr spike DW (flowering) [gr] 3 Correlation set Correlation ID peduncle volume [cm ³ ] 54 specific N absorption [mg/gr] 55 specific root length [gr/cm] 56 tiller abortion rate (hd to F) 57

total NUtE 58 total grain N 59 total shoot N 60

Table 67. Provided are the wheat correlated parameters. "TP" = time point; "DW" = dry weight; "FW" = fresh weight; "Low N" = Low Nitrogen; "Relative water content [percent]; "num" = number. Table 68

Wheat correlated parameters under low N conditions vs. normal (vectors)

Table 68. Provided are the wheat correlated parameters. "TP" = time point; "DW" = dry weight; "FW" = fresh weight; "Low N" = Low Nitrogen; "RWC" = Relative water content [percent].

Experimental Results

Fourteen different Wheat accessions were grown and characterized for different parameters as described above. Tables 67-68 describe the wheat correlated parameters. The average for each of the measured parameter was calculated using the JMP software and values are summarized in Tables 69-71 below. Subsequent correlation analysis between the various transcriptome sets and the average parameters was conducted (Tables 72-74). Follow, results were integrated to the database.

Table 69

Measured parameters of correlation IDs in wheat accessions under normal conditions

Cor.

L- L- L- L- L- ID/ L-l L-2 L-3 L-4 L·5 L-6 L-7 L-8 L-9

10 11 12 13 14 Line

24. 19. 11. 29. 9.2 21. 22. 15. 13. 20. 33. 16. 12. 13.

1

81 31 63 68 4 05 14 08 61 71 52 66 74 43

1.5 0.8 1.4 2.6 1.2 1.4 0.6 1.5 1.6 1.9 2.8 1.6 0.6 0.4

2

2 4 9 4 3 5 6 9 7 6 9 4 2 2

5.6 0.2 0.3 4.2 0.3 0.2 0.2 0.2 0.4 9.1 5.1

3 NA NA NA 7 8 1 8 6 4 7 8 7 1 1

1.3 0.8 1.4 2.5 1.0 1.5 0.5 1.4 1.4 2.0 2.4 1.1 0.4 0.3

4

6 9 1 1 1 7 1 2 8 6 6 6 4 6

0.5 0.3 0.3 0.4 0.3 0.6 0.5 0.2 0.5 0.8 0.7

5 NA NA NA

8 6 4 7 7 1 8 7 6 3 6

74. 73. 81. 88. 75. 83. 87. 78. 86. 75.

6 NA NA NA NA 09 31 68 72 72 70 05 99 83 82

0.2 0.1 0.1 0.1 0.1 0.1 0.1 0.2 0.1 0.1 0.2 0.1 0.1 0.1

7

0 7 5 8 7 9 4 0 7 8 0 7 1 1

27. 31. 30. 27. 32. 29. 27. 26.

8 NA NA NA NA NA NA 89 43 02 75 84 20 10 48

94. 68. 122 123 151 105 16. 106 103 141 139 85. 13. 18.

9

23 65 .44 .90 .23 .13 30 .83 .09 .63 .23 38 10 57

19. 13. 22. 37. 21. 19. 5.9 20. 23. 30. 34. 18. 5.0 6.6

10

69 29 77 16 52 41 8 00 41 03 00 49 7 0

2.1 1.2 2.1 2.9 1.6 1.8 1.9 2.3 2.8 2.2

11 NA NA NA NA 7 6 9 3 4 3 3 0 0 8

4.5 2.7 3.7 5.9 4.3 4.8 0.4 5.2 4.1 6.0 6.9 3.5 0.4 2.5

12

4 5 6 3 2 6 8 9 1 1 1 9 0 3

0.9 0.5 0.7 1.7 0.5 0.9 0.1 0.9 0.9 1.2 1.6 0.7 0.0 0.7

13

5 3 0 4 9 0 3 6 3 6 9 8 9 7

0.4 0.3 0.2 0.4 0.2 0.3 0.0 0.4 0.3 0.4 0.4 0.4 0.0 0.1

14

8 2 8 9 6 5 5 1 3 2 8 5 3 8

13. 19. 22. 21. 25. 23. 20. 16. 13.

15 NA NA NA NA NA 80 54 46 61 44 31 79 25 46

0.8 0.9 1.2 1.0 1.1 1.1 1.1 1.0 0.8

16 NA NA NA NA NA 6 2 6 5 7 2 9 1 3

19. 26. 22. 25. 27. 25. 21. 19. 19.

17 NA NA NA NA NA 65 79 03 53 80 91 67 98 81

41. 53. 48. 53. 58. 54. 46. 42. 40.

18 NA NA NA NA NA

46 77 92 08 95 29 10 25 93

6.6 5.6 6.2 6.6 5.8 5.6 6.4 5.4 5.4 5.2 6.0 6.2 5.0 5.0

19

0 0 0 0 0 0 0 0 0 0 0 0 0 0 Cor.

L- L- L- L- L- ID/ L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

10 11 12 13 14 Line

18. 13. 22. 11. 20. 18. 11. 23. 19. 12. 18.

20 NA NA NA

00 00 50 50 75 50 00 75 00 50 75

0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0

21 NA NA

5 3 4 6 4 5 0 5 4 6 7 4

0.4 0.3 0.2 0.4 0.2 0.4 0.4 0.2 0.4 0.5 0.5

22 NA NA NA

8 1 4 3 6 5 7 3 0 4 4

4.0 4.4 4.5 4.9 4.2 4.5 4.2 4.5 4.9 4.6 3.9

23 NA NA NA 0 3 0 4 7 6 1 7 4 9 4

60. 69. 85. 61. 83. 65. 105 68. 74. 68. 58. 57. 106 77.

24

22 88 25 78 00 78 .00 75 29 75 89 11 .25 00

69. 73. 85. 69. 86. 71. 105 71. 78. 72. 67. 68. 105

25 NA

11 00 25 56 38 25 .00 88 00 38 33 67 .00

2.5 2.4 4.2 3.5 4.7 3.3 3.2 4.7 3.5 3.0 1.8

26 NA NA NA 0 9 6 9 0 3 8 8 1 4 1

27. 30. 21. 30. 26. 34. 29. 25. 27. 28. 21.

27 NA NA NA

28 39 21 71 15 07 78 44 41 13 53

2.6 2.7 3.5 3.3 3.2 3.0 3.0 3.2 3.5 3.0 1.9

28 NA NA NA

1 2 3 1 2 7 6 5 1 2 2

45. 63. 69. 62. 68. 79. 61. 62. 59. 55. 44.

29 NA NA NA

59 41 33 91 03 43 86 33 18 23 72

76. 82. 76. 67. 73. 70. 80. 74.

30 NA NA NA NA NA NA

29 03 11 30 33 94 72 88

31. 16. 28. 34. 37. 26. 31. 23. 36. 38. 37. 33. 22. 34.

31

10 20 10 06 84 88 98 42 02 88 20 00 38 60

0.8 0.0 0.2 1.0 0.3 0.5 0.6 0.1 0.1 0.5 1.0 0.5 0.2 0.2

32

9 7 0 1 6 0 3 1 6 2 4 4 7 5

37. 28. 38. 46. 38. 35. 45. 46. 35.

33 NA NA NA NA NA

33 34 71 47 62 80 58 95 32

38. 31. 43. 40. 45. 44. 38. 36. 46. 42. 34.

34 NA NA NA

75 09 30 29 54 93 98 10 43 89 15

35. 37. 46. 35.

35 NA NA NA NA NA NA NA NA NA NA 97 21 27 81

11. 6.0 8.0 11. 7.8 7.8 10. 6.0 6.2 8.2 10. 7.6 6.6 7.8

36

20 0 0 00 0 0 20 0 0 0 80 0 0 0

0.6 0.2 0.4 0.5 0.4 0.3 0.5 0.3 0.4 0.4 0.5 0.4 0.3 0.3

37

4 5 6 6 3 7 8 4 5 6 2 3 3 9

0.7 3.4 2.3 0.5 1.1 0.7 0.9 3.1 2.7 0.8 0.5 0.7 1.2 1.5

38

2 7 0 5 8 4 2 2 6 9 0 8 4 3

9.5 6.2 8.4 11. 7.0 6.5 8.9 9.8 9.4 10. 12. 9.5 7.3 8.1

39

2 7 2 73 3 1 6 8 3 33 38 3 3 4

22. 15. 22. 20. 26. 20. 30. 20. 20. 21. 22. 18. 22. 27.

40

34 81 47 86 69 43 39 81 89 34 76 72 74 02

8.4 6.5 9.5 8.1 10. 8.5 13. 8.1 8.2 8.5 9.1 7.4 9.6 11.

41

8 1 4 4 29 1 41 1 5 7 3 6 9 24

1.3 1.1 1.1 1.6 0.8 1.0 0.8 1.5 1.4 1.5 1.6 1.5 1.0 0.9

42

9 8 2 8 3 2 9 0 3 5 4 2 3 2

16. 17. 19. 16. 17. 16. 17. 18. 19. 16.

43 NA NA NA NA 24 22 40 93 42 22 25 84 56 93 Cor.

L- L- L- L- L- ID/ L-l L-2 L-3 L-4 L·5 L-6 L-7 L-8 L-9

10 11 12 13 14 Line

19. 32. 46. 41. 34. 27. 1.1 25.

44 10. 2.3 NA 25. NA NA 58 58 10 28 26 41 8 60

00 1 88

6.0 4.7 7.7 3.2 13. 9.7 4.2 6.7 6.7 4.2 6.2

45 NA NA NA 0 5 5 5 13 5 5 5 5 5 5

4.0 5.8 7.0 4.2 11. 6.8 2.8 5.3 5.8 4.5 3.1 3.4 1.8 2.8

46

0 9 0 4 25 6 0 2 1 7 9 3 0 0

2.6 1.8 3.4 2.0 3.4 2.4 2.8 2.2 1.6 1.8 1.6 2.0 1.8 2.8

47

0 0 0 0 0 0 0 0 0 0 0 0 0 0

75. 62. 109 94. 128 112 72. 100 100 116 115 63. 71. 109

48

26 94 .09 88 .46 .16 40 .76 .02 .56 .89 75 40 .78

227 111 176 549 431 231 188 186 269

49 NA NA NA NA NA .54 .47 .24 .02 .85 .67 .34 .23 .35

23. 28. 57. 30. 70. 52. 61. 39. 47. 44. 37. 20. 63. 102

50

35 68 53 57 98 25 70 99 89 82 47 86 48 .17

6.4 8.4 6.3 6.5 1.2 8.5 7.4 7.4 6.1 5.3

51 NA NA NA NA 6 5 3 6 0 7 7 1 7 0

0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0

52 NA NA NA 4 2 1 3 1 3 3 1 3 5 4

15. 15. 15. 14. 16. 17. 16. 15. 13. 13. 15.

53 NA NA NA 12 79 61 94 13 49 67 14 42 60 44

1.4 1.7 2.0 2.6 2.1 2.5 2.1 2.1 2.6 2.0 0.6

54 NA NA NA

6 6 8 4 3 1 9 1 5 2 2

239 162 159 227

146 201 956 367 404 133 154

55 1.3 6.1 NA 6.1 2.9 NA NA .26 .95 .25 .62 .96 .54 .31

7 6 5 8

0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0

56 NA NA

3 0 1 3 1 2 2 0 0 1 3 2

19. 23. 20.

57 50. 10. 16. 42. NA 16. 47. 33. 82. NA NA

42 31 05

00 71 67 19 08 66 21 29

0.3 0.2 0.2 0.2 0.2 0.3 0.3 0.2 0.3 0.3 0.3

58 NA NA NA 0 5 6 6 7 4 1 1 3 8 5

120 76. 102 155 122 149 0.0 154 109 141 164 97.

59 NA NA .32 17 .85 .55 .14 .13 0 .79 .19 .44 .82 18

129 172 322 203 347 183 0.0 173 368 209 139 83.

60 NA NA .59 .80 .79 .44 .42 .50 0 .47 .56 .50 .48 97

Table 69. Provided are the va ues o: ^" each of the parameters (as describee in Ta ble 67 above) measured in wheat accessions (line; "L") under normal growth conditions. Growth conditions are specified in the experimental procedure section. "NA" = not available. "Cor." - correlation. Table 70

Measured parameters of correlation IDs in wheat accessions under low N conditions

Cor

L- L- L- L- L-

ID/ L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

10 11 12 13 14 Lin

e

14. 25. 14. 31. 16. 17. 18. 15. 9.5 24. 25. 13. 21. 15.

1

16 17 38 87 45 73 58 41 2 18 37 45 45 71

3.1 2.0 3.0 5.5 1.3 3.3 0.8 2.9 3.2 5.2 5.0 2.9 1.1 0.8

2

3 1 0 5 2 1 3 6 1 2 1 8 4 4

0.2 0.3 0.3 0.5 0.2 0.3 0.3 0.3 0.7 0.5 0.2

3 NA NA NA 9 3 0 0 3 2 7 4 0 8 7

1.3 0.9 1.7 2.6 1.1 1.4 0.7 1.4 1.5 2.6 2.5 1.2 1.0 0.7

4

6 9 6 6 2 5 9 6 2 0 0 6 9 1

0.9 0.9 0.7 1.0 0.6 0.8 0.8 0.8 0.5 0.8 0.7

5 NA NA NA

2 3 4 1 8 9 1 1 4 9 6

71. 67. 90. 86. 85. 86. 90. 78. 79. 80. 80. 75. 83. 81.

6

78 63 51 83 63 29 18 66 08 66 58 68 34 51

0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1 0.1

7

8 6 4 7 5 8 2 9 6 7 7 6 3 2

27. 31. 27. 33. 22. 33. 31. 31. 31. 30. 27.

8 NA NA NA 54 57 11 14 43 75 43 93 14 37 98

78. 67. 95. 71. 81. 70. 23. 57. 74. 83. 81. 73. 67. 24.

9

65 44 73 48 53 10 67 70 75 60 60 13 66 52

25. 20. 39. 43. 21. 24. 8.3 19. 24. 46. 40. 22. 22. 7.7

10

30 12 44 83 07 53 8 91 84 51 93 11 96 8

2.6 1.7 2.9 3.5 1.9 2.4 0.6 1.8 2.2 3.5 3.6 2.2 2.0 0.6

11

9 3 4 7 3 5 9 5 9 8 2 6 2 3

3.4 2.5 2.9 3.2 2.5 2.9 1.2 2.7 2.6 3.2 3.4 2.7 1.5 0.9

12

3 0 8 9 4 3 6 7 3 7 1 5 0 2

1.0 0.7 1.2 2.0 0.6 0.9 0.4 0.9 0.8 1.8 1.6 0.8 0.5 0.2

13

6 5 2 2 4 7 0 3 8 2 7 3 1 0

0.5 0.4 0.3 0.5 0.2 0.3 0.0 0.3 0.3 0.4 0.4 0.4 0.1 0.1

14

1 1 8 0 7 8 9 9 3 2 6 5 7 4

15. 20. 11. 15. 13. 18. 14. 16. 12.

15 NA NA NA NA NA

28 23 13 37 37 07 65 78 92

0.9 1.0 0.8 0.9 0.8 0.9 0.9 0.9 0.9

16 NA NA NA NA NA 4 1 0 0 1 8 4 3 2

20. 24. 16. 21. 19. 22. 19. 22. 18.

17 NA NA NA NA NA 01 79 84 17 79 14 60 26 02

43. 53. 35. 43. 41. 46. 45. 46. 38.

18 NA NA NA NA NA 99 54 89 81 85 51 20 58 43

6.4 6.4 6.8 6.0 6.0 6.2 5.0 5.6 5.4 6.0 6.0 6.0 5.8 5.4

19

0 0 0 0 0 0 0 0 0 0 0 0 0 0

6.2

20 NA NA NA NA NA NA NA NA NA NA NA NA NA

5

0.1 0.1 0.1 0.1 0.1 0.1 0.0 0.1 0.1 0.1 0.1 0.1

21 NA NA 4 0 2 3 0 2 5 1 1 3 4 1

0.5 0.4 0.4 0.6 0.2 0.5 0.5 0.4 0.4 0.6 0.5

22 NA NA NA 4 9 2 6 8 6 6 7 5 6 1 Cor

L- L- L- L- L-

ID/ L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

10 11 12 13 14 Lin

e

4.1 4.0 4.4 4.7 3.9 3.8 3.3 4.2 3.5 4.5 4.5

23 NA NA NA

3 8 4 5 4 1 1 5 3 6 6

57. 67. 76. 61. 80. 65. 109 65. 70. 66. 58. 53. 103 109

24

56 11 22 33 63 11 .00 56 00 44 44 11 .56 .00

68. 73. 77. 68. 82. 71. 105 71. 72. 73. 67. 68. 101 105

25

89 00 89 00 57 25 .00 00 57 00 78 44 .13 .00

5.0 3.9 6.2 6.0 7.6 5.9 0.0 6.2 6.0 8.4 7.4 5.4

26 NA NA

3 2 2 7 1 9 0 4 0 0 9 4

25. 39. 44. 32. 20. 43. 42. 37. 32. 27. 24.

27 NA NA NA

91 58 70 31 79 84 72 81 50 66 56

2.4 2.8 3.5 3.5 2.8 3.4 3.1 3.2 3.6 3.5 2.4

28 NA NA NA 5 5 4 9 8 2 6 3 9 1 4

47. 81. 85. 61. 62. 94. 74. 80. 64. 61. 54.

29 NA NA NA

48 12 36 31 29 38 44 19 56 81 06

78. 75. 84. 84. 82. 72. 53. 84. 79. 86.

30 NA NA NA NA

08 04 41 12 70 54 64 04 53 25

34. 33. 33. 32. 38. 41. 36. 32. 32. 37. 36. 27. 32. 33.

31

60 36 10 00 60 90 90 16 90 30 44 40 20 00

0.7 0.6 0.2 1.1 0.4 0.6 0.6 0.6 0.7 1.5 1.0 0.7 0.4 0.6

32

8 3 8 0 8 8 1 5 5 1 5 2 0 0

41. 26. 38. 38. 32. 31. 41. 45. 35.

33 NA NA NA NA NA

11 03 94 05 06 48 45 34 17

40. 32. 38. 42. 37. 42. 38. 36. 45. 34.

34 NA NA NA NA

38 17 19 45 49 30 79 31 14 60

33. 32. 37. 29.

35 NA NA NA NA NA NA NA NA NA NA 10 57 87 01

11. 8.0 10. 9.6 7.0 8.8 8.2 9.2 8.8 11. 10. 10. 7.0 7.4

36

20 0 00 0 0 0 0 0 0 40 40 80 0 0

0.4 0.4 0.6 0.5 0.3 0.5 0.4 0.6 0.5 0.6 0.6 0.6 0.4 0.4

37

5 8 4 1 9 5 8 6 9 1 0 3 3 3

0.5 0.7 2.2 0.4 0.8 0.8 0.7 1.0 0.8 0.4 0.5 0.8 1.0 0.7

38

8 7 4 7 1 1 9 1 0 0 7 7 6 2

8.0 5.9 7.3 11. 8.2 7.3 9.7 8.2 7.7 10. 10. 7.2 7.2 9.7

39

5 0 1 08 9 8 3 1 7 74 17 6 7 2

18. 15. 19. 19. 23. 20. 32. 18. 18. 20. 18. 16. 21. 30.

40

48 54 57 84 88 11 44 68 65 31 97 29 77 30

7.3 6.3 8.1 7.8 10. 8.7 14. 7.0 6.9 8.0 7.4 6.4 9.0 13.

41

2 1 7 7 05 0 36 0 9 8 4 3 1 43

1.2 1.1 1.1 1.5 1.0 1.0 0.9 1.4 1.4 1.5 1.5 1.3 1.1 1.0

42

9 0 3 1 3 7 2 0 0 1 7 3 2 5

16. 16. 17. 16. 17. 16. 20. 15. 17. 18. 18. 17. 18. 18.

43

20 29 49 44 97 49 62 16 20 53 00 13 38 97

17. 36. 46. 33. 51. 53. 35. 52. 44. 31. 16.

44 NA NA NA

33 36 11 00 94 20 00 00 62 67 88

3.7 5.5 4.5 2.5 7.7 6.2 4.5 6.2 3.2 3.0 4.0

45 NA NA NA

5 0 0 0 5 5 0 5 5 0 0 Cor

L- L- L- L- L-

ID/ L-l L-2 L-3 L-4 L-5 L-6 L-7 L-8 L-9

10 11 12 13 14 Lin

e

4.1 4.2 4.2 3.0 6.0 5.2 2.4 4.7 3.9 3.6 3.1 4.1 3.2 2.4

46

4 2 9 0 5 9 0 6 0 5 9 0 0 0

1.8 2.6 4.2 1.6 3.2 2.8 2.4 3.2 2.4 2.8 2.0 2.0 3.2 2.4

47

0 0 0 0 0 0 0 0 0 0 0 0 0 0

52. 46. 67. 52. 92. 58. 89. 55. 64. 62. 56. 51. 84. 91.

48

66 55 18 36 33 79 95 21 50 16 55 08 82 80

201 190 182 148 100 237 109 273 230

49 NA NA NA NA NA .42 .89 .97 .36 .45 .33 .86 .83 .90

19. 19. 40. 17. 59. 28. 74. 22. 28. 24. 19. 19. 63. 75.

50

12 55 05 70 04 30 95 35 23 71 81 47 20 93

5.7 7.7 6.6 6.1 9.3 7.4 5.6 5.4 4.7

51 NA NA NA NA NA 7 0 4 7 1 9 3 6 5

0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0

52 NA NA NA

6 5 3 6 2 4 4 3 3 5 4

8.6 9.9 9.8 9.5 7.0 9.8 9.4 9.6 9.0 10. 10.

53 NA NA NA

0 6 1 8 9 0 6 9 2 20 94

1.2 2.5 4.3 3.2 1.3 4.0 0.0 3.3 3.0 3.4 2.6 1.1

54 NA NA

2 2 9 6 6 2 0 4 9 6 8 4

161 155 547 138 399 219 238 201 139 178 188

55 NA NA NA

.96 .87 .22 .06 .44 .78 .94 .24 .26 .14 .90

0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0 0.0

56 NA NA NA

2 2 1 3 1 2 2 2 4 3 3

9.4 16. 5.5 10. 5.9 2.3

57 o 30. 5.0 28. 18. NA 60. NA NA o 67 0 96 7 a j

26 0 15 24 06

0.4 0.4 0.4 0.3 0.4 0.3 0.3 0.4 0.3 0.3 0.3

58 NA NA NA

2 7 3 4 8 9 5 3 0 0 8

68. 48. 64. 99. 53. 83. 87. 69. 95. 123 68.

59 NA NA NA

42 01 65 72 69 57 82 89 05 .62 89

57. 50. 90. 52. 136 66. 68. 80. 114 63. 67.

60 NA NA NA

37 04 78 09 .69 27 21 06 .89 65 08

Table 70. Provided are the values of each of the parameters (as described in Table 67 above) measured in Barley accessions (lines; "L") under low N growth conditions. Growth conditions are specified in the experimental procedure section. "NA" = not available. "Cor." - correlation.

Table 71

Additional measured parameters of correlation IDs in wheat accessions under low N vs. normal conditions

Table 71. Provided are the va ues o: ^" each of the parameters (as describee in Ta ble 68 above) measured in wheat accessions (lines; "L") under low N vs. normal growth conditions. Growth conditions are specified in the experimental procedure section. "NA" = not available. "Cor." - correlation.

Table 72

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under low nitrogen fertilization conditions across wheat accessions

Table 72. "Cor. ID " - correlation set ID according to the correlated parameters in Table 67 above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value. Table 73

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under normal fertilization conditions across wheat accessions

Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

0.80 3.04E- WNU10 4.64E-

WNU102 3 24 0.715 3 8

1 03 2 02

0.70 3.43E- WNU10 8.87E-

WNU102 3 18 0.742 3 25

4 02 2 03

0.78 1.29E- WNU10 2.09E-

WNU102 3 17 0.845 9 43

2 02 2 03

0.91 1.11E- WNU10 9.87E-

WNU102 5 24 0.731 5 46

3 02 2 02

0.89 1.48E- WNU10 5.52E-

WNU102 5 25 0.802 5 51

9 02 2 02

0.71 2.96E- WNU10 1.70E-

WNU102 6 43 0.728 2 47

7 02 3 02

0.79 3.23E- WNU10 2.27E-

WNU103 7 30 0.705 7 47

6 02 3 02

0.76 9.52E- WNU10 1.55E-

WNU103 7 40 0.735 7 41

8 03 3 02

0.73 9.33E- WNU10 1.28E-

WNU103 3 1 0.718 3 32

9 03 3 02

0.78 4.46E- WNU10 4.76E-

WNU103 3 14 0.871 3 3

2 03 3 04

0.86 5.70E- WNU10 8.31E-

WNU103 3 52 0.747 3 22

6 04 3 03

0.78 4.26E- WNU10 1.44E-

WNU103 3 5 0.710 3 58

4 03 3 02

0.73 1.58E- WNU10 1.54E-

WNU103 1 14 0.735 1 39

3 02 3 02

0.75 1.20E- WNU10 1.35E-

WNU103 1 2 0.778 1 11

2 02 3 02

0.78 7.24E- WNU10 2.22E-

WNU103 1 13 0.707 1 4

4 03 3 02

0.78 7.41E- WNU10 5.77E-

WNU103 4 24 0.797 4 25

3 03 3 03

0.75 1.20E- WNU10 6.50E-

WNU103 9 19 0.784 5 1

3 02 3 02

0.79 5.81E- WNU10 5.80E-

WNU103 5 32 0.796 5 6

6 02 3 02

0.82 4.57E- WNU10 1.17E-

WNU103 5 56 0.705 5 2

0 02 3 01

0.78 6.18E- WNU10 9.45E-

WNU103 5 36 0.737 5 11

9 02 3 02

0.76 7.63E- WNU10 1.04E-

WNU103 5 13 0.723 5 19

5 02 3 01

0.70 1.19E- WNU10 8.64E-

WNU103 5 10 0.744 8 1

3 01 3 03 Gene Exp. Cor. Gene Exp. Cor.

R P value R P value

Name set Set ID Name set Set ID

0.73 1.07E- WNU10 5.73E-

WNU103 8 32 0.768 8 14

0 02 3 03

0.79 3.21E- WNU10 1.60E-

WNU103 8 56 0.702 8 3

8 03 3 02

0.78 4.53E- WNU10 9.09E-

WNU103 8 52 0.850 8 22

1 03 3 04

0.71 1.30E-

WNU103 8 5

7 02

Table 73. "Cor. ID" - correlation set ID according to the correlated parameters Table 67 above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value.

Table 74

Correlation between the expression level of selected genes of some embodiments of the invention in various tissues and the phenotypic performance under low N vs. normal fertilization conditions across wheat accessions

Table 74. "Cor. ID " - correlation set ID according to the correlated parameters Table 67 above. "Exp. Set" - Expression set. "R" = Pearson correlation coefficient; "P" = p value. EXAMPLE 14

GENE CLONING AND GENERATION OF BINARY VECTORS FOR PLANT

EXPRESSION

To validate their role in improving yield, selected genes were over-expressed in plants, as follows.

Cloning strategy

Selected genes from those presented in Examples 1-13 hereinabove were cloned into binary vectors for the generation of transgenic plants. For cloning, the full-length open reading frames (ORFs) were identified. EST clusters and in some cases mRNA sequences were analyzed to identify the entire open reading frame by comparing the results of several translation algorithms to known proteins from other plant species.

In order to clone the full-length cDNAs, reverse transcription (RT) followed by polymerase chain reaction (PCR; RT-PCR) was performed on total RNA extracted from leaves, roots or other plant tissues, growing under normal/limiting or stress conditions. Total RNA extraction, production of cDNA and PCR amplification was performed using standard protocols described elsewhere (Sambrook J., E.F. Fritsch, and T. Maniatis. 1989. Molecular Cloning. A Laboratory Manual, 2nd Ed. Cold Spring Harbor Laboratory Press, New York.) which are well known to those skilled in the art. PCR products were purified using PCR purification kit (Qiagen).

Usually, 2 sets of primers were prepared for the amplification of each gene, via nested PCR (if required). Both sets of primers were used for amplification on a cDNA. In case no product was obtained, a nested PCR reaction was performed. Nested PCR was performed by amplification of the gene using external primers and then using the produced PCR product as a template for a second PCR reaction, where the internal set of primers were used. Alternatively, one or two of the internal primers were used for gene amplification, both in the first and the second PCR reactions (meaning only 2-3 primers are designed for a gene). To facilitate further cloning of the cDNAs, an 8-12 base pairs (bp) extension was added to the 5' of each internal primer. The primer extension includes an endonuclease restriction site. The restriction sites were selected using two parameters: (a) the restriction site does not exist in the cDNA sequence; and (b) the restriction sites in the forward and reverse primers were designed such that the digested cDNA was inserted in the sense direction into the binary vector utilized for transformation.

PCR products were digested with the restriction endonucleases (New England BioLabs Inc) according to the sites designed in the primers. Each digested/ undigested PCR product was inserted into a high copy vector pUC19 (New England BioLabs Inc], or into plasmids originating from this vector. In some cases the undigested PCR product was inserted into pCR-Blunt II-TOPO (Invitrogen) or into pJET1.2 (CloneJET PCR Cloning Kit, Thermo Scientific) or directly into the binary vector. The digested/ undigested products and the linearized plasmid vector were ligated using T4 DNA ligase enzyme (Roche, Switzerland or other manufacturers). In cases where pCR-Blunt II- TOPO is used no T4 ligase is needed.

Sequencing of the inserted genes was performed, using the ABI 377 sequencer (Applied Biosystems). In some cases, after confirming the sequences of the cloned genes, the cloned cDNA was introduced into a modified pGI binary vector containing the At6669 promoter (e.g., pQFNc) and the NOS terminator (SEQ ID NO: 6929) via digestion with appropriate restriction endonucleases.

In case of Brachypodium transformation, after confirming the sequences of the cloned genes, the cloned cDNAs were introduced into pEBbVNi (Figure 9A) containing 35S promoter (SEQ ID NO: 6930) and the NOS terminator (SEQ ID NO:6929) via digestion with appropriate restriction endonucleases. The genes were cloned downstream to the 35S promoter and upstream to the NOS terminator.

Several DNA sequences of the selected genes were synthesized by GeneArt (Life Technologies, Grand Island, NY, USA). Synthetic DNA was designed in silico. Suitable restriction enzymes sites were added to the cloned sequences at the 5' end and at the 3' end to enable later cloning into the desired binary vector.

Binary vectors - The pPI plasmid vector was constructed by inserting a synthetic poly-(A) signal sequence, originating from pGL3 basic plasmid vector (Promega, GenBank Accession No. U47295; nucleotides 4658-4811) into the HindlU restriction site of the binary vector pBI101.3 (Clontech, GenBank Accession No. U12640). pGI is similar to pPI, but the original gene in the backbone is GUS-Intron and not GUS.

The modified pGI vector (e.g., pQFN, pQFNc, pQYN_6669, pQNa_RP, pQFYN or pQXNc) is a modified version of the pGI vector in which the cassette is inverted between the left and right borders so the gene and its corresponding promoter are close to the right border and the NPTII gene is close to the left border.

At6669, the new Arabidopsis thaliana promoter sequence (SEQ ID NO:6918) was inserted in the modified pGI binary vector, upstream to the cloned genes, followed by DNA ligation and binary plasmid extraction from positive E. coli colonies, as described above. Colonies were analyzed by PCR using the primers covering the insert which were designed to span the introduced promoter and gene. Positive plasmids were identified, isolated and sequenced.

pEBbVNi (Figure 9A) is a modified version of pJJ2LB in which the Hygromycin resistance gene was replaced with the BAR gene which confers resistance to the BASTA herbicide [BAR gene coding sequence is provided in GenBank Accession No. JQ293091.1 (SEQ ID NO:7121); further description is provided in Akama K, et al. "Efficient Agrobacterium-mediated transformation of Arabidopsis thaliana using the bar gene as selectable marker" , Plant Cell Rep. 1995, 14(7):450-4; Christiansen P, et al. "A rapid and efficient transformation protocol for the grass Brachypodium distachyon ", Plant Cell Rep. 2005 Mar;23(10-l l):751-8. Epub 2004 Oct 19; and Pacurar DI, et al. "A high-throughput Agrobacterium-mediated transformation system for the grass model species Brachypodium distachyon L", Transgenic Res. 2008 17(5):965-75; each of which is fully incorporated herein by reference in its entirety]. The pEBbVNi construct contains the 35S promoter (SEQ ID NO:6930). pJJ2LB is a modified version of pCambia0305.2 (Cambia).

In case genomic DNA was cloned, the genes were amplified by direct PCR on genomic DNA extracted from leaf tissue using the DNAeasy kit (Qiagen Cat. No. 69104).

Selected genes cloned by the present inventors are provided in Table 75 below.

Table 75

Genes cloned in High copy number plasmids or in binary vectors and the primers used for cloning of the genes

Table 75. "Polyn." - Polynucleotide; "Polyp." - polypeptide. For cloning of each gene at least 2 primers were used: Forward (Fwd) or Reverse (Rev). In some cases, 4 primers were used: External forward (EF), External reverse (ER), nested forward (NF) or nested reverse (NR). The sequences of the primers used for cloning the genes are provided in the sequence listing. Some genes were synthetically produced by GeneArt (marked as "GA").

EXAMPLE 15

TRANSFORMING AGROBACTERIUM TUMEFACIENS CELLS WITH BINARY VECTORS HARBORING PUTATIVE GENES

The above described binary vectors were used to transform Agrobacterium cells. Two additional binary constructs, having only the At6669 or the 35S promoter, or no additional promoter were used as negative controls.

The binary vectors were introduced to Agrobacterium tumefaciens GV301 or LB4404 (for Arabidopsis) or AGL1 (for Brachypodium) competent cells (about 10 ⁹ cells/mL) by electroporation. The electroporation was performed using a MicroPulser electroporator (Biorad), 0.2 cm cuvettes (Biorad) and EC-2 electroporation program (Biorad). The treated cells were cultured in LB liquid medium at 28 °C for 3 hours, then plated over LB agar supplemented with gentamycin (for Arabidopsis; 50 mg/L; for Agrobacterium strains GV301) or streptomycin (for Arabidopsis; 300 mg/L; for Agrobacterium strain LB4404); or with Carbenicillin (for Brachypodium; 50 mg/L) and kanamycin (for Arabidopsis and Brachypodium; 50 mg/L) at 28 °C for 48 hours. Abrobacterium colonies, which were developed on the selective media, were further analyzed by PCR using the primers designed to span the inserted sequence in the pPI plasmid. The resulting PCR products were isolated and sequenced to verify that the correct polynucleotide sequences of the invention are properly introduced to the Agrobacterium cells.

EXAMPLE 16

TRANSFORMATION OF ARABIDOPSIS THALIANA PLANTS WITH THE POLYNUCLEOTIDES OF THE INVENTION

Arabidopsis thaliana Columbia plants (To plants) were transformed using the Floral Dip procedure described by Clough and Bent, 1998 (Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. Plant J 16:735-43) and by Desfeux et al., 2000 (Female Reproductive Tissues Are the Primary Target of Agrobacterium-Mediated Transformation by the Arabidopsis Floral-Dip Method. Plant Physiol, July 2000, Vol. 123, pp. 895-904), with minor modifications. Briefly, To Plants were sown in 250 ml pots filled with wet peat-based growth mix. The pots were covered with aluminum foil and a plastic dome, kept at 4 °C for 3-4 days, then uncovered and incubated in a growth chamber at 18-24 °C under 16/8 hour light/dark cycles. The To plants were ready for transformation six days before anthesis.

Single colonies of Agrobacterium carrying the binary constructs, were generated as described in Examples 14-15 above. Colonies were cultured in LB medium supplemented with kanamycin (50 mg/L) and gentamycin (50 mg/L). The cultures were incubated at 28 °C for 48 hours under vigorous shaking and then centrifuged at 4000 rpm for 5 minutes. The pellets comprising the Agrobacterium cells were re-suspended in a transformation medium containing half-strength (2.15 g/L) Murashige-Skoog (Duchefa); 0.044 μΜ benzylamino purine (Sigma); 112 μg/L B5 Gambourg vitamins (Sigma); 5 % sucrose; and 0.2 ml/L Silwet L-77 (OSI Specialists, CT) in double- distilled water, at pH of 5.7.

Transformation of To plants was performed by inverting each plant into an Agrobacterium suspension, such that the above ground plant tissue is submerged for 3-5 seconds. Each inoculated To plant was immediately placed in a plastic tray, then covered with clear plastic dome to maintain humidity and was kept in the dark at room temperature for 18 hours, to facilitate infection and transformation. Transformed (transgenic) plants were then uncovered and transferred to a greenhouse for recovery and maturation. The transgenic To plants were grown in the greenhouse for 3-5 weeks until siliques were brown and dry. Seeds were harvested from plants and kept at room temperature until sowing.

For generating Ti and T ₂ transgenic plants harboring the genes, seeds collected from transgenic To plants were surface-sterilized by soaking in 70 % ethanol for 1 minute, followed by soaking in 5 % sodium hypochloride and 0.05 % triton for 5 minutes. The surface- sterilized seeds were thoroughly washed in sterile distilled water then placed on culture plates containing half-strength Murashige-Skoog (Duchefa); 2 % sucrose; 0.8 % plant agar; 50 mM kanamycin; and 200 mM carbenicylin (Duchefa). The culture plates were incubated at 4 °C for 48 hours, then transferred to a growth room at 25 °C for an additional week of incubation. Vital Ti Arabidopsis plants were transferred to fresh culture plates for another week of incubation. Following incubation the Ti plants were removed from culture plates and planted in growth mix contained in 250 ml pots. The transgenic plants were allowed to grow in a greenhouse to maturity. Seeds harvested from Ti plants were cultured and grown to maturity as T ₂ plants under the same conditions as used for culturing and growing the Ti plants.

EXAMPLE 17

TRANSFORMATION OF BRACHYPODIUM DISTACHYON PLANTS WITH THE

POLYNUCLEOTIDES OF THE INVENTION

Similar to the Arabidopsis model plant, Brachypodium distachyon has several features that recommend it as a model plant for functional genomic studies, especially in the grasses. Traits that make it an ideal model include its small genome (-160 Mbp for a diploid genome and 355 Mbp for a polyploidy genome), small physical stature, a short lifecycle, and few growth requirements. Brachypodium is related to the major cereal grain species but is understood to be more closely related to the Triticeae (wheat, barley) than to the other cereals. Brachypodium, with its polyploidy accessions, can serve as an ideal model for these grains (whose genomics size and complexity is a major barrier to bio technological improvement).

Brachypodium distachyon embryogenic calli were transformed using the procedure described by Vogel and Hill (2008) [High-efficiency Agrobacterium-mediated transformation of Brachypodium distachyon inbred line Bd21-3. Plant Cell Rep 27:471- 478], Vain et al (2008) [Agrobacterium-mediated transformation of the temperate grass Brachypodium distachyon (genotypeBd21) for T-DNA insertional mutagenesis. Plant Biotechnology J 6: 236-245], and Vogel J, et al. (2006) [Agrobacterium mediated transformation and inbred line development in the model grass Brachypodium distachyon. Plant Cell Tiss Org. Cult. 85: 199-211], each of which is fully incorporated herein by reference, with some minor modifications, which are briefly summarized hereinbelow.

Callus initiation - Immature spikes (about 2 months after seeding) were harvested at the very beginning of seeds filling. Spikes were then husked and surface sterilized with 3% NaCIO containing 0.1% Tween 20, shaked on a gyratory shaker at low speed for 20 minutes. Following three rinses with sterile distilled water, embryos were excised under a dissecting microscope in a laminar flow hood using fine forceps.

Excised embryos (size -0.3 mm, bell shaped) were placed on callus induction medium (CEVI) [LS salts (Linsmaier, E. M. & Skoog, F. 1965. Physiol. Plantarum 18, 100) and vitamins plus 3% sucrose, 6 mg/L CuS0 ₄ , 2.5 mg/1 2,4-Dichlorophenoxyacetic Acid, pH 5.8 and 0.25% phytagel (Sigma)] scutellar side down, 100 embryos on a plate, and incubated at 28°C in the dark. One week later, the embryonic calli was cleaned from emerging roots, shoots and somatic calli, and was subcultured onto fresh CIM medium. During culture, yellowish embryogenic callus (EC) appeared and were further selected (e.g., picked and transferred) for further incubation in the same conditions for additional 2 weeks. Twenty-five pieces of sub-cultured calli were then separately placed on 90 X 15 mm petri plates, and incubated as before for three additional weeks.

Transformation - As described in Vogel and Hill (2008, Supra), Agrobacterium was scraped off 2-day-old MGL plates (plates with the MGL medium which contains: Tryptone 5g/l,Yeast Extract 2.5 g/1, NaCl 5 g/1, D-Mannitol 5 g/1, MgS0 ₄ *7H ₂ 0 0.204 g/1, K ₂ HP0 ₄ 0.25 g/1, Glutamic Acid 1.2 g/1, Plant Agar 7.5 g/1) and resuspended in liquid MS medium supplemented with 200 μΜ acetosyringone to an optic density (OD) at 600 nm (OD ₆ oo) of 0.6. Once the desired OD was attained, 1 ml of 10% Synperonic PE/F68 (Sigma) per 100 ml of inoculation medium was added.

To begin inoculation, 300 callus pieces were placed in approximately 12 plates (25 callus pieces in each plate) and covered with the Agrobacterium suspension (8-8.5 ml). The callus was incubated in the Agrobacterium suspension for 15 minutes with occasional gentle rocking. After incubation, the Agrobacterium suspension was aspirated off and the calli were then transferred into co-cultivation plates, prepared by placing a sterile 7-cm diameter filter paper in an empty 90 X 15 mm petri plate. The calli pieces were then gently distributed on the filter paper. One co-cultivation plate was used for two starting callus plates (50 initial calli pieces). The co-cultivation plates were then sealed with parafilm and incubated at 22°C in the dark for 3 days.

The callus pieces were then individually transferred onto CIM medium as described above, which was further supplemented with 200 mg/1 Ticarcillin (to kill the Agrobacterium) and Bialaphos (5 mg/L) (for selection of the transformed resistant embryogenic calli sections), and incubated at 28°C in the dark for 14 days.

The calli pieces were then transferred to shoot induction media (SIM; LS salts and vitamins plus 3% Maltose monohydrate) supplemented with 200 mg/1 Ticarcillin, Bialaphos (5 mg/L), Indol-3-acetic acid (IAA) (0.25 mg/L), and 6-Benzylaminopurine (BAP) (1 mg/L), and were sub-cultured in light to the same media after 10 days (total of 20 days). At each sub-culture all the pieces from a single callus were kept together to maintain their independence and were incubated under the following conditions: lighting to a level of 60 IE m-2 s-1, a 16-h light, 8-h dark photoperiod and a constant 24°C temperature. Plantlets emerged from the transformed calli.

When plantlets were large enough to handle without damage, they were transferred to plates containing the above mentioned shoot induction media (SIM) without Bialaphos. Each plantlet was considered as a different event. The plantlets grew axillary tillers and eventually became bushy. Each bush from the same plant (event ID) was then divided to tissue culture boxes ("Humus") containing "rooting medium" [MS basal salts, 3% sucrose, 3 g/L phytagel, 2 mg/1 a-Naphthalene Acetic Acid (NAA) and 1 mg/L IAA and Ticarcillin 200 mg/L, PH 5.8). All plants in a "Humus box" were different plants of the same transformation event.

When plantlets established roots they were transplanted to soil and transferred to a greenhouse. To verify the transgenic status of plants containing the other constructs, TO plants were subjected to PCR as previously described by Vogel et al. 2006 [Agrobacterium mediated transformation and inbred line development in the model grass Brachypodium distachyon. Plant Cell Tiss Org. Cult. 85: 199-211].

EXAMPLE 18

EVALUATING TRANSGENIC ARABIDOPSIS NUE UNDER LOW OR NORMAL NITROGEN CONDITIONS USING SEEDLING ASSAYS

Assay 1: plant growth under low and favorable nitrogen concentration levels

Surface sterilized seeds were sown in basal media [50 % Murashige-Skoog medium (MS) supplemented with 0.8 % plant agar as solidifying agent] in the presence of Kanamycin (used as a selecting agent). After sowing, plates were transferred for 2-3 days for stratification at 4 °C and then grown at 25 °C under 12-hour light 12-hour dark daily cycles for 7 to 10 days. At this time point, seedlings randomly chosen were carefully transferred to plates containing ½ MS media (15 mM N) for the normal nitrogen concentration treatment and 0.30 mM nitrogen for the low nitrogen concentration treatments. For experiments performed in T ₂ lines, each plate contained 5 seedlings of the same transgenic event, and 3-4 different plates (replicates) for each event. For each polynucleotide of the invention at least four-five independent transformation events were analyzed from each construct. For experiments performed in Ti lines, each plate contained 5 seedlings of 5 independent transgenic events and 3-4 different plates (replicates) were planted. In total, for Ti lines, 20 independent events were evaluated. Plants expressing the polynucleotides of the invention were compared to the average measurement of the control plants (empty vector or GUS reporter gene under the same promoter) used in the same experiment.

Digital imaging - A laboratory image acquisition system, which consists of a digital reflex camera (Canon EOS 300D) attached with a 55 mm focal length lens (Canon EF-S series), mounted on a reproduction device (Kaiser RS), which includes 4 light units (4 x 150 Watts light bulb) and located in a darkroom, was used for capturing images of plantlets sawn in agar plates.

The image capturing process was repeated every 3-4 days starting at day 1 till day 10 (see for example the images in Figures 3A-B). An image analysis system was used, which consists of a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.39 [Java based image processing program which is developed at the U.S. National Institutes of Health and freely available on the internet at rsbweb (dot) nih (dot) gov/]. Images were captured in resolution of 10 Mega Pixels (3888 x 2592 pixels) and stored in a low compression JPEG (Joint Photographic Experts Group standard) format. Next, analyzed data was saved to text files and processed using the JMP statistical analysis software (SAS institute).

Seedling analysis - Using the digital analysis seedling data was calculated, including leaf area, root coverage and root length.

The relative growth rate for the various seedling parameters was calculated according to Formulas XIII (Relative growth rate of leaf area), XII (Relative growth rate of leaf blade area) and VI (Relative growth rate of root length) as described above.

At the end of the experiment, plantlets were removed from the media and weighed for the determination of plant fresh weight. Plantlets were then dried for 24 hours at 60°C, and weighed again to measure plant dry weight for later statistical analysis. Growth rate was determined by comparing the leaf area coverage, root coverage and root length, between each couple of sequential photographs, and results were used to resolve the effect of the gene introduced on plant vigor under optimal conditions. Similarly, the effect of the gene introduced on biomass accumulation, under optimal conditions, was determined by comparing the plants' fresh and dry weight to that of control plants (containing an empty vector or the GUS reporter gene under the same promoter). From every construct created, 3-5 independent transformation events were examined in replicates.

Statistical analyses - To identify genes conferring significantly improved plant vigor or enlarged root architecture, the results obtained from the transgenic plants were compared to those obtained from control plants that were grown under identical growth conditions. To identify outperforming genes and constructs, results from the independent transformation events tested were analyzed separately. To evaluate the effect of a gene event over a control the data was analyzed by Student's t-test and the p value was calculated. Results were considered significant if p < 0.1. The JMP statistics software package was used (Version 5.2.1, SAS Institute Inc., Cary, NC, USA).

Experimental results:

The genes presented in the following Tables were cloned under the regulation of a constitutive promoter (At6669). Evaluation of the effect of transformation in a plant of each gene was carried out by testing the performance of different number of transformation events. Some of the genes were evaluated in more than one seedling assay. The results obtained in these second experiments were significantly positive as well. Event with p-value <0.1 was considered statistically significant.

The genes presented in Tables 76-78 showed a significant improvement in plant NUE since they produced larger plant biomass (plant fresh and dry weight; leaf area, root length and root coverage) in T2 generation (Tables 76-77) or Tl generation (Table 78) when grown under limiting nitrogen growth conditions, compared to control plants that were grown under identical growth conditions. Plants producing larger root biomass have better possibilities to absorb larger amount of nitrogen from soil.

Table 76

Genes showing improved plant performance at nitrogen deficient conditions (T2 generation)

Dry Weight [mg] Fresh Weight [mg]

Gene Name Event # % %

Ave. P-Val. Ave. P-Val.

Incr. Incr.

WNU9 76615.4 5.33 0.10 34 128.6 0.12 51

WNU41 79012.2 5.12 0.05 29 - - -

WNU41 79012.4 4.72 0.02 19 - - -

WNU41 79013.1 5.05 0.05 27 98.0 0.25 15 Dry Weight [mg] Fresh Weight [mg]

Gene Name Event # % %

Ave. P-Val. Ave. P-Val.

Incr. Incr.

WNU31 75790.2 - - - 115.7 0.24 36

WNU20 78340.5 - - - 131.1 0.07 54

CONT. - 3.97 - - 85.3 - -

WNU96 75816.4 6.25 L 80 95.7 L 40

WNU96 75818.9 4.07 0.21 17 85.4 0.29 25

WNU93 76607.13 - - - 83.4 0.20 22

WNU93 76607.9 4.80 0.02 38 86.7 0.15 27

WNU93 76609.3 5.03 0.04 45 106.9 0.06 57

WNU93 76609.4 3.98 0.26 15 89.3 0.19 31

WNU8 77116.2 4.05 0.05 17 - - -

WNU8 77117.9 3.98 0.23 15 - - -

WNU76 77092.1 4.73 0.13 36 86.0 0.07 26

WNU76 77092.3 4.07 0.25 17 - - -

WNU76 77095.2 4.72 0.03 36 94.8 0.08 39

WNU49 75796.8 4.35 0.13 25 92.2 0.22 35

WNU49 75797.3 3.98 0.22 15 81.4 0.25 19

WNU49 75799.6 - - - 81.5 0.29 20

WNU40 78091.1 4.55 0.02 31 88.2 0.22 29

WNU40 78092.5 4.30 0.22 24 117.1 0.22 72

WNU40 78095.5 4.63 L 34 - - -

WNU37 77766.2 4.47 0.21 29 102.5 0.15 50

WNU37 77767.1 4.10 0.06 18 109.2 0.07 60

WNU37 77767.3 5.58 0.02 61 105.6 0.01 55

WNU23 78341.3 4.25 0.16 22 83.0 0.17 22

WNU23 78341.7 4.00 0.18 15 - - -

WNU23 78343.1 4.43 0.06 28 102.6 0.05 50

WNU23 78344.2 4.12 0.18 19 88.9 0.12 30

WNU102 76549.12 4.72 L 36 95.5 0.21 40

WNU102 76550.4 5.10 L 47 107.5 0.03 58

WNU100 77989.3 4.58 0.09 32 94.5 0.02 39

WNU100 78026.6 4.05 0.18 17 - - -

WNU100 78029.3 4.17 0.03 20 - - -

CONT. - 3.47 - - 68.2 - -

WNU70 78102.7 4.00 0.07 33 68.0 0.04 39

WNU70 78104.1 4.37 0.21 46 67.1 0.29 37

WNU61 78014.1 3.70 0.15 23 - - -

WNU61 78014.2 4.25 0.20 42 66.4 0.10 36

WNU61 78015.10 3.47 0.20 16 56.2 0.21 15

WNU6 76542.5 6.58 0.02 119 108.0 0.05 121

WNU6 76544.1 4.25 0.02 42 66.1 0.05 35

WNU6 76544.4 6.27 0.15 109 - - -

WNU55 77632.3 5.93 0.04 98 63.2 0.05 29

WNU55 77632.6 5.40 0.02 80 67.5 0.03 38

WNU51 79018.6 3.60 0.14 20 - - -

WNU51 79019.2 - - - 58.5 0.11 20

WNU11 76397.2 4.00 0.25 33 61.8 0.19 27

WNU105 77261.2 4.37 0.05 46 - - -

WNU105 77261.4 3.52 0.21 18 56.1 0.24 15 Dry Weight [mg] Fresh Weight [mg]

Gene Name Event # % %

Ave. P-Val. Ave. P-Val.

Incr. Incr.

CONT. - 4.39 - - 71.2 - -

WNU91 76213.2 - - - 93.1 0.19 14

WNU91 76213.4 4.88 0.02 30 102.7 0.02 26

WNU70 78104.1 4.92 0.04 31 96.2 0.08 18

WNU70 78104.3 5.05 0.12 35 119.0 0.06 46

WNU70 78104.4 4.47 0.16 19 99.9 0.16 23

WNU14 77113.9 - - - 96.6 0.10 19

WNU11 76397.2 5.25 0.02 40 126.4 0.07 55

WNU105 77261.4 4.55 0.20 21 96.5 0.08 19

CONT. - 3.75 - - 81.4 - -

WNU99 77099.4 - - - 41.5 0.28 17

WNU99 77100.3 3.43 0.01 39 47.8 L 34

WNU98 77462.4 3.35 0.01 36 51.8 L 46

WNU97 77181.4 3.30 L 34 49.8 0.06 40

WNU97 77182.2 3.15 0.10 28 48.0 L 35

WNU94 78108.3 3.08 0.05 25 44.9 0.01 26

WNU94 78109.1 2.90 0.26 18 - - -

WNU94 78110.3 - - - 47.3 0.17 33

WNU9 76612.1 - - - 43.1 0.22 21

WNU9 76615.6 3.73 L 52 54.1 L 52

WNU83 75821.8 3.08 0.04 25 49.2 L 39

WNU83 75823.10 3.28 0.05 33 48.7 0.05 37

WNU83 75824.4 - - - 42.6 0.09 20

WNU81 78097.2 3.40 0.03 38 55.5 L 56

WNU81 78097.5 3.15 0.06 28 45.1 0.08 27

WNU81 78098.2 - - - 42.1 0.08 19

WNU5 76044.2 3.17 0.09 29 42.7 0.19 20

WNU5 76045.7 3.05 0.09 24 - - -

WNU46 77021.3 3.40 L 38 45.3 0.08 28

WNU46 77022.1 3.02 0.14 23 41.6 0.10 17

WNU46 77024.3 - - - 49.6 0.12 40

WNU43 77270.2 3.32 0.02 35 46.4 L 31

WNU41 79012.2 3.55 0.15 44 - - -

WNU41 79012.4 4.13 L 68 54.3 0.02 53

WNU41 79013.1 2.98 0.07 21 44.8 0.10 26

WNU38 76594.5 3.25 0.05 32 51.2 0.17 44

WNU38 76595.11 - - - 41.9 0.21 18

WNU35 75793.1 3.32 0.02 35 48.3 0.05 36

WNU31 75786.3 3.35 0.15 36 47.6 0.15 34

WNU31 75790.2 3.45 0.10 40 46.0 0.06 30

WNU31 75790.7 3.10 0.14 26 53.5 0.05 51

WNU20 78336.5 2.95 0.07 20 41.2 0.23 16

WNU20 78340.1 3.15 0.05 28 46.3 0.07 30

WNU20 78340.5 3.00 0.16 22 54.9 0.09 55

WNU17 76556.4 - - - 40.8 0.17 15

WNU17 76557.4 2.85 0.15 16 40.7 0.22 15

WNU17 76559.1 3.02 0.23 23 - - -

CONT. - 2.46 - - 35.5 - - Dry Weight [mg] Fresh Weight [mg]

Gene Name Event # % %

Ave. P-Val. Ave. P-Val.

Incr. Incr.

WNU103_H11 78347.1 4.4 0.1812 26 - - - 6

WNU103_H11 78346.4 - - - 107.15 0.1150 57

9

WNU22_H1 79403.1 3.925 0.1193 13 90.55 0.2009 32

38 01

WNU22_H1 79405.2 4.775 0.0854 37 103.375 0.1942 51

95 48

CONT. - 3.47 - - 68.18 - -

Table 76: "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant. Table 77

Genes showing improved plant performance at nitrogen deficient conditions (T2 generation)

Roots Coverage

Leaf Area [cm ² ] Roots Length [cm]

[cm ² ]

Gene Name Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU98 77462.2 0.457 0.15 13 - - - 7.03 L 11

WNU98 77462.4 - - - - - - 6.71 0.10 6

WNU98 77463.13 0.437 0.27 8 - - - - - -

WNU98 77465.1 0.468 0.08 16 11.2 0.02 23 6.68 0.28 6

WNU97 77182.2 0.448 0.01 11 10.8 0.29 18 6.83 0.02 8

WNU94 78108.3 - - - 11.7 0.04 27 7.13 0.05 13

WNU9 76612.1 - - - - - - 6.79 0.19 8

WNU9 76615.6 - - - - - - 6.81 0.02 8

WNU83 75821.7 - - - - - - 6.77 0.05 7

WNU83 75823.10 - - - - - - 6.67 0.22 6

WNU83 75824.4 - - - - - - 6.64 0.05 5

WNU81 78098.2 - - - - - - 6.85 0.10 9

WNU41 79012.1 - - - - - - 6.99 0.12 11

WNU41 79012.2 0.468 L 16 14.8 L 61 7.37 L 17

WNU41 79012.4 0.472 0.15 17 - - - 6.74 0.07 7

WNU41 79013.1 0.458 0.14 13 10.3 0.02 13 6.74 0.08 7

WNU38 76595.11 0.442 0.16 9 - - - 6.89 0.09 9

WNU31 75790.2 0.477 0.08 18 10.8 0.12 18 6.77 0.05 7

WNU31 75790.7 - - - 11.9 0.28 30 - - -

WNU31 75790.8 - - - - - - 6.78 0.03 7

WNU20 78339.2 0.459 0.10 14 - - - 7.07 L 12

WNU20 78340.1 - - - 10.4 0.13 13 7.20 0.02 14

WNU20 78340.5 0.468 0.09 16 11.8 L 29 7.44 L 18

WNU17 76556.3 0.464 0.02 15 12.5 0.02 37 7.38 L 17

WNU17 76557.4 - - - - - - 6.82 0.15 8

CONT. - 0.404 - - 9.15 - - 6.30 - -

WNU96 75816.4 0.444 0.02 39 11.4 L 58 7.01 L 18

WNU96 75818.9 0.366 0.19 15 8.28 0.23 15 6.63 0.04 12 Roots Coverage

Leaf Area [cm ² ] Roots Length [cm]

[cm ² ]

Gene Name Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU96 75820.6 - - - - - - 6.86 L 16

WNU96 75820.7 0.365 0.10 15 - - - - - -

WNU93 76607.13 0.403 0.02 26 10.6 L 48 7.09 L 20

WNU93 76607.9 0.386 0.05 21 9.08 0.15 26 - - -

WNU93 76609.3 0.407 0.11 28 9.62 0.21 34 7.04 0.03 19

WNU8 77117.1 0.369 0.19 16 8.70 0.06 21 6.35 0.21 7

WNU8 77117.9 0.359 0.19 12 - - - - - -

WNU76 77091.10 - - - 8.32 0.24 16 - - -

WNU76 77092.1 0.452 0.07 42 - - - - - -

WNU76 77095.2 0.368 0.25 15 9.56 0.05 33 6.38 0.24 8

WNU49 75796.8 0.399 0.03 25 8.38 0.09 17 - - -

WNU49 75797.3 0.359 0.13 13 - - - 6.28 0.23 6

WNU49 75799.6 0.369 0.26 16 - - - - - -

WNU49 75799.7 - - - - - - 6.42 0.09 8

WNU40 78091.1 0.392 L 23 - - - - - -

WNU40 78092.5 0.373 0.02 17 10.3 L 44 6.45 0.09 9

WNU40 78095.5 0.374 0.28 17 - - - - - -

WNU37 77766.2 0.402 0.03 26 9.28 0.14 29 - - -

WNU37 77767.1 0.391 0.12 23 9.33 0.06 30 6.77 0.11 14

WNU37 77767.3 0.397 0.07 24 11.0 0.02 53 6.85 0.06 15

WNU23 78341.3 0.397 0.01 24 - - - 6.38 0.12 8

WNU23 78341.7 0.355 0.10 11 8.16 0.21 14 6.60 0.16 11

WNU23 78343.1 0.428 0.01 34 9.83 0.08 37 7.22 L 22

WNU23 78344.2 0.408 L 28 - - - 6.73 0.02 13

WNU102 76549.12 0.442 L 38 12.1 L 68 6.75 0.03 14

WNU102 76550.4 0.444 L 39 12.5 L 74 7.26 0.01 22

WNU100 77989.3 0.414 0.01 30 8.90 0.05 24 6.83 L 15

WNU100 77990.2 - - - - - - 6.54 0.15 10

WNU100 78026.6 0.379 0.06 19 - - - - - -

WNU100 78029.3 0.350 0.16 10 10.1 0.01 40 6.67 0.03 12

CONT. - 0.319 - - 7.18 - - 5.93 - -

WNU91 76213.2 - - - - - - 5.87 0.23 7

WNU91 76213.4 0.373 0.17 11 - - - 5.93 0.17 8

WNU91 76215.5 - - - - - - 5.93 0.05 8

WNU70 78102.7 0.411 0.10 22 8.73 0.01 51 6.85 L 25

WNU70 78104.1 0.416 0.09 24 7.75 0.02 34 - - -

WNU70 78104.3 - - - - - - 6.20 0.02 13

WNU61 78014.1 0.370 0.07 10 6.50 0.20 13 5.88 L 7

WNU61 78014.2 0.404 0.14 20 8.59 0.16 49 5.87 0.18 7

WNU61 78015.10 0.380 0.05 13 6.35 0.20 10 5.97 0.08 9

WNU6 76542.5 0.459 0.05 37 12.6 0.04 119 6.83 0.02 24

WNU6 76544.1 0.435 L 29 7.58 L 31 6.30 L 15

WNU55 77632.3 0.419 L 25 7.55 0.04 31 - - -

WNU55 77632.6 0.389 0.04 16 8.23 0.05 43 5.95 0.24 8

WNU55 77634.1 0.351 0.24 5 - - - - - -

WNU51 79018.6 0.388 0.11 16 7.32 0.15 27 5.93 0.02 8

WNU51 79019.2 0.377 0.11 12 7.13 0.15 24 - - - Roots Coverage

Leaf Area [cm ² ] Roots Length [cm]

[cm ² ]

Gene Name Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU11 76397.2 0.401 0.15 19 7.72 0.10 34 6.28 0.23 14

WNU11 76400.2 0.389 0.09 16 - - - - - -

WNU105 77261.2 0.461 L 37 10.6 0.02 83 6.91 L 26

WNU105 77263.4 0.396 0.19 18 7.63 0.29 32 - - -

CONT. - 0.336 - - 5.77 - - 5.50 - -

WNU91 76211.4 0.428 0.21 14 - - - 6.61 0.30 9

WNU91 76213.2 0.464 L 23 9.57 0.10 27 7.10 L 18

WNU91 76213.4 0.513 L 36 12.3 L 64 7.32 L 21

WNU70 78104.1 0.446 0.04 19 9.87 0.04 31 - - -

WNU70 78104.3 0.505 0.03 34 11.8 0.04 57 7.43 L 23

WNU70 78104.4 0.518 L 38 9.26 0.14 23 6.70 0.04 11

WNU7 77772.3 - - - 8.96 0.06 19 - - -

WNU6 76544.1 - - - 8.82 0.20 18 7.23 0.02 20

WNU6 76544.4 - - - - - - 6.44 0.20 7

WNU42 76597.1 0.423 0.03 12 - - - - - -

WNU42 76598.1 0.423 0.15 12 9.01 0.09 20 6.54 0.18 8

WNU34 76588.5 - - - - - - 6.44 0.19 7

WNU14 77113.11 0.439 0.07 17 9.47 0.20 26 - - -

WNU14 77113.4 - - - - - - 6.38 0.28 6

WNU14 77113.9 0.432 0.02 15 - - - - - -

WNU11 76397.2 0.546 L 45 10.9 L 45 7.49 L 24

WNU11 76398.1 0.413 0.14 10 - - - - - -

WNU11 76399.1 - - - - - - 6.48 0.19 7

WNU11 76400.2 0.423 0.02 12 8.45 0.21 12 - - -

WNU105 77261.4 0.472 L 26 9.22 0.10 23 6.67 0.15 10

CONT. - 0.376 - - 7.51 - - 6.04 - -

WNU99 77100.3 0.395 L 30 - - - - - -

WNU98 77462.4 0.390 0.01 28 6.49 0.21 11 6.24 0.27 9

WNU97 77181.4 0.389 0.02 28 - - - - - -

WNU97 77182.2 0.359 0.10 18 7.05 0.21 21 - - -

WNU94 78108.3 0.378 0.01 24 6.74 0.18 15 6.24 0.11 9

WNU94 78110.3 0.347 0.10 14 - - - - - -

WNU9 76612.1 0.377 0.04 24 6.50 0.12 11 6.45 0.03 12

WNU9 76615.4 - - - - - - 6.27 0.26 9

WNU9 76615.6 0.378 0.10 24 7.05 0.26 20 - - -

WNU83 75821.8 0.395 L 30 - - - - - -

WNU83 75823.10 0.376 0.05 23 - - - - - -

WNU81 78097.2 0.391 0.01 28 7.15 0.14 22 6.34 0.13 11

WNU81 78097.5 0.374 0.07 23 - - - - - -

WNU5 76044.2 0.358 0.11 18 6.69 0.08 14 6.45 0.04 12

WNU5 76045.7 0.383 0.12 26 - - - 6.49 0.12 13

WNU46 77021.3 0.337 0.20 10 - - - - - -

WNU46 77024.3 0.339 0.30 11 7.03 0.20 20 6.55 0.04 14

WNU41 79012.2 0.337 0.28 11 - - - - - -

WNU41 79012.4 0.434 L 42 7.55 0.03 29 6.21 0.14 8

WNU41 79013.1 0.354 0.07 16 - - - - - -

WNU38 76594.5 0.396 0.06 30 7.15 0.12 22 - - - Roots Coverage

Leaf Area [cm ² ] Roots Length [cm]

[cm ² ]

Gene Name Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU38 76595.11 0.362 0.13 19 6.88 0.26 17 6.35 0.09 11

WNU35 75793.1 0.389 L 28 - - - - - -

WNU31 75786.3 0.397 L 30 6.74 0.08 15 - - -

WNU31 75790.2 0.424 L 39 7.27 0.19 24 6.35 0.10 11

WNU31 75790.7 0.397 0.02 30 - - - - - -

WNU20 78336.5 0.335 0.29 10 - - - - - -

WNU20 78340.1 0.399 L 31 7.45 L 27 6.62 0.02 15

WNU20 78340.5 0.366 0.03 20 7.29 0.09 24 6.36 0.13 11

CONT. - 0.305 - - 5.85 - - 5.74 - -

WNU103_H 0.02 25 0.00

9.27 0.09 29 6.90 16 11 78346.4 0.399 4 8

WNU103_H -

8.98 0.12 25 - - - 11 78347.1

0.24 13 0.25

6.40 o o

WNU22_H1 79403.1 0.359 6 3

0.02 22 8.36 0.28

16

WNU22_H1 79405.2 0.389 3

0.09 20 8.63 0.26 0.12

20 6.57 11

WNU22_H1 79464.2 0.381 0 4

CONT. - 0.319 - - 7.18 - - 5.93 - -

Table 77: CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p- value; L means that p-value is less than 0.01, p<0.1 was considered as significant.

Table 78

Genes showing improved plant performance at nitrogen deficient conditions (Tl generation)

Table 78: "CONT." - Control; "Ave." - Average; " Incr." = % increment, "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant.

The genes listed in Table 79 have improved plant relative growth rate (relative growth rate of the leaf area, root coverage and root length) when grown under limiting nitrogen growth conditions, compared to control plants (T2 generation) that were grown under identical growth conditions. Plants showing fast growth rate show a better plant establishment in soil under nitrogen deficient conditions. Faster growth was observed when growth rate of leaf area, root length and root coverage was measured. Table 79

Genes showing improved plant growth rate at nitrogen deficient conditions (T2 generation)

RGR Of Roots RGR Of Root

RGR Of Leaf Area

Coverage Length

Gene Name Event # % % %

P- P- P-

Ave. Incr Ave. Incr Ave. Incr Val. Val. Val.

0.044

WNU98 77462.2 0.16 16 - - - - - - 4

0.044

WNU98 77465.1 0.11 17 1.33 0.03 22 - - - 6

WNU97 77182.2 - - - 1.28 0.12 17 - - -

0.63 0.2

WNU94 78108.3 - - - 1.37 0.02 25 11

0 1

0.61 0.2

WNU83 75821.7 - - - - - - 9

9 5

0.042

WNU81 78098.2 0.27 12 - - - - - - 7

0.62 0.2

WNU41 79012.2 - - - 1.75 L 61 9

0 5

0.044

WNU41 79012.4 0.15 16 - - - - - -

3

WNU41 79013.1 - - - 1.23 0.17 12 - - -

76595.1 0.042

WNU38 0.27 11 - - - - - - 1 5

WNU31 75790.2 - - - 1.25 0.13 15 - - -

WNU31 75790.7 - - - 1.41 0.05 30 - - -

0.042

WNU20 78339.2 0.24 12 - - - - - - 9

WNU20 78340.5 - - - 1.37 L 26 - - -

WNU17 76556.3 - - - 1.47 L 35 - - -

WNU17 76559.1 - - - 1.25 0.20 15 - - -

0.038 0.56

CONT. - - - 1.09 - - - -

3 9

0.035 0.60 0.2

WNU96 75816.4 0.25 18 1.34 L 55 13

8 4 7

0.61 0.1

WNU96 75820.6 - - - - - - 14

2 9

76607.1 0.038

WNU93 0.11 26 1.27 L 46 - - -

3 2

WNU93 76607.9 - - - 1.08 0.16 25 - - -

0.037 0.60 0.2

WNU93 76609.3 0.16 24 1.13 0.11 31 12

7 1 9

WNU8 77117.1 - - - 1.03 0.30 19 - - - RGR Of Roots RGR Of Root

RGR Of Leaf Area

Coverage Length

Gene Name Event # % % %

P- P- P-

Ave. Incr Ave. Incr Ave. Incr Val. Val. Val.

0.041

WNU76 77092.1 0.05 36 - - - - - -

3

WNU76 77095.2 - - - 1.13 0.07 30 - - -

0.037

WNU49 75796.8 0.16 22 - - - - - - 0

0.037

WNU40 78091.1 0.14 22 - - - - - - 1

WNU40 78092.5 - - - 1.25 0.01 44 - - -

0.037

WNU37 77766.2 0.16 22 1.12 0.09 30 - - - 0

0.036

WNU37 77767.1 0.19 22 1.09 0.12 27 - - - 9

0.036 0.61 0.2

WNU37 77767.3 0.17 21 1.32 L 52 14

8 2 2

0.035 0.60 0.2

WNU23 78341.7 0.27 17 - - - 13

4 3 8

0.040 0.64 0.1

WNU23 78343.1 0.05 34 1.17 0.07 35 21

8 8 0

0.036

WNU23 78344.2 0.18 20 - - - - - - 5

76549.1 0.041

WNU102 0.02 38 1.44 L 67 - - - 2 8

0.042 0.60 0.2

WNU102 76550.4 0.01 39 1.48 L 71 13

3 5 6

0.038

WNU100 77989.3 0.08 27 1.03 0.21 19 - - - 5

0.036

WNU100 78026.6 0.22 19 - - - - - - 2

0.61 0.1

WNU100 78029.3 - - - 1.21 0.02 40 15

5 8

0.030 0.86 0.53

CONT. - - - - - - - 4 5 5

0.035 0.55 0.0

WNU91 76213.4 0.27 13 - - - 17

3 3 4

0.037 0.57

WNU70 78102.7 0.17 19 1.02 L 51 L 22

3 7

0.038 0.93 0.56 0.0

WNU70 78104.1 0.06 24 0.04 39 20

8 4 8 9

0.56 0.0

WNU70 78104.3 - - - - - - 20

6 1 RGR Of Roots RGR Of Root

RGR Of Leaf Area

Coverage Length

Gene Name Event # % % %

P- P- P-

Ave. Incr Ave. Incr Ave. Incr Val. Val. Val.

0.035 0.78 0.55 0.0

WNU61 78014.1 0.19 15 0.29 16 16

8 4 1 2

0.52 0.1

WNU61 78014.2 - - - 1.02 0.03 51 11

5 8

78015.1 0.036 0.53 0.1

WNU61 0.12 17 - - - 13

0 6 6 0

0.040 0.55 0.0

WNU6 76542.5 0.04 29 1.49 L 121 17

2 3 8

0.036 0.89 0.53 0.0

WNU6 76544.1 0.11 18 0.04 32 12

9 3 1 9

0.90

WNU55 77632.3 - - - 0.06 34 - - -

2

0.95

WNU55 77632.6 - - - 0.02 42 - - - 8

0.037 0.89 0.58

WNU51 79018.6 0.14 18 0.07 32 L 22

0 2 0

0.035 0.86 0.54 0.0

WNU51 79019.2 0.29 13 0.12 28 15

3 1 4 8

0.036 0.91 0.53 0.2

WNU11 76397.2 0.29 15 0.06 35 13

0 2 4 8

0.51 0.2

WNU11 76398.1 - - - - - - 10

8 5

0.040 0.60

WNU105 77261.2 0.01 30 1.25 L 86 L 27

8 2

0.037 0.92 0.54 0.1

WNU105 77263.4 0.14 20 0.10 36 15

7 0 4 1

0.031 0.67 0.47

CONT. - - - - - - -

3 4 3

0.60 0.2

WNU91 76211.4 - - - 1.08 0.18 21 10

6 9

0.044

WNU91 76213.2 0.12 21 1.12 0.06 26 - - -

3

0.046 0.64 0.0

WNU91 76213.4 0.05 28 1.46 L 63 16

6 0 2

WNU70 78104.1 - - - 1.18 0.02 32 - - -

0.046 0.63 0.0

WNU70 78104.3 0.07 26 1.39 L 56 15

1 4 5

0.045 0.62 0.0

WNU70 78104.4 0.06 25 1.11 0.08 24 13

7 2 7

WNU7 77772.3 - - - 1.08 0.11 21 - - - RGR Of Roots RGR Of Root

RGR Of Leaf Area

Coverage Length

Gene Name Event # % % %

P- P- P-

Ave. Incr Ave. Incr Ave. Incr Val. Val. Val.

WNU7 77775.1 - - - 1.06 0.26 19 - - -

0.042 0.64 0.0

WNU6 76544.1 0.25 17 1.05 0.20 17 17

5 3 3

0.042 0.59 0.2

WNU42 76598.1 0.24 17 1.07 0.13 20 9

6 9 5

77113.1

WNU14 - - - 1.11 0.10 24 - - - 1

0.050 0.62 0.0

WNU11 76397.2 L 38 1.29 L 44 13

4 6 8

0.044

WNU105 77261.4 0.11 22 1.09 0.10 22 - - - 6

0.036 0.89 0.55

CONT. - - - - - - - 5 3 2

0.036

WNU99 77100.3 0.10 27 - - - - - - 6

0.038 0.55 0.1

WNU97 77181.4 0.06 34 - - - 17

6 9 2

0.034 0.83

WNU97 77182.2 0.21 21 0.17 21 - - - 8 7

0.036 0.79

WNU94 78108.3 0.09 27 0.24 15 - - - 7 8

0.033

WNU94 78110.3 0.26 18 - - - - - - 9

0.035 0.57 0.0

WNU9 76612.1 0.16 24 - - - 20

8 3 6

0.034 0.83

WNU9 76615.6 0.27 20 0.16 21 - - - 5 8

0.037 0.54 0.1

WNU83 75821.8 0.08 29 - - - 14

0 6 8

0.037 0.85 0.54 0.2

WNU81 78097.2 0.09 28 0.11 23 13

0 0 3 4

0.036

WNU81 78097.5 0.15 25 - - - - - - 0

0.035 0.78 0.53 0.2

WNU5 76044.2 0.17 24 0.26 14 11

6 9 2 7

0.038 0.82 0.56 0.1

WNU5 76045.7 0.09 32 0.20 19 17

1 4 0 5

0.033 0.82 0.53 0.2

WNU46 77024.3 0.28 18 0.17 19 12

9 5 5 8

WNU41 79012.4 0.042 0.01 46 0.89 0.05 29 - - - RGR Of Roots RGR Of Root

RGR Of Leaf Area

Coverage Length

Gene Name Event # % % %

P- P- P-

Ave. Incr Ave. Incr Ave. Incr Val. Val. Val.

0 4

0.034

WNU41 79013.1 0.20 20 - - - - - - 7

0.038 0.85 0.53 0.3

WNU38 76594.5 0.06 35 0.11 23 12

8 1 6 0

76595.1 0.035 0.81

WNU38 0.17 25 0.23 17 - - - 1 9 1

0.036 0.57 0.0

WNU35 75793.1 0.11 26 - - - 20

3 6 6

0.036 0.80

WNU31 75786.3 0.11 25 0.18 16 - - - 1 3

0.037 0.86 0.58 0.0

WNU31 75790.2 0.10 29 0.11 25 21

1 3 0 6

0.037

WNU31 75790.7 0.10 30 - - - - - - 4

0.54 0.1

WNU20 78336.5 - - - - - - 14

7 9

0.038 0.87 0.57 0.0

WNU20 78340.1 0.05 33 0.03 27 20

4 9 4 6

0.034 0.86

WNU20 78340.5 0.23 20 0.08 25 - - - 5 6

0.028 0.69 0.47

CONT. - - - - - - - 8 2 9

WNU103_H 0.037 0.11 1.11 0.08 0.60 0.2

78346.4 24 29 13 11 8 7 7 8 4 52

WNU103_H 1.05 0.20

78347.1 - - - 22 - - - 11 3 3

1.03 0.25

WNU22_H1 79464.2 - - - 20 - - - 5 0

0.86 0.53

CONT. - 0.030 - - - - - - 5 5

Table 79: "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant.

The genes listed in Tables 80-83 improved plant NUE when grown at standard nitrogen concentration levels. These genes produced larger plant biomass (plant fresh and dry weight; leaf area, root coverage and roots length) when grown under standard nitrogen growth conditions, compared to control plants that were grown under identical growth conditions in T2 (Tables 80-81) and Tl (Tables 82-83) generations. Larger plant biomass under these growth conditions indicates the high ability of the plant to better metabolize the nitrogen present in the medium. Plants producing larger root biomass have better possibilities to absorb larger amount of nitrogen from soil. Table 80

Genes showing improved plant performance at standard nitrogen growth conditions (T2 generation)

Dry Weight [mg] Fresh Weight [mg]

Gene Name Event # % %

Ave. P-Val. Ave. P-Val.

Incr. Incr.

WNU91 76213.2 3.50 0.24 19 - - -

WNU70 78102.7 4.67 0.20 59 66.9 L 35

WNU70 78104.1 4.77 0.12 63 80.5 0.02 63

WNU61 78014.2 6.43 0.14 119 115.2 0.04 133

WNU6 76542.5 6.12 0.10 109 108.5 0.09 120

WNU6 76544.1 4.45 0.25 51 71.5 0.18 45

WNU6 76544.4 5.77 0.02 97 81.7 L 65

WNU55 77632.3 6.28 0.01 114 115.5 L 134

WNU55 77632.6 7.03 0.01 139 102.3 0.10 107

WNU55 77634.1 4.35 L 48 73.5 L 49

WNU51 79018.4 3.60 L 23 61.8 0.12 25

WNU51 79018.6 4.12 0.24 40 71.1 0.18 44

WNU11 76397.2 5.47 L 86 105.4 L 113

WNU105 77261.2 7.58 0.01 158 133.4 L 170

WNU105 77261.4 5.88 L 100 102.8 0.08 108

WNU105 77263.4 4.57 0.07 55 62.8 0.19 27

CONT. - 2.94 - - 49.4 - -

WNU99 77097.4 4.80 0.24 121 67.2 L 78

WNU99 77099.4 4.75 0.06 118 72.5 0.02 92

WNU99 77100.3 3.67 0.06 69 59.5 0.08 57

WNU98 77462.4 3.43 0.02 57 49.8 0.07 32

WNU98 77463.13 3.95 L 82 60.8 L 61

WNU98 77465.1 - - - 48.3 0.19 28

WNU97 77181.4 3.17 0.09 46 54.8 0.06 45

WNU97 77182.2 2.75 0.03 26 46.9 0.04 24

WNU94 78108.3 3.38 L 55 58.4 0.03 54

WNU94 78109.1 3.32 L 53 46.4 0.17 22

WNU94 78110.3 3.67 0.06 69 53.5 0.21 41

WNU9 76612.1 2.80 0.06 29 49.5 0.09 31

WNU9 76615.4 2.58 0.14 18 - - -

WNU9 76615.6 4.38 L 101 65.2 0.02 72

WNU83 75821.8 3.67 L 69 51.3 0.01 36

WNU83 75823.10 4.68 L 115 65.9 0.01 74 Dry Weight [mg] Fresh Weight [mg]

Gene Name Event # % %

Ave. P-Val. Ave. P-Val.

Incr. Incr.

WNU81 78097.2 2.82 0.02 30 - - -

WNU81 78097.5 4.60 L 111 69.4 0.05 83

WNU81 78098.2 2.73 0.12 25 44.5 0.17 17

WNU5 76044.2 3.75 0.02 72 61.2 L 62

WNU5 76045.7 3.17 0.08 46 47.7 0.20 26

WNU46 77021.3 4.73 0.04 118 62.8 0.01 66

WNU46 77022.1 3.37 L 55 - - -

WNU46 77024.3 2.82 0.02 30 - - -

WNU43 77270.2 3.32 L 53 44.9 0.19 19

WNU41 79012.2 3.32 0.01 53 55.3 L 46

WNU41 79012.4 4.50 L 107 66.4 0.01 75

WNU41 79013.1 3.12 0.13 44 - - -

WNU38 76591.4 2.70 0.08 24 - - -

WNU38 76594.5 2.93 0.14 34 - - -

WNU38 76595.11 2.65 0.30 22 - - -

WNU35 75792.2 3.58 0.01 64 59.7 L 58

WNU35 75793.1 4.10 L 89 68.1 0.03 80

WNU35 75794.1 2.93 0.02 34 45.4 0.10 20

WNU31 75786.3 3.43 L 57 60.5 0.03 60

WNU31 75790.2 3.97 L 82 54.6 L 44

WNU31 75790.7 3.73 L 71 66.2 L 75

WNU20 78340.1 3.38 0.03 55 46.3 0.10 22

WNU20 78340.5 3.47 0.09 60 52.9 0.05 40

WNU17 76556.4 3.85 0.02 77 59.9 L 58

WNU17 76557.4 2.62 0.22 21 42.1 0.28 11

WNU17 76559.1 3.12 0.05 44 59.4 0.05 57

CONT. - 2.17 - - 37.8 - -

Table 80: "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant.

Table 81

Genes showing improved plant performance at standard nitrogen growth conditions (T2 generation)

Roots Coverage

Leaf Area [cm ² ] Roots Length [cm]

[cm ² ]

Gene Name Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU91 76213.4 0.403 0.27 12 - - - 5.50 0.25 8

WNU91 76215.5 - - - 5.60 0.17 34 5.81 0.10 15

WNU70 78102.7 0.498 0.11 38 5.99 0.21 44 5.79 0.25 14

WNU70 78104.1 0.485 0.05 35 - - - - - - Roots Coverage

Leaf Area [cm ² ] Roots Length [cm]

[cm ² ]

Gene Name Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU70 78104.3 - - - 5.34 0.22 28 5.58 0.22 10

WNU61 78014.1 0.451 0.05 25 5.34 0.20 28 5.77 0.10 14

WNU61 78014.2 0.585 0.07 63 5.93 0.10 42 - - -

78015.1

WNU61 0.387 0.26 8 - - - - - - 0

WNU6 76542.5 0.534 0.10 48 7.95 0.04 91 6.50 0.02 28

WNU6 76544.4 0.468 L 30 7.51 L 80 6.29 L 24

WNU55 77632.3 0.651 L 81 6.31 L 51 5.58 0.27 10

WNU55 77632.6 0.597 L 66 6.90 0.05 65 - - -

WNU55 77634.1 0.442 0.02 23 - - - - - -

WNU51 79018.6 0.465 0.05 29 6.09 0.06 46 5.58 0.22 10

WNU11 76397.2 0.546 L 52 6.81 L 63 5.96 0.06 18

WNU11 76400.2 - - - - - - 5.63 0.28 11

WNU105 77261.2 0.713 L 98 10.2 L 144 6.52 L 29

WNU105 77261.4 0.531 0.02 48 6.30 0.04 51 5.94 0.12 17

WNU105 77263.4 0.410 0.08 14 - - - - - -

CONT. - 0.360 - - 4.17 - - 5.07 - -

WNU99 77097.4 0.409 L 39 5.03 0.04 48 - - -

WNU99 77099.4 0.440 0.01 49 - - - - - -

WNU99 77100.3 0.426 0.01 45 - - - - - -

WNU98 77462.4 0.393 L 34 4.94 0.02 46 6.13 0.02 15

77463.1

WNU98 0.430 L 46 4.30 0.24 27 - - - 3

WNU98 77465.1 0.352 0.11 20 - - - - - -

WNU97 77181.4 0.407 0.01 38 5.07 0.10 49 - - -

WNU97 77182.2 0.356 0.04 21 - - - - - -

WNU94 78108.3 0.407 0.02 38 5.24 0.02 54 5.71 0.22 7

WNU94 78109.1 0.358 0.04 22 - - - - - -

WNU94 78110.3 0.411 L 40 4.63 0.05 36 - - -

WNU9 76612.1 0.416 L 41 5.41 0.01 59 6.27 0.03 17

WNU9 76615.4 0.336 0.14 14 4.31 0.21 27 5.85 0.25 10

WNU9 76615.6 0.461 L 57 5.87 L 73 6.37 L 19

WNU83 75821.8 0.448 L 52 4.04 0.27 19 - - -

75823.1

WNU83 0.485 L 65 6.15 L 81 6.29 L 18

0

WNU83 75824.4 - - - 4.26 0.23 25 5.84 0.21 9

WNU81 78097.2 0.344 0.12 17 4.62 0.04 36 5.82 0.14 9

WNU81 78097.5 0.442 L 50 5.63 L 66 6.34 0.04 19

WNU5 76044.2 0.413 L 41 6.57 L 93 6.44 L 21

WNU5 76045.7 0.355 0.06 21 3.96 0.29 16 5.75 0.27 8 Roots Coverage

Leaf Area [cm ² ] Roots Length [cm]

[cm ² ]

Gene Name Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU46 77021.3 0.454 L 55 - - - - - -

WNU46 77022.1 0.359 0.29 22 4.52 0.05 33 - - -

WNU46 77024.3 0.358 0.04 22 4.56 0.04 34 6.28 L 18

WNU41 79012.2 0.395 L 34 5.09 0.03 50 - - -

WNU41 79012.4 0.479 L 63 5.45 0.08 61 6.01 0.23 13

WNU41 79013.1 0.402 L 37 4.89 0.04 44 6.00 0.10 12

WNU38 76591.4 0.357 0.04 22 - - - - - -

WNU38 76594.5 0.395 0.05 34 5.00 0.21 47 - - -

76595.1

WNU38 0.346 0.13 17 4.69 0.22 38 5.90 0.24 10

1

WNU35 75792.2 0.419 L 42 4.84 0.08 42 - - -

WNU35 75793.1 0.460 L 56 5.04 0.01 48 - - -

WNU35 75794.1 0.341 0.18 16 4.39 0.11 29 5.97 0.14 12

WNU31 75786.3 0.389 0.02 32 5.11 0.01 50 5.83 0.13 9

WNU31 75790.2 0.399 0.05 36 5.29 L 56 - - -

WNU31 75790.7 0.430 L 46 4.44 0.08 31 - - -

WNU20 78336.5 - - - 5.04 0.18 48 5.97 0.10 12

WNU20 78340.1 0.406 0.01 38 5.63 0.03 66 6.63 L 24

WNU20 78340.5 0.397 0.06 35 5.82 0.01 71 6.17 0.01 16

WNU17 76556.4 0.409 0.03 39 4.67 0.12 37 - - -

WNU17 76557.4 0.363 0.02 23 - - - - - -

WNU17 76559.1 0.389 0.05 32 5.19 0.10 53 6.07 0.09 14

CONT. - 0.294 - - 3.40 - - 5.34 - -

Table 81 : "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant.

Table 82

Genes showing improved plant performance at standard nitrogen growth conditions (Tl generation)

Table 82: "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p- value is less than 0.01, p<0.1 was considered as significant. Table 83

Genes showing improved plant performance at standard nitrogen growth conditions (Tl generation)

Table 83: "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant.

The genes listed in Table 84-85 improved plant relative growth rate (RGR of leaf area, root length and root coverage) when grown at standard nitrogen concentration levels. These genes produced plants that grew faster than control plants when grown under standard nitrogen growth conditions. Faster growth was observed when growth rate of leaf area, root length and root coverage was measured.

Table 84

Genes showing improved growth rate at standard nitrogen growth conditions (T2 generation)

RGR Of Roots RGR Of Root

RGR Of Leaf Area

Gene Coverage Length

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU91 76215.5 - - - 0.650 0.16 34 - - -

WNU70 78102.7 0.0473 0.05 34 0.706 0.09 46 - - -

WNU70 78104.1 0.0468 0.03 33 - - - - - -

WNU70 78104.3 - - - 0.618 0.25 28 - - -

WNU61 78014.1 0.0430 0.13 22 0.636 0.17 32 0.512 0.23 16

WNU61 78014.2 0.0583 L 66 0.698 0.10 44 - - -

WNU6 76542.5 0.0518 0.03 47 0.921 L 90 0.528 0.19 20

WNU6 76544.4 0.0410 0.20 16 0.879 L 82 0.527 0.16 20

WNU55 77632.3 0.0599 L 70 0.736 0.02 52 - - -

WNU55 77632.6 0.0581 L 65 0.808 0.01 67 - - -

WNU55 77634.1 0.0428 0.12 22 - - - - - -

WNU51 79018.6 0.0462 0.04 31 0.740 0.03 53 0.562 0.05 28

WNU11 76397.2 0.0522 L 48 0.807 0.01 67 0.546 0.13 24

WNU105 77261.2 0.0705 L 100 1.17 L 141 0.546 0.08 24

WNU105 77261.4 0.0507 L 44 0.710 0.05 47 - - -

WNU105 77263.4 0.0414 0.24 18 - - - - - -

CONT. - 0.0352 - - 0.484 - - 0.440 - -

WNU99 77097.4 0.0393 0.08 38 0.594 0.05 51 - - -

WNU99 77099.4 0.0422 0.02 49 - - - - - - RGR Of Roots RGR Of Root

RGR Of Leaf Area

Gene Coverage Length

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU99 77100.3 0.0398 0.03 40 - - - - - -

WNU98 77462.4 0.0361 0.11 27 0.567 0.03 44 0.504 0.17 15

WNU98 77463.13 0.0430 L 51 0.495 0.22 25 - - -

WNU97 77181.4 0.0402 0.02 42 0.585 0.04 48 - - -

WNU97 77182.2 0.0347 0.29 22 - - - - - -

WNU94 78108.3 0.0399 0.03 40 0.623 L 58 0.497 0.20 14

WNU94 78109.1 0.0340 0.22 20 - - - - - -

WNU94 78110.3 0.0415 0.02 46 0.552 0.08 40 - - -

WNU9 76612.1 0.0393 0.03 38 0.651 L 65 0.538 0.05 23

WNU9 76615.4 - - - 0.494 0.21 25 - - -

WNU9 76615.6 0.0437 L 54 0.674 L 71 0.510 0.14 17

WNU83 75821.8 0.0444 L 56 0.486 0.23 23 - - -

WNU83 75823.10 0.0473 L 66 0.717 L 82 0.557 0.02 27

WNU83 75824.4 - - - 0.486 0.25 23 - - -

WNU81 78097.2 - - - 0.557 0.04 41 0.546 0.03 25

WNU81 78097.5 0.0453 L 59 0.654 L 66 0.523 0.15 19

WNU5 76044.2 0.0427 L 50 0.767 L 94 0.530 0.07 21

WNU5 76045.7 0.0340 0.21 20 - - - - - -

WNU46 77021.3 0.0430 0.01 51 - - - - - -

WNU46 77022.1 0.0357 0.22 26 0.543 0.08 38 0.506 0.21 16

WNU46 77024.3 0.0351 0.14 24 0.524 0.09 33 0.521 0.08 19

WNU41 79012.2 0.0387 0.03 36 0.595 0.02 51 - - -

WNU41 79012.4 0.0451 L 59 0.634 0.01 61 - - -

WNU41 79013.1 0.0399 0.02 41 0.560 0.05 42 - - -

WNU38 76591.4 0.0346 0.18 22 - - - - - -

WNU38 76594.5 0.0400 0.02 41 0.594 0.05 51 0.516 0.19 18

WNU38 76595.11 0.0350 0.15 23 0.546 0.10 38 - - -

WNU35 75792.2 0.0406 0.01 43 0.586 0.03 49 0.523 0.10 19

WNU35 75793.1 0.0457 L 61 0.597 0.02 51 - - -

WNU35 75794.1 - - - 0.508 0.14 29 - - -

WNU31 75786.3 0.0376 0.06 32 0.608 L 54 - - -

WNU31 75790.2 0.0366 0.13 29 0.628 L 59 0.504 0.22 15

WNU31 75790.7 0.0409 0.01 44 0.515 0.12 31 - - -

WNU20 78336.5 - - - 0.600 0.04 52 0.508 0.16 16

WNU20 78340.1 0.0403 0.02 42 0.649 L 65 0.558 0.02 28

WNU20 78340.5 0.0388 0.06 37 0.690 L 75 0.494 0.22 13

WNU17 76556.4 0.0396 0.04 39 0.537 0.10 36 - - -

WNU17 76557.4 0.0352 0.14 24 - - - 0.509 0.15 16

WNU17 76559.1 0.0383 0.06 35 0.613 0.02 55 0.517 0.14 18

CONT. - 0.0284 - - 0.394 - - 0.437 - - Table 84: "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant. Table 85

Genes showing improved growth rate at standard nitrogen growth conditions (Tl generation)

Table 85. "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant.

EXAMPLE 19

EVALUATION OF TRANSGENIC ARABIDOPSIS NUE, YIELD AND PLANT GROWTH RATE UNDER LOW OR NORMAL NITROGEN FERTILIZATION IN

GREENHOUSE ASSA Y

Assay 1: Nitrogen Use efficiency: Seed yield, plant biomass and plant growth rate at limited and optimal nitrogen concentration under greenhouse conditions (Greenhouse-seed maturation) - This assay follows seed yield production, the biomass formation and the rosette area growth of plants grown in the greenhouse at limiting and non-limiting (optimal) nitrogen growth conditions. Transgenic Arabidopsis seeds were sown in agar media supplemented with ½ MS medium and a selection agent (Kanamycin). The T ₂ transgenic seedlings were then transplanted to 1.7 trays filled with peat and perlite in a 1 : 1 ratio. The trays were irrigated with a solution containing nitrogen limiting conditions, which were achieved by irrigating the plants with a solution containing 1.5 mM inorganic nitrogen in the form of KN0 ₃ , supplemented with 1 mM KH ₂ P0 ₄ , 1 mM MgS0 _4, 3.6 mM KC1, 2 mM CaCl ₂ and microelements, while normal nitrogen levels were achieved by applying a solution of 6 mM inorganic nitrogen also in the form of KNO ₃ with 1 mM KH ₂ P0 ₄ , 1 mM MgS0 _4i 2 mM CaCl ₂ and microelements. All plants were grown in the greenhouse until mature seeds. Seeds were harvested, extracted and weighted. The remaining plant biomass (the above ground tissue) was also harvested, and weighted immediately or following drying in oven at 50 °C for 24 hours.

Each construct was validated at its T ₂ generation. Transgenic plants transformed with a construct conformed by an empty vector carrying the At6669 promoter and the selectable marker was used as control.

The plants were analyzed for their overall size, growth rate, flowering, seed yield, 1,000-seed weight, dry matter and harvest index (HI- seed yield/dry matter). Transgenic plants performance was compared to control plants grown in parallel under identical growth conditions. Mock- transgenic plants expressing the uidA reporter gene (GUS-Intron) or with no gene at all, under the same promoter were used as control.

The experiment was planned in nested randomized plot distribution. For each gene of the invention three to five independent transformation events were analyzed from each construct.

Digital imaging - A laboratory image acquisition system, which consists of a digital reflex camera (Canon EOS 300D) attached with a 55 mm focal length lens (Canon EF-S series), mounted on a reproduction device (Kaiser RS), which includes 4 light units (4 x 150 Watts light bulb) was used for capturing images of plant samples.

The image capturing process was repeated every 2 days starting from day 1 after transplanting till day 15. Same camera, placed in a custom made iron mount, was used for capturing images of larger plants sawn in white tubs in an environmental controlled greenhouse. The tubs were square shape include 1.7 liter trays. During the capture process, the tubs were placed beneath the iron mount, while avoiding direct sun light and casting of shadows.

An image analysis system was used, which consists of a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.39 [Java based image processing program which is developed at the U.S. National Institutes of Health and freely available on the internet at rsbweb (dot) nih (dot) gov/] . Images were captured in resolution of 10 Mega Pixels (3888 x 2592 pixels) and stored in a low compression JPEG (Joint Photographic Experts Group standard) format. Next, analyzed data was saved to text files and processed using the JMP statistical analysis software (SAS institute). Leaf analysis - Using the digital analysis leaves data was calculated, including leaf number, rosette area, rosette diameter, leaf blade area.

Vegetative growth rate: the relative growth rate (RGR) of leaf number [Formula VIII (described above)], rosette area [Formula IX (described above)], plot coverage [Formula XI (described above)] and harvest index [Formula XV (described above)] was calculated with the indicated formulas.

Seeds average weight - At the end of the experiment all seeds were collected. The seeds were scattered on a glass tray and a picture was taken. Using the digital analysis, the number of seeds in each sample was calculated.

Dry weight and seed yield - On about day 80 from sowing, the plants were harvested and left to dry at 30 °C in a drying chamber. The biomass and seed weight of each plot were measured and divided by the number of plants in each plot. Dry weight = total weight of the vegetative portion above ground (excluding roots) after drying at 30 °C in a drying chamber; Seed yield per plant = total seed weight per plant (gr). 1000 seed weight (the weight of 1000 seeds) (gr.).

The harvest index (HI) was calculated using Formula XV as described above.

Oil percentage in seeds - At the end of the experiment all seeds from each plot were collected. Seeds from 3 plots were mixed grounded and then mounted onto the extraction chamber. 210 ml of n-Hexane (Cat No. 080951 Biolab Ltd.) were used as the solvent. The extraction was performed for 30 hours at medium heat 50 °C. Once the extraction has ended the n-Hexane was evaporated using the evaporator at 35 °C and vacuum conditions. The process was repeated twice. The information gained from the Soxhlet extractor (Soxhlet, F. Die gewichtsanalytische Bestimmung des Milchfettes, Polytechnisches J. (Dingler's) 1879, 232, 461) was used to create a calibration curve for the Low Resonance NMR. The content of oil of all seed samples was determined using the Low Resonance NMR (MARAN Ultra- Oxford Instrument) and its MultiQuant software package

Silique length analysis - On day 50 from sowing, 30 siliques from different plants in each plot were sampled in block A. The chosen siliques were green-yellow in color and were collected from the bottom parts of a grown plant's stem. A digital photograph was taken to determine silique's length. Statistical analyses - To identify genes conferring significantly improved tolerance to abiotic stresses, the results obtained from the transgenic plants were compared to those obtained from control plants. To identify outperforming genes and constructs, results from the independent transformation events tested were analyzed separately. Data was analyzed using Student's t-test and results were considered significant if the p value was less than 0.1. The JMP statistics software package was used (Version 5.2.1, SAS Institute Inc., Cary, NC, USA).

Tables 86-95 summarize the observed phenotypes of transgenic plants exogenously expressing the gene constructs using the greenhouse seed maturation (GH- SM) assays under low nitrogen (Tables 86-90 ) or normal (standard) nitrogen (Tables 91-95 ) growth conditions. The evaluation of each gene was performed by testing the performance of different number of events. Event with p-value <0.1 was considered statistically significant.

Table 86

Genes showing improved plant performance at low Nitrogen growth conditions under regulation of At6669 promoter

Gene Inflorescence

Dry Weight [mg] Flowering

Name Emergence

Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU30 76575.3 - - - 16.4 0.27 -3 12.6 0.14 -3

WNU101 75778.9 382.5 0.11 4 - - - - - -

CONT. - 366.6 - - 17.0 - - 13.0 - -

WNU85 76838.1 445.4 0.17 19 - - - - - -

WNU85 76840.5 419.2 0.28 12 - - - - - -

WNU82 75806.2 412.5 0.26 10 - - - - - -

WNU82 75806.4 415.6 0.01 11 - - - - - -

WNU82 75807.5 427.1 0.08 14 - - - - - -

WNU82 75807.6 430.4 0.12 15 - - - - - -

WNU82 75809.3 485.0 0.02 29 - - - - - -

WNU80 76403.8 397.5 0.13 6 - - - - - -

WNU68 76831.4 411.7 0.04 10 - - - - - -

WNU68 76832.3 453.5 0.02 21 - - - - - -

WNU68 76835.2 420.4 0.07 12 - - - - - -

WNU56 75801.6 402.9 0.08 8 - - - - - -

WNU56 75803.7 - - - 17.3 0.19 -3 13.2 0.26 -2

WNU56 75804.3 435.3 L 16 - - - - - -

CONT. - 374.7 - - 17.8 - - 13.5 - -

WNU77 78016.1 491.1 0.12 16 - - - - - -

WNU77 78016.3 470.0 0.23 11 - - - - - - Gene Inflorescence

Dry Weight [mg] Flowering

Name Emergence

Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU77 78016.6 466.2 0.12 10 - - - - - -

WNU77 78016.8 499.6 0.07 18 22.5 0.16 -1 17.6 0.04 -2

WNU77 78016.9 805.9 0.10 91 - - - - - -

WNU77 78017.1 477.1 0.20 13 22.5 0.16 -1 - - -

WNU77 78018.10 - - - - - - 17.1 0.10 -4

WNU65 78006.10 481.0 0.03 14 - - - - - -

WNU65 78006.4 446.5 0.22 6 - - - - - -

WNU65 78006.7 566.6 0.21 34 - - - - - -

WNU65 78006.8 - - - 21.8 0.13 -4 17.0 0.11 -5

WNU65 78007.11 470.4 0.06 11 - - - - - -

WNU65 78007.14 473.4 0.05 12 - - - - - -

WNU63 76766.5 454.6 0.18 8 - - - - - -

WNU63 76768.2 - - - 22.2 0.26 -2 - - -

WNU63 76768.5 497.9 0.05 18 - - - 17.6 0.27 -2

WNU63 76768.9 473.4 0.20 12 - - - - - -

WNU63 76770.1 485.2 0.26 15 - - - - - -

WNU50 78114.2 531.3 L 26 - - - - - -

WNU50 78114.6 - - - 22.5 0.16 -1 - - -

WNU50 78130.2 482.0 L 14 22.5 0.16 -1 17.7 0.24 -1

WNU50 78130.8 472.4 0.14 12 - - - - - -

WNU19 76567.1 488.8 0.07 16 - - - - - -

WNU19 76568.2 464.4 0.16 10 - - - 17.2 0.12 -4

WNU19 76569.2 469.0 0.17 11 - - - - - -

WNU19 76570.3 - - - 22.2 0.26 -2 16.8 0.07 -6

WNU16 77166.4 605.1 0.01 43 21.8 L -4 17.4 L -3

WNU16 77167.1 457.0 0.14 8 - - - - - -

WNU16 77167.2 526.3 0.05 25 21.8 0.13 -4 17.2 0.20 -4

WNU16 77167.3 - - - 22.2 0.26 -2 17.3 0.28 -3

WNU16 77167.5 - - - 22.5 0.16 -1 16.6 L -7

WNU16 77169.1 504.6 0.02 19 22.0 0.11 -3 16.8 0.07 -6

WNU16 77169.2 - - - 22.0 0.11 -3 16.6 L -7

WNU16 77169.5 - - - - - - 17.1 0.13 -4

CONT. - 422.5 - - 22.7 - - 17.9 - -

Table 86: "CONT." - Control; "Ave." - Average; "% Incr." = % increment ; "p-val." - p- value; L means that p-value is less than 0.01, p<0.1 was considered as significant. The transgenes were under the transcriptional regulation of the new At6669 promoter (SEQ ID NO: 6918). It should be noted that a negative increment (in percentages) when found in flowering or inflorescence emergence indicates potential for drought avoidance. Table 87

Genes showing improved plant performance at Low N growth conditions under regulation of

At6669 promoter

Table 87. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant. The transgenes were under the transcriptional regulation of the new At6669 promoter (SEQ ID NO: 6918). Table 88

Genes showing improved plant performance at low Nitrogen growth conditions under regulation of At6669 promoter

RGR Of Leaf RGR Of Plot RGR Of Rosette

Gene Number Coverage Diameter

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU30 76572.4 - - - 10.1 0.20 11 0.437 0.29 5

WNU30 76574.1 - - - 10.2 0.20 11 0.446 0.15 7

WNU101 75778.4 0.732 0.24 9 9.99 0.28 9 0.452 0.09 9

WNU101 75780.1 - - - 10.2 0.20 11 0.464 0.04 12

CONT. - 0.671 - - 9.14 - - 0.415 - -

WNU85 76836.1 0.856 0.13 13 - - - - - -

WNU85 76836.2 - - - 12.7 0.23 12 0.508 0.29 9

WNU85 76837.7 - - - 12.6 0.24 12 0.515 0.22 11

WNU82 75809.3 - - - 12.6 0.27 11 0.511 0.25 10

WNU80 76404.3 0.829 0.27 9 13.2 0.10 17 - - -

WNU80 76405.5 - - - - - - 0.538 0.14 16

WNU68 76831.4 - - - - - - 0.513 0.24 10

WNU68 76833.7 - - - 13.8 0.03 22 0.538 0.07 16

WNU68 76835.2 - - - 12.5 0.30 10 0.511 0.25 10

WNU56 75801.10 - - - - - - 0.525 0.14 13

WNU56 75801.6 - - - - - - 0.511 0.26 10

WNU56 75803.9 0.825 0.30 9 - - - - - -

WNU56 75804.3 0.826 0.27 9 - - - - - -

CONT. - 0.757 - - 11.3 - - 0.465 - -

WNU77 78016.3 0.734 0.29 7 9.70 0.01 24 0.436 0.02 17

WNU77 78016.6 - - - 8.54 0.27 9 0.413 0.10 11

WNU77 78016.8 - - - 10.5 L 34 0.444 L 19

WNU77 78017.1 - - - 9.30 0.03 19 0.414 0.12 11

WNU77 78018.10 - - - 9.40 0.01 20 0.412 0.11 11

WNU65 78007.3 0.738 0.23 7 - - - - - -

WNU63 76766.5 - - - - - - 0.399 0.29 7

WNU63 76768.8 - - - - - - 0.407 0.20 9

WNU50 78114.5 - - - - - - 0.411 0.12 10

WNU50 78130.1 - - - - - - 0.406 0.19 9

WNU50 78130.2 - - - 8.81 0.17 13 - - -

WNU19 76568.2 - - - - - - 0.407 0.30 9

WNU19 76570.3 - - - 8.75 0.21 12 - - -

WNU16 77167.3 - - - 9.43 0.07 20 - - -

WNU16 77167.5 - - - 8.75 0.18 12 0.401 0.28 8

WNU16 77169.1 - - - 8.93 0.08 14 0.402 0.24 8

WNU16 77169.2 - - - 8.84 0.11 13 - - - RGR Of Leaf RGR Of Plot RGR Of Rosette

Gene Number Coverage Diameter

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

CONT. - 0.689 - - 7.83 - - 0.373 - -

Table 88. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01 p<0.1 was considered as significant. The transgenes were under the transcriptional regulation of the new At6669 promoter (SEQ ID NO: 6918). Table 89

Genes showing improved plant performance at low Nitrogen growth conditions under regulation of At6669 promoter

Rosette Diameter

Harvest Index Rosette Area [cm ² ]

Gene [cm]

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU30 76572.4 - - - 7.99 L 16 4.62 L 8

WNU30 76574.1 - - - 7.98 0.09 16 4.70 0.06 9

WNU30 76575.3 0.395 0.18 14 7.61 0.02 11 4.56 0.01 6

WNU101 75778.2 0.374 0.12 8 7.58 0.13 10 4.52 0.13 5

WNU101 75778.4 - - - 7.90 0.14 15 4.73 0.10 10

WNU101 75778.9 - - - 7.19 0.29 5 - - -

WNU101 75780.1 - - - 7.87 0.20 14 4.82 0.17 12

WNU101 75780.2 0.384 0.03 11 - - - - - -

CONT. - 0.347 - - 6.88 - - 4.29 - -

WNU85 76836.1 0.418 L 19 - - - - - -

WNU85 76836.2 0.375 0.07 6 11.1 0.19 11 5.50 0.03 9

WNU85 76837.2 0.399 0.08 13 - - - - - -

WNU85 76837.7 0.383 0.02 9 11.2 0.15 13 5.54 0.07 9

WNU85 76838.2 0.389 0.03 10 - - - - - -

WNU85 76839.1 0.394 0.14 12 - - - - - -

WNU85 76840.1 0.377 0.26 7 - - - - - -

WNU82 75806.2 - - - 10.6 0.24 6 5.35 0.19 6

WNU82 75806.3 0.378 0.02 7 - - - - - -

WNU82 75809.3 - - - 10.9 0.09 9 5.42 0.13 7

WNU82 75809.4 - - - 11.0 0.25 11 5.36 0.27 6

WNU80 76403.1 0.383 0.22 9 - - - - - -

WNU80 76403.8 0.377 0.04 7 - - - - - -

WNU80 76404.3 0.384 0.24 9 11.2 0.23 13 5.44 0.15 7

WNU80 76404.5 0.383 0.17 9 - - - - - -

WNU80 76405.5 - - - 11.0 0.05 11 5.53 0.08 9

WNU68 76831.2 - - - - - - 5.42 0.19 7

WNU68 76831.4 - - - 10.7 0.17 8 5.48 0.06 8

WNU68 76833.10 0.373 0.14 6 - - - - - -

WNU68 76833.7 0.387 0.29 10 12.1 0.04 22 5.73 0.02 13

WNU68 76835.2 - - - 10.9 0.06 10 5.46 0.02 8

WNU56 75801.10 - - - - - - 5.44 0.12 7

WNU56 75801.9 0.382 0.11 8 - - - - - -

WNU56 75803.7 - - - - - - 5.28 0.24 4 Rosette Diameter

Harvest Index Rosette Area [cm ² ]

Gene [cm]

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU56 75804.1 0.386 0.25 10 - - - - - -

CONT. - 0.352 - - 9.94 - - 5.07 - -

WNU77 78016.3 - - - 8.02 0.22 20 4.76 0.14 12

WNU77 78016.5 0.401 0.28 18 - - - - - -

WNU77 78016.6 - - - - - - 4.54 0.01 6

WNU77 78016.8 - - - 8.70 L 30 4.91 L 15

WNU77 78017.1 - - - 7.77 0.25 16 4.64 0.19 9

WNU77 78018.10 - - - 8.03 L 20 4.70 L 10

WNU77 78018.4 0.363 0.26 7 - - - - - -

WNU65 78006.8 - - - 7.14 0.05 7 4.44 0.04 4

WNU65 78007.11 0.370 0.13 9 - - - - - -

WNU63 76766.5 0.416 0.09 22 - - - - - -

WNU63 76766.7 0.384 L 13 - - - - - -

WNU63 76768.1 0.402 0.05 18 - - - - - -

WNU63 76768.2 0.397 0.20 17 - - - - - -

WNU50 78114.5 - - - 7.12 0.23 7 4.51 0.01 6

WNU50 78130.1 0.403 0.27 18 - - - - - -

WNU50 78130.4 0.359 0.28 5 - - - - - -

WNU50 78144.2 0.372 0.11 9 - - - - - -

WNU19 76567.1 0.394 0.24 16 - - - - - -

WNU19 76568.3 0.387 0.14 14 - - - - - -

WNU19 76569.3 0.403 L 18 - - - - - -

WNU16 77166.3 0.437 0.11 28 - - - - - -

WNU16 77166.4 - - - - - - 4.48 0.24 5

WNU16 77168.2 0.395 0.27 16 - - - - - -

WNU16 77169.1 - - - 7.79 L 17 4.66 L 9

WNU16 77169.2 0.423 L 24 7.72 L 16 4.56 L 7

CONT. - 0.340 - - 6.67 - - 4.27 - -

Table 89. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p- value; L means that p-value is less than 0.01, p<0.1 was considered as significant. The transgenes were under the transcriptional regulation of the new At6669 promoter (SEQ ID NO: 6918).

Table 90

Genes showing improved plant performance at low Nitrogen growth conditions under regulation of At6669 promoter

Seed Yield [mg] 1000 Seed Weight [mg]

Gene Name Event #

Ave. P-Val. % Incr. Ave. P-Val. % Incr.

WNU30 76572.1 140.7 0.19 11 - - -

WNU30 76575.3 140.0 0.19 11 - - -

WNU101 75780.2 137.6 0.17 9 - - -

CONT. - 126.5 - - 19.9 - -

WNU85 76836.2 141.1 0.29 7 - - -

WNU85 76837.2 154.8 0.09 17 - - -

WNU85 76838.1 - - - 23.2 0.04 15 Seed Yield [mg] 1000 Seed Weight [mg]

Gene Name Event #

Ave. P-Val. % Incr. Ave. P-Val. % Incr.

WNU85 76840.5 - - - 23.7 0.17 18

WNU82 75806.3 147.8 0.13 12 - - -

WNU82 75806.4 - - - 22.2 L 11

WNU82 75807.5 155.9 0.03 18 - - -

WNU80 76403.1 144.0 0.22 9 - - -

WNU80 76403.2 - - - 21.8 0.07 8

WNU80 76403.8 149.8 0.02 14 - - -

WNU80 76404.3 148.9 0.12 13 - - -

WNU80 76404.5 141.9 0.20 8 - - -

WNU80 76405.6 - - - 22.3 0.24 11

WNU68 76831.2 146.2 0.19 11 - - -

WNU68 76831.4 145.6 0.20 10 - - -

WNU68 76832.3 - - - 22.6 0.16 13

WNU68 76833.7 146.7 0.14 11 - - -

WNU68 76834.1 141.6 0.25 7 - - -

WNU68 76834.3 - - - 20.8 0.21 4

WNU68 76835.2 151.0 0.22 15 - - -

WNU56 75801.10 145.6 0.21 10 - - -

WNU56 75801.6 147.1 0.07 12 - - -

WNU56 75801.8 151.3 0.26 15 - - -

WNU56 75801.9 146.8 0.21 11 - - -

WNU56 75803.7 - - - 22.2 0.20 11

WNU56 75804.1 147.2 0.12 12 - - -

CONT. - 131.8 - - 20.1 - -

WNU77 78016.1 182.5 L 27 - - -

WNU77 78016.3 163.6 0.03 14 - - -

WNU77 78016.5 175.8 0.29 22 - - -

WNU77 78016.6 174.1 0.25 21 - - -

WNU77 78016.8 - - - 21.5 0.08 7

WNU77 78016.9 - - - 25.2 0.06 26

WNU77 78017.1 168.2 0.02 17 - - -

WNU77 78018.10 - - - 21.9 L 9

WNU65 78006.4 168.9 0.29 17 - - -

WNU65 78006.6 - - - 21.6 0.07 8

WNU65 78006.7 - - - 21.8 0.17 9

WNU65 78007.11 174.2 0.07 21 - - -

WNU63 76766.5 188.8 0.02 31 - - -

WNU63 76766.7 165.0 0.28 15 - - -

WNU63 76768.5 - - - 21.8 0.06 9

WNU63 76768.8 176.6 L 23 - - -

WNU63 76770.1 185.3 0.21 29 - - -

WNU50 78114.2 - - - 22.0 0.07 10

WNU50 78114.6 - - - 21.5 L 8

WNU50 78130.1 169.3 0.19 18 - - -

WNU50 78130.2 - - - 21.0 0.22 5

WNU50 78130.8 156.7 0.14 9 - - -

WNU50 78144.2 155.1 0.29 8 - - -

WNU19 76567.1 191.5 0.02 33 - - -

WNU19 76568.2 - - - 22.2 0.01 11 Seed Yield [mg] 1000 Seed Weight [mg]

Gene Name Event #

Ave. P-Val. % Incr. Ave. P-Val. % Incr.

WNU19 76568.3 176.1 0.24 22 - - -

WNU19 76569.2 - - - 23.0 L 15

WNU19 76569.3 154.4 0.25 1 - - -

WNU19 76569.4 - - - 20.1 0.20 1

WNU19 76570.3 - - - 21.8 0.09 9

WNU16 77166.3 175.5 0.12 22 - - -

WNU16 77166.4 - - - 23.0 0.03 15

WNU16 77167.1 182.0 0.20 21 - - -

WNU16 77167.2 - - - 22.7 0.12 14

WNU16 77167.3 - - - 22.1 0.03 11

WNU16 77167.5 - - - 20.3 0.10 1

WNU16 77169.1 - - - 22.3 0.23 12

WNU16 77169.2 179.7 0.19 25 - - -

CONT. - 143.8 - - 20.0 - -

Table 90. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p- value; L means that p-value is less than 0.01, p<0.1 was considered as significant. The transgenes were under the transcriptional regulation of the new At6669 promoter (SEQ ID NO: 6918).

Table 91

Genes showing improved plant performance at Normal growth conditions under regulation of At6669 promoter

Inflorescence

Dry Weight [mg] Flowering

Gene Emergence

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU30 76575.1 - - - 16.8 0.15 -3 12.3 0.02 -6

WNU101 75778.8 721.7 0.10 9 - - - - - -

CONT. - 659.7 - - 17.4 - - 13.1 - -

WNU85 76838.1 - - - - - - 13.3 0.22 -4

WNU85 76840.5 860.4 0.09 13 - - - - - -

WNU68 76831.4 799.2 0.25 5 - - - - - -

WNU68 76833.10 807.0 0.29 6 - - - - - -

WNU56 75801.8 - - - 17.3 0.08 -7 12.8 L -7

WNU56 75803.7 - - - 17.9 L -3 - - -

WNU56 75804.1 - - - 18.0 0.16 -3 - - -

CONT. - 758.9 - - 18.5 - - 13.8 - -

WNU77 78016.8 854.2 0.05 5 22.6 0.03 -3 17.3 0.20 -4

WNU77 78016.9 1234.4 L 52 - - - 17.3 0.27 -3

WNU77 78018.10 897.9 0.01 11 - - - 17.3 0.24 -4

WNU65 78006.6 884.9 0.23 9 - - - - - -

WNU65 78006.7 985.7 0.03 21 - - - - - -

WNU65 78006.8 - - - - - - 17.0 0.04 -5

WNU63 76768.2 - - - 22.6 0.03 -3 16.8 0.02 -7

WNU63 76768.8 - - - 22.6 0.04 -3 16.6 L -8

WNU50 78114.2 937.1 L 15 - - - - - -

WNU50 78114.6 873.8 0.04 8 - - - - - -

WNU50 78130.2 911.7 0.27 12 - - - - - - Inflorescence

Dry Weight [mg] Flowering

Gene Emergence

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU19 76567.1 - - - 22.8 0.30 -2 - - -

WNU19 76568.2 - - - 21.8 L -6 16.8 0.06 -6

WNU19 76569.2 - - - 22.8 0.30 -2 17.5 0.02 -2

WNU19 76569.3 - - - 22.5 L -3 17.4 0.03 -3

WNU19 76569.4 866.1 0.22 1 - - - - - -

WNU19 76570.3 935.2 0.05 15 - - - 17.0 0.05 -5

WNU19 76570.7 - - - 22.6 0.03 -3 17.6 0.23 -2

WNU16 77166.4 1104.9 0.05 36 22.1 0.07 -5 16.7 L -7

WNU16 77167.2 939.5 0.04 16 22.0 L -5 16.1 0.02 -10

WNU16 77167.3 942.6 0.01 16 22.6 0.04 -3 17.2 0.10 -4

WNU16 77169.1 904.9 0.18 12 - - - 17.3 0.15 -3

WNU16 77169.2 863.9 0.21 6 22.2 0.04 -5 16.5 L -8

WNU16 77169.5 - - - 22.5 0.15 -3 - - -

CONT. - 811.5 - - 23.3 - - 17.9 - -

Table 91. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p- value; L means that p-value is less than 0.01, p<0.1 was considered as significant. The transgenes were under the transcriptional regulation of the new At6669 promoter (SEQ ID NO: 6918).

Table 92

Genes showing improved plant performance at Normal growth conditions under regulation of At6669 promoter

Leaf Blade Area

Leaf Number Plot Coverage [cm ² ]

Gene [cm ² ]

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU30 76572.1 1.15 0.22 1 - - - - - -

WNU30 76575.1 1.20 0.05 12 - - - 67.5 0.06 10

WNU30 76575.3 1.19 0.27 10 - - - - - -

WNU101 75778.5 1.18 0.08 10 - - - - - -

WNU101 75778.8 - - - 10.2 0.24 3 - - -

WNU101 75780.1 - - - 10.2 0.21 3 - - -

CONT. - 1.07 - - 9.91 - - 61.1 - -

WNU85 76836.1 1.62 0.02 13 11.7 0.29 4 98.4 0.04 16

WNU85 76836.2 1.57 0.06 10 11.9 0.15 6 94.5 0.04 11

WNU85 76840.5 1.57 0.10 10 - - - 93.3 0.08 10

WNU82 75806.4 1.57 0.21 10 - - - - - -

WNU82 75807.6 - - - 11.8 0.23 4 - - -

WNU82 75809.4 - - - 11.7 0.12 3 - - -

WNU80 76404.3 1.50 0.29 5 - - - - - -

WNU68 76833.7 1.55 0.10 8 - - - 91.8 0.23 8

WNU56 75801.10 1.57 0.05 10 - - - - - -

WNU56 75801.9 1.56 0.16 9 - - - 90.5 0.27 7 Leaf Blade Area

Leaf Number Plot Coverage [cm ² ]

Gene [cm ² ]

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU56 75803.7 1.57 0.12 9 - - - 94.2 0.08 11

WNU56 75804.1 1.59 0.06 11 - - - 92.0 0.27 9

CONT. - 1.43 - - 11.3 - - 84.8 - -

WNU77 78016.8 1.17 0.20 16 10.3 0.28 4 66.2 0.28 16

WNU63 76768.5 - - - 10.4 0.25 5 - - -

WNU63 76768.8 1.12 0.20 11 10.2 0.25 4 69.0 0.10 20

WNU19 76568.2 1.10 0.06 9 - - - 63.3 0.10 11

WNU19 76569.2 - - - 10.1 0.21 2 - - -

WNU19 76570.3 1.10 0.24 9 10.4 L 5 65.2 0.02 14

WNU19 76570.7 - - - 10.5 0.02 6 - - -

WNU16 77167.2 - - - 10.7 0.19 8 67.0 0.22 17

WNU16 77169.2 - - - 10.9 0.05 10 68.1 0.22 19

CONT. - 1.01 - - 9.89 - - 57.2 - -

Table 92. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant. The transgenes were under the transcriptional regulation of the new At6669 promoter (SEQ ID NO:6918).

Table 93

Genes showing improved plant performance at Normal growth conditions under regulation

RGR Of Leaf RGR Of Plot RGR Of Rosette

Gene Number Coverage [cm ² /day] Diameter [cm/day]

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU101 75780.1 - - - - - - 0.520 0.22 1

CONT. - 0.681 - - 11.1 - - 0.485 - -

WNU85 76836.1 - - - 14.7 0.19 13 0.594 0.26 9

CONT. - - - - 13.0 - - 0.543 - -

WNU77 78016.8 - - - 9.76 0.20 14 - - -

WNU77 78018.10 - - - 9.99 0.19 17 - - -

WNU77 78018.9 0.735 0.17 12 - - - - - -

WNU65 78006.8 - - - 10.1 0.14 18 - - -

WNU63 76768.5 0.723 0.27 10 - - - - - -

WNU63 76768.8 - - - 10.1 0.10 18 0.460 0.14 12

WNU19 76568.2 - - - 9.63 0.23 13 - - -

WNU19 76570.3 - - - 9.54 0.27 12 - - -

WNU19 76570.7 0.733 0.19 12 - - - - - -

WNU16 77167.2 0.730 0.20 11 9.82 0.18 15 - - -

WNU16 77167.5 0.729 0.21 11 - - - - - -

WNU16 77169.2 0.726 0.24 11 9.83 0.18 15 - - -

CONT. - 0.656 - - 8.54 - - 0.410 - - Table 93. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant. The transgenes were under the transcriptional regulation of the new At6669 promoter (SEQ ID NO: 6918).

Table 94

Genes showing improved plant performance at Normal growth conditions under regulation of At6669 promoter

Table 94. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p- value; L means that p-value is less than 0.01, p<0.1 was considered as significant. The transgenes were under the transcriptional regulation of the new At6669 promoter (SEQ ID NO: 6918).

Table 95

Genes showing improved plant performance at Normal growth conditions under regulation of At6669 promoter

Seed Yield [mg] 1000 Seed Weight [mg]

Gene Name Event #

Ave. P-Val. % Incr. Ave. P-Val. % Incr.

WNU30 76572.5 328.7 0.16 17 - - -

WNU30 76574.1 293.5 0.07 4 - - -

WNU30 76574.2 293.4 0.30 4 - - -

WNU101 75777.3 304.4 L 8 21.2 0.16 2

WNU101 75778.2 - - - 22.7 L 9

WNU101 75778.3 301.2 0.18 7 - - -

CONT. - 281.3 - - 20.8 - -

WNU85 76840.1 - - - 20.1 0.13 3

WNU85 76840.5 317.6 L 12 21.8 0.11 11

WNU82 75806.4 - - - 23.9 0.03 22

WNU82 75807.5 - - - 20.3 0.09 4

WNU82 75807.6 - - - 21.9 L 12

WNU82 75808.6 - - - 20.5 0.13 5

WNU82 75809.3 - - - 21.5 0.03 10

WNU80 76403.2 - - - 24.0 L 23

WNU80 76404.3 - - - 20.2 0.25 3

WNU80 76405.6 - - - 23.6 0.02 21

WNU68 76831.4 319.2 L 12 - - -

WNU68 76832.1 - - - 20.8 0.26 6

WNU68 76832.3 - - - 22.7 0.08 16

WNU68 76833.10 320.8 0.04 13 - - -

WNU56 75801.1 - - - 20.9 0.08 7

WNU56 75803.7 - - - 21.7 0.17 11

CONT. - 284.7 - - 19.6 - -

WNU77 78016.8 - - - 23.3 0.07 11

WNU77 78016.9 - - - 29.4 0.03 40

WNU77 78018.10 - - - 24.3 0.11 15

WNU65 78006.6 - - - 23.4 0.05 11

WNU65 78006.7 - - - 23.4 0.20 11

WNU65 78007.1 - - - 22.3 0.09 6

WNU63 76766.5 378.4 0.11 4 - - -

WNU63 76768.5 - - - 23.9 0.02 14

WNU50 78114.2 - - - 22.8 0.19 8

WNU50 78114.5 384.5 0.02 5 - - -

WNU50 78114.6 - - - 24.6 0.04 17

WNU50 78130.2 - - - 23.3 0.07 10

WNU19 76568.1 397.5 0.04 9 - - -

WNU19 76568.2 - - - 23.0 0.08 9

WNU19 76569.2 - - - 22.6 0.15 7 Seed Yield [mg] 1000 Seed Weight [mg]

Gene Name Event #

Ave. P-Val. % Incr. Ave. P-Val. % Incr.

WNU19 76569.3 - - - 21.6 0.02 3

WNU19 76569.4 403.2 0.11 10 21.7 0.28 3

WNU19 76570.3 - - - 23.9 0.02 14

WNU16 77166.4 - - - 26.6 0.01 26

WNU16 77167.2 - - - 23.6 0.14 12

WNU16 77167.3 - - - 24.4 0.08 16

WNU16 77169.1 - - - 24.0 0.08 14

WNU16 77169.2 397.4 0.11 9 21.8 0.19 4

CONT. - 364.9 - - 21.1 - -

Table 95. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p- value; L means that p-value is less than 0.01, p<0.1 was considered as significant. The transgenes were under the transcriptional regulation of the new At6669 promoter (SEQ ID NO: 6918).

EXAMPLE 20

EVALUATION OF TRANSGENIC ARABIDOPSIS NUE, YIELD AND PLANT GROWTH RATE UNDER LOW OR NORMAL NITROGEN FERTILIZATION IN

GREENHOUSE ASSA Y

Assay 2: Nitrogen Use efficiency measured until bolting stage: plant biomass and plant growth rate at limited and optimal nitrogen concentration under greenhouse conditions - This assay follows the plant biomass formation and the rosette area growth of plants grown in the greenhouse at limiting and non-limiting nitrogen growth conditions. Transgenic Arabidopsis seeds were sown in agar media supplemented with ½ MS medium and a selection agent (Kanamycin). The T ₂ transgenic seedlings were then transplanted to 1.7 trays filled with peat and perlite in a 1 : 1 ratio. The trays were irrigated with a solution containing nitrogen limiting conditions, which were achieved by irrigating the plants with a solution containing 1.5 mM inorganic nitrogen in the form of KN0 ₃ , supplemented with 1 mM KH ₂ P0 ₄ , 1 mM MgS0 _4i 3.6 mM KC1, 2 mM CaCl ₂ and microelements, while normal nitrogen levels were achieved by applying a solution of 6 mM inorganic nitrogen also in the form of KNO ₃ with 1 mM KH ₂ P0 ₄ , 1 mM MgS0 _4, 2 mM CaCl ₂ and microelements. All plants were grown in the greenhouse until bolting. Plant biomass (the above ground tissue) was weighted in directly after harvesting the rosette (plant fresh weight [FW]). Following plants were dried in an oven at 50 °C for 48 hours and weighted (plant dry weight [DW]). Each construct was validated at its T ₂ generation. Transgenic plants transformed with a construct conformed by an empty vector carrying the At6669 promoter and the selectable marker was used as control.

The plants were analyzed for their overall size, growth rate, fresh weight and dry matter. Transgenic plants performance was compared to control plants grown in parallel under the same conditions. Mock- transgenic plants expressing the uidA reporter gene (GUS-Intron) or with no gene at all, under the same promoter were used as control.

The experiment was planned in nested randomized plot distribution. For each gene of the invention three to five independent transformation events were analyzed from each construct.

Digital imaging - A laboratory image acquisition system, which consists of a digital reflex camera (Canon EOS 300D) attached with a 55 mm focal length lens (Canon EF-S series), mounted on a reproduction device (Kaiser RS), which includes 4 light units (4 x 150 Watts light bulb) was used for capturing images of plant samples.

The image capturing process was repeated every 2 days starting from day 1 after transplanting till day 15. Same camera, placed in a custom made iron mount, was used for capturing images of larger plants sawn in white tubs in an environmental controlled greenhouse. The tubs were square shape include 1.7 liter trays. During the capture process, the tubes were placed beneath the iron mount, while avoiding direct sun light and casting of shadows.

An image analysis system was used, which consists of a personal desktop computer (Intel P4 3.0 GHz processor) and a public domain program - ImageJ 1.39 [Java based image processing program which is developed at the U.S. National Institutes of Health and freely available on the internet at rsbweb (dot) nih (dot) gov/] . Images were captured in resolution of 10 Mega Pixels (3888 x 2592 pixels) and stored in a low compression JPEG (Joint Photographic Experts Group standard) format. Next, analyzed data was saved to text files and processed using the JMP statistical analysis software (SAS institute).

Leaf analysis - Using the digital analysis leaves data was calculated, including leaf number, rosette area, rosette diameter, and leaf blade area. Vegetative growth rate: the relative growth rate (RGR) of leaf number (Formula VIII, described above), rosette area (Formula IX described above) and plot coverage (Formula XI, described above) was calculated using the indicated formulas.

Plant Fresh and Dry weight - On about day 80 from sowing, the plants were harvested and directly weighted for the determination of the plant fresh weight (FW) and left to dry at 50 °C in a drying chamber for about 48 hours before weighting to determine plant dry weight (DW).

Statistical analyses - To identify genes conferring significantly improved tolerance to abiotic stresses and improved nitrogen use efficiency, the results obtained from the transgenic plants were compared to those obtained from control plants when grown under identical growth conditions. To identify outperforming genes and constructs, results from the independent transformation events tested were analyzed separately. Data was analyzed using Student's t-test and results were considered significant if the p value was less than 0.1. The JMP statistics software package was used (Version 5.2.1, SAS Institute Inc., Cary, NC, USA).

The genes listed in Tables 96-97 improved plant NUE when grown at limiting nitrogen concentration levels. These genes produced larger plants with a larger photosynthetic area, biomass (fresh weight, dry weight, leaf number, rosette diameter, rosette area and plot coverage) when grown under limiting nitrogen conditions (nutrient deficiency stress) as compared to control plants grown under identical growth conditions.

Table 96

Genes showing improved plant biomass production at limiting nitrogen growth conditions

Dry Weight [mg] Fresh Weight [mg] Leaf Number

Gene %

Event # P- % P- % P- Name Ave. Ave. Ave. Incr

Val. Incr. Val. Incr. Val.

WNU78 76661.4 - - - - - - 11.0 0.11 8

WNU78 76662.2 - - - - - - 11.2 L 10

WNU74 77576.6 - - - - - - 10.8 0.19 6

WNU74 77578.4 164.6 0.21 20 1112.5 0.10 18 - - -

WNU74 77579.5 178.8 0.18 30 1270.8 0.08 34 11.0 0.02 8

WNU67 79473.3 182.5 0.26 33 1166.7 0.28 23 - - -

WNU67 79473.4 - - - - - - 10.8 0.12 6

WNU32 76576.4 - - - - - - 11.4 0.02 12 Dry Weight [mg] Fresh Weight [mg] Leaf Number

Gene %

Event # P- % P- % P- Name Ave. Ave. Ave. Incr

Val. Incr. Val. Incr. Val.

WNU32 76576.5 - - - 1116.7 0.02 18 - - -

WNU32 76578.1 - - - - - - 11.2 0.07 10

WNU32 76578.3 171.1 0.13 25 1202.4 L 27 10.8 0.19 6

WNU32 76578.5 - - - - - - 10.8 L 7

WNU32 76580.2 - - - 1125.0 0.19 19 - - -

WNU32 76580.6 210.0 0.22 53 1383.3 0.09 46 - - -

WNU25 76624.8 252.5 0.26 84 1500.0 0.26 59 - - -

WNU25 78806.8 - - - 1125.0 0.23 19 - - -

WNU25 78808.4 - - - 1097.6 0.21 16 - - -

CONT. - 137.0 - - 946.3 - - 10.2 - -

WNU75 76657.4 - - - 1757.1 0.09 12 - - -

WNU75 76657.5 177.6 0.04 13 1764.3 L 13 - - -

WNU75 76658.4 - - - 1690.5 0.20 8 - - -

WNU75 76659.5 - - - 1735.7 0.02 11 - - -

WNU54 76641.1 169.2 0.18 7 - - - - - -

WNU54 76643.5 166.5 0.25 6 - - - - - -

WNU54 76645.5 - - - - - - 9.52 0.23 3

WNU44 76636.1 - - - 1695.8 0.29 8 - - -

WNU29 76628.4 167.1 0.28 6 1908.3 0.01 22 - - -

WNU29 76628.9 - - - 1691.7 0.21 8 - - -

WNU29 76629.1 - - - 1712.5 0.05 9 - - -

WNU29 76630.2 - - - 1720.8 0.16 10 - - -

WNU18 76563.3 - - - - - - 9.62 0.12 4

WNU18 76563.5 - - - 1701.0 0.07 9 - - -

WNU18 76564.2 170.0 0.24 8 1758.3 0.08 12 - - -

WNU18 76565.6 - - - - - - 9.50 0.27 3

WNU104 76618.3 - - - 1658.3 0.22 6 - - -

WNU104 76619.6 163.8 0.26 4 - - - - - -

WNU104 76620.5 171.0 0.19 9 1898.2 0.13 21 - - -

WNU104 76620.7 187.9 0.12 19 1750.0 0.20 12 - - -

CONT. - 157.6 - - 1564.3 - - 9.23 - -

WNU87 76667.1 - - - 1583.3 0.13 7 - - -

WNU87 76667.3 - - - 1750.0 0.08 18 10.1 0.10 6

WNU87 76670.3 - - - 1537.5 0.26 4 - - -

WNU73 76653.1 - - - - - - 10.0 0.29 5

WNU73 76654.1 - - - 1708.3 0.27 15 - - -

WNU58 76761.5 - - - - - - 9.88 0.27 3

WNU58 76762.2 - - - 1570.8 0.13 6 - - -

WNU58 76764.2 - - - 1629.2 0.07 10 10.1 0.06 6

WNU39 77171.4 - - - 1583.3 0.20 7 - - - Dry Weight [mg] Fresh Weight [mg] Leaf Number

Gene %

Event # P- % P- % P- Name Ave. Ave. Ave. Incr

Val. Incr. Val. Incr. Val.

WNU39 77171.5 - - - 1583.3 0.24 1 - - -

CONT. - 133.9 - - 1481.7 - - 9.54 - -

WNU99 77099.2 - - - - - - 10.1 0.04 5

WNU97 77181.6 - - - 143.8 0.25 20 - - -

WNU83 75821.7 - - - 150.0 0.14 25 10.4 L 8

WNU83 75821.8 - - - - - - 9.81 0.24 3

WNU83 75823.9 - - - - - - 9.88 0.22 3

WNU61 78014.2 - - - - - - 10.1 0.19 6

WNU61 78015.10 - - - 143.8 0.25 20 - - -

WNU6 76542.5 - - - 156.2 0.25 31 - - -

WNU5 76045.4 - - - 143.8 0.25 20 - - -

WNU43 77267.2 - - - - - - 9.81 0.24 3

WNU42 76599.4 - - - - - - 10.1 0.14 5

WNU35 75794.1 - - - - - - 9.88 0.14 3

WNU35 75794.3 - - - - - - 10.1 0.05 6

WNU34 76588.6 - - - - - - 10.1 0.05 6

WNU31 75786.3 - - - - - - 10.2 0.09 7

WNU31 75789.5 - - - 168.8 0.03 41 10.2 0.01 7

WNU11 76398.1 - - - - - - 10.1 0.14 5

WNU105 77261.2 - - - - - - 10.1 0.02 6

WNU105 77262.1 - - - - - - 10.0 0.10 5

WNU102 76549.8 - - - - - - 9.94 0.24 4

CONT. - - - - 119.6 - - 9.56 - -

WNU28 76826.1 205.4 L 13 1804.2 0.17 10 10.0 0.23 1

WNU28 76829.3 - - - - - - 10.3 0.28 4

WNU21 75781.10 - - - - - - 10.3 0.27 4

WNU21 75781.6 - - - 1762.5 0.19 7 10.3 L 4

WNU21 75781.8 - - - - - - 10.3 0.16 4

WNU21 75784.7 195.8 0.26 7 - - - - - -

WNU13 78921.4 200.4 0.10 10 1879.2 0.22 14 10.4 0.20 6

WNU13 78923.6 190.8 0.24 5 - - - - - -

WNU13 78923.8 - - - 1766.7 0.11 7 - - -

WNU13 78924.3 200.4 0.30 10 - - - 10.6 0.04 8

WNU13 78925.8 - - - - - - 10.2 0.09 4

CONT. - 182.3 - - 1645.4 - - 9.86 - -

WNU66 77753.1 212.3 L 21 1867.9 0.15 36 - - -

WNU66 77753.4 - - - 1546.4 0.05 13 - - -

WNU66 77754.10 - - - 1537.5 0.25 12 - - -

WNU66 77754.2 - - - 1500.0 0.15 9 - - -

WNU66 77754.4 192.5 0.15 10 1550.0 0.06 13 - - - Dry Weight [mg] Fresh Weight [mg] Leaf Number

Gene %

Event # P- % P- % P- Name Ave. Ave. Ave. Incr

Val. Incr. Val. Incr. Val.

WNU60 78877.12 190.0 0.07 9 1504.2 0.10 10 - - -

WNU60 78877.7 - - - 1465.7 0.29 7 - - -

WNU60 78877.8 194.2 0.21 11 1612.5 0.09 18 - - -

WNU60 78877.9 - - - 1504.2 0.19 10 - - -

WNU60 78878.10 200.8 0.09 15 1679.2 0.04 22 - - -

WNU60 78878.9 - - - 1501.8 0.15 10 - - -

WNU47 77176.3 - - - 1728.6 0.07 26 - - -

WNU47 77177.2 200.0 0.08 14 1608.3 L 17 - - -

WNU47 77178.5 188.3 0.15 8 1529.2 0.17 12 - - -

WNU47 77178.8 185.4 0.19 6 1454.2 0.30 6 - - -

WNU47 77178.9 201.2 0.03 15 1666.7 L 22 - - -

WNU47 77180.2 - - - 1612.5 0.03 18 - - -

WNU47 77180.5 - - - 1474.4 0.21 8 - - -

WNU33 76581.3 200.4 0.11 15 1654.2 0.06 21 - - -

WNU33 76581.5 - - - 1591.7 0.25 16 - - -

WNU33 76582.1 - - - 1614.9 0.02 18 - - -

WNU33 76584.1 199.3 0.18 14 1522.6 0.07 11 - - -

WNU33 76584.3 - - - 1795.8 0.10 31 - - -

WNU33 76584.4 188.7 0.15 8 1575.6 0.02 15 - - -

WNU33 76585.4 193.5 0.16 11 1541.1 0.05 12 - - -

WNU27 77747.3 - - - 1500.0 0.13 9 - - -

WNU27 77747.4 - - - 1541.7 0.22 12 - - -

WNU27 77747.5 - - - 1497.6 0.27 9 - - -

WNU27 77748.2 - - - - - - 10.5 0.16 6

WNU27 77750.1 196.0 0.10 12 1535.7 0.15 12 - - -

WNU27 77750.3 196.7 0.08 13 1583.3 0.15 15 - - -

WNU26 76673.10 211.2 0.04 21 1712.5 L 25 - - -

WNU26 76673.2 197.1 0.15 13 1716.7 0.03 25 - - -

WNU26 76673.4 - - - 1511.9 0.29 10 - - -

WNU26 76673.9 - - - 1529.2 0.12 12 - - -

WNU26 76674.1 - - - 1486.9 0.14 8 - - -

WNU26 76675.4 - - - 1533.3 0.07 12 - - -

CONT. - 174.8 - - 1371.0 - - 9.84 - -

WNU92 77124.5 99.2 0.08 17 823.8 0.25 15 10.5 0.12 8

WNU92 77125.3 - - - 854.2 0.17 19 - - -

WNU72 77086.3 110.0 L 29 966.7 0.01 35 - - -

WNU72 77088.5 96.2 0.16 13 831.5 0.19 16 - - -

WNU72 77090.2 100.1 0.29 18 878.6 0.08 23 - - -

WNU57 76647.1 116.7 0.23 37 1014.3 0.22 42 - - -

WNU57 76649.5 97.2 0.12 14 869.0 0.08 21 - - - Dry Weight [mg] Fresh Weight [mg] Leaf Number

Gene %

Event # P- % P- % P- Name Ave. Ave. Ave. Incr

Val. Incr. Val. Incr. Val.

WNU57 76649.6 105.5 0.13 24 919.0 0.08 28 - - -

WNU57 76650.2 - - - - - - 10.1 0.21 4

WNU52 76605.3 98.0 0.09 15 - - - - - -

WNU3 76633.10 - - - - - - 10.2 0.28 5

WNU3 76633.12 - - - - - - 10.0 0.21 2

WNU3 76633.13 - - - 825.0 0.16 15 - - -

WNU3 76633.8 105.0 0.03 23 1000.0 0.08 40 - - -

WNU3 76635.1 111.2 0.12 31 991.7 0.15 39 - - -

WNU15 76552.7 103.0 0.18 21 946.0 0.01 32 - - -

CONT. - 85.1 - - 715.6 - - 9.77 - -

Table 96. "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant Table 97

Genes showing improved plant biomass production at limiting nitrogen growth conditions

Rosette Diameter

Plot Coverage [cm ² ] Rosette Area [cm ² ]

Gene [cm]

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU78 76661.4 91.8 L 44 11.5 L 44 5.77 L 19

WNU78 76662.2 82.7 L 30 10.3 L 30 5.49 L 14

WNU78 76665.5 - - - - - - 5.10 0.01 6

WNU78 76665.6 73.7 0.11 16 9.21 0.11 16 - - -

WNU74 77576.1 70.7 0.04 11 8.84 0.04 11 5.25 0.02 9

WNU74 77576.2 67.0 0.21 5 8.38 0.21 5 5.02 0.04 4

WNU74 77576.6 74.3 0.01 16 9.29 0.01 16 5.29 L 9

WNU74 77576.8 - - - - - - 5.08 0.15 5

WNU74 77579.5 70.9 0.22 11 8.87 0.22 11 5.16 0.20 7

WNU71 77656.1 70.6 0.18 11 8.82 0.18 11 5.24 0.04 8

WNU67 79413.2 - - - - - - 5.18 0.21 7

WNU67 79413.5 - - - - - - 5.01 0.16 4

WNU67 79472.2 - - - - - - 4.95 0.25 2

WNU67 79473.4 79.9 L 25 9.99 L 25 5.39 L 11

WNU32 76576.2 72.4 0.26 13 9.05 0.26 13 5.10 0.27 5

WNU32 76576.4 93.1 L 46 11.6 L 46 5.76 L 19

WNU32 76576.5 71.4 L 12 8.92 L 12 5.22 0.05 8

WNU32 76578.1 85.1 L 33 10.6 L 33 5.59 L 16

WNU32 76578.3 74.0 0.17 16 9.25 0.17 16 5.09 0.17 5

WNU32 76578.5 76.6 L 20 9.58 L 20 5.33 L 10 Rosette Diameter

Plot Coverage [cm ² ] Rosette Area [cm ² ]

Gene [cm]

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU32 76580.2 70.8 0.01 11 8.85 0.01 11 5.17 0.03 1

WNU32 76580.6 76.5 L 20 9.56 L 20 5.18 L 1

CONT. - 63.8 - - 7.97 - - 4.83 - -

WNU75 76657.6 40.6 0.19 10 5.07 0.23 9 3.98 0.14 6

WNU75 76658.3 40.9 0.16 11 5.11 0.19 10 4.00 0.13 7

WNU54 76645.5 - - - 5.18 0.30 11 4.06 0.18 8

WNU18 76565.5 46.3 0.10 25 5.78 0.11 24 4.24 0.12 13

CONT. - 37.0 - - 4.66 - - 3.75 - -

WNU87 76667.1 61.5 0.17 7 7.69 0.17 7 4.88 0.02 7

WNU87 76667.3 67.3 0.23 17 8.41 0.23 17 4.86 0.28 6

WNU87 76670.3 61.9 0.16 7 7.74 0.16 7 4.78 0.10 4

WNU39 77171.5 63.1 0.09 9 7.88 0.09 9 4.78 0.28 4

WNU2 77867.3 65.4 0.20 13 8.18 0.20 13 - - -

WNU2 77869.1 - - - - - - 4.87 0.23 6

WNU2 77869.3 61.6 0.20 7 7.70 0.20 7 4.77 0.11 4

CONT. - 57.7 - - 7.22 - - 4.58 - -

WNU99 77097.4 36.9 0.06 10 4.62 0.06 10 4.05 0.05 6

WNU99 77098.4 - - - - - - 4.05 0.07 6

WNU99 77099.4 38.4 0.28 14 4.80 0.28 14 - - -

WNU98 77463.13 - - - - - - 4.15 0.01 9

WNU98 77465.1 38.1 0.02 13 4.76 0.02 13 4.09 0.03 7

WNU98 77465.3 37.5 0.06 12 4.69 0.06 12 4.30 L 12

WNU97 77181.6 40.7 L 21 5.09 L 21 4.28 0.08 12

WNU94 78108.5 - - - - - - 3.95 0.21 3

WNU91 76211.3 - - - - - - 3.94 0.25 3

WNU83 75821.7 44.7 L 33 5.58 L 33 4.50 L 18

WNU83 75821.8 37.4 0.06 11 4.67 0.06 11 4.08 0.04 7

WNU83 75823.9 - - - - - - 4.00 0.11 5

WNU61 78014.1 37.7 0.20 12 4.71 0.20 12 4.17 0.01 9

WNU61 78014.2 38.5 0.03 14 4.81 0.03 14 4.12 0.14 8

WNU6 76542.5 38.9 0.01 16 4.86 0.01 16 4.15 0.04 9

WNU6 76544.8 36.3 0.28 8 4.54 0.28 8 4.00 0.11 5

WNU55 77631.1 - - - - - - 4.02 0.24 5

WNU51 79018.4 - - - - - - 4.04 0.07 6

WNU51 79020.6 - - - - - - 3.99 0.21 4

WNU5 76045.4 36.4 0.24 8 4.55 0.24 8 - - -

WNU46 77024.6 36.2 0.17 8 4.52 0.17 8 3.98 0.21 4

WNU43 77267.2 36.0 0.19 7 4.50 0.19 7 - - -

WNU42 76598.1 37.6 0.06 12 4.70 0.06 12 4.05 0.08 6

WNU42 76599.4 41.4 L 23 5.17 L 23 4.23 L 11 Rosette Diameter

Plot Coverage [cm ² ] Rosette Area [cm ² ]

Gene [cm]

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU41 79012.4 39.2 L 16 4.90 L 16 4.25 0.05 11

WNU35 75792.2 - - - - - - 3.95 0.24 3

WNU35 75794.1 35.8 0.19 7 4.48 0.19 7 3.97 0.20 4

WNU35 75794.3 44.5 0.27 32 5.56 0.27 32 4.53 0.23 19

WNU34 76588.3 38.3 0.02 14 4.78 0.02 14 4.06 0.04 6

WNU34 76588.6 - - - - - - 4.20 0.26 10

WNU34 76588.8 36.7 0.21 9 4.58 0.21 9 - - -

WNU31 75786.3 40.4 L 20 5.05 L 20 4.36 L 14

WNU31 75786.7 39.9 0.02 19 4.99 0.02 19 4.20 0.08 10

WNU31 75789.5 46.6 L 39 5.83 L 39 4.65 L 22

WNU31 75790.8 38.3 0.21 14 4.79 0.21 14 - - -

WNU17 76556.4 38.7 0.02 15 4.84 0.02 15 4.13 0.02 8

WNU14 77113.4 - - - - - - 3.98 0.14 4

WNU11 76398.1 42.5 0.01 26 5.31 0.01 26 4.36 L 14

WNU11 76400.2 37.8 0.03 13 4.73 0.03 13 4.20 0.15 10

WNU105 77261.2 41.5 L 23 5.18 L 23 4.25 L 11

WNU105 77262.1 36.2 0.17 8 4.53 0.17 8 3.99 0.26 4

WNU102 76550.4 37.5 0.04 11 4.68 0.04 11 4.25 0.01 11

CONT. - 33.6 - - 4.20 - - 3.82 - -

WNU28 76826.1 60.5 0.05 17 7.56 0.05 17 4.49 0.09 5

WNU28 76827.3 56.4 0.18 9 7.05 0.18 9 4.45 0.19 4

WNU28 76827.4 60.3 0.25 16 7.53 0.25 16 - - -

WNU28 76829.3 61.7 0.04 19 7.71 0.04 19 4.62 0.17 8

WNU21 75781.6 61.0 L 18 7.63 L 18 4.60 L 8

WNU21 75781.8 63.0 0.03 21 7.87 0.03 21 4.69 0.07 10

WNU21 75784.1 64.1 0.21 23 8.01 0.21 23 4.83 0.20 13

WNU21 75784.4 58.8 0.16 13 7.35 0.16 13 4.47 0.28 5

WNU21 75784.7 58.9 0.02 13 7.36 0.02 13 4.47 0.11 5

WNU13 78921.3 61.3 0.15 18 7.67 0.15 18 4.56 0.23 7

WNU13 78921.4 63.8 L 23 7.98 L 23 4.61 0.06 8

WNU13 78923.6 64.9 0.07 25 8.11 0.07 25 4.79 0.05 13

WNU13 78924.2 55.6 0.17 7 6.95 0.17 7 4.39 0.30 3

WNU13 78924.3 66.5 0.19 28 8.31 0.19 28 4.75 0.24 12

WNU13 78925.3 60.8 0.04 17 7.60 0.04 17 4.57 0.12 7

WNU13 78925.8 62.5 0.11 20 7.81 0.11 20 4.65 0.17 9

CONT. - 51.9 - - 6.49 - - 4.26 - -

WNU66 77754.4 60.7 0.21 6 7.59 0.21 6 4.88 0.14 3

WNU27 77748.1 65.1 0.11 14 8.14 0.11 14 5.00 0.17 5

WNU27 77748.2 65.3 0.17 14 8.16 0.17 14 4.97 0.08 5

WNU27 77750.1 - - - - - - 5.04 0.21 6 Rosette Diameter

Plot Coverage [cm ² ] Rosette Area [cm ² ]

Gene [cm]

Event #

Name P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

CONT. - 57.1 - - 7.14 - - 4.74 - -

WNU92 77124.5 70.5 0.26 12 8.82 0.29 11 - - -

WNU92 77125.3 70.2 0.23 11 8.77 0.27 10 - - -

WNU72 77086.3 69.4 0.15 10 8.68 0.18 9 - - -

WNU72 77088.1 76.5 0.16 21 9.57 0.17 20 4.97 0.20 11

WNU57 76647.1 71.5 0.27 13 9.33 0.14 17 4.92 0.15 10

WNU57 76649.5 70.9 0.13 12 8.86 0.15 11 4.80 0.05 7

WNU57 76649.7 72.6 0.09 15 9.08 0.10 14 4.84 0.14 8

WNU57 76650.2 67.4 0.27 7 - - - - - -

CONT. - 63.1 - - 7.96 - - 4.48 - -

Table 97: "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant.

The genes listed in Table 98 improved plant NUE when grown at limiting nitrogen concentration levels. These genes produced faster developing plants when grown under limiting nitrogen growth conditions, compared to control plants, grown under identical conditions as measured by growth rate of leaf number, rosette diameter and plot coverage.

Table 98

Genes showing improved rosette growth performance at limiting nitrogen growth conditions

RGR Of Plot

RGR Of Leaf RGR Of Rosette

Coverage

Number Diameter [cm/day]

Gene Name Event # [cm ¹ 1 day]

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU78 76661.4 - - - 15.4 L 36 0.591 L 20

WNU78 76662.2 - - - 13.9 L 23 0.534 0.14 9

WNU78 76665.5 - - - - - - 0.538 0.12 9

WNU78 76665.6 - - - 13.1 0.04 16 0.532 0.21 8

WNU74 77576.1 - - - 12.6 0.12 11 0.549 0.06 11

WNU74 77576.6 - - - 13.2 0.02 17 0.559 0.02 14

WNU74 77576.8 - - - - - - 0.536 0.16 9

WNU74 77578.4 - - - 12.4 0.22 9 - - -

WNU74 77579.5 - - - 13.0 0.05 16 0.529 0.23 7

WNU71 77656.1 - - - 13.0 0.05 15 0.550 0.05 12

WNU67 79413.2 - - - 12.8 0.09 13 0.551 0.06 12 RGR Of Plot

RGR Of Leaf RGR Of Rosette

Coverage

Number Diameter [cm/day]

Gene Name Event # [cm ² /day]

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU67 79413.5 - - - - - - 0.529 0.21 1

WNU67 79473.4 - - - 14.0 L 24 0.565 0.01 15

WNU32 76576.2 - - - 12.5 0.15 11 - - -

WNU32 76576.4 0.801 0.28 11 15.8 L 40 0.563 0.01 14

WNU32 76576.5 - - - 12.5 0.15 11 0.526 0.25 7

WNU32 76577.1 0.820 0.20 14 - - - - - -

WNU32 76578.1 0.812 0.23 13 14.6 L 30 0.559 0.02 14

WNU32 76578.3 - - - 13.0 0.06 16 0.542 0.10 10

WNU32 76578.5 - - - 13.0 0.05 15 0.534 0.15 8

WNU32 76580.2 - - - 12.8 0.07 14 0.556 0.04 13

WNU32 76580.6 - - - 13.6 L 20 0.545 0.07 11

WNU25 78806.7 - - - 12.7 0.13 12 - - -

WNU25 78806.8 - - - 12.5 0.17 11 0.543 0.10 10

CONT. - 0.721 - - 11.3 - - 0.492 - -

WNU75 76658.3 - - - 14.2 0.21 15 - - -

WNU54 76643.5 0.891 0.21 14 - - - - - -

WNU54 76645.5 0.886 0.23 13 14.3 0.18 16 - - -

WNU18 76565.5 - - - 14.6 0.12 19 - - -

CONT. - 0.781 - - 12.3 - - - - -

WNU87 76667.3 - - - 12.5 0.05 18 - - -

WNU73 76651.5 - - - 11.7 0.24 11 - - -

WNU39 77171.5 - - - 11.6 0.22 11 - - -

WNU2 77867.3 - - - 12.1 0.10 15 - - -

WNU2 77869.1 - - - 11.5 0.29 9 - - -

WNU2 77869.3 - - - 11.5 0.27 9 - - -

CONT. - - - - 10.5 - - - - -

WNU99 77099.2 0.631 0.14 16 - - - - - -

WNU98 77463.13 - - - - - - 0.383 0.05 12

WNU98 77465.1 - - - 5.93 0.20 14 - - -

WNU98 77465.3 - - - - - - 0.376 0.10 11

WNU97 77181.6 - - - 6.20 0.08 20 - - -

WNU94 78110.7 0.635 0.12 17 - - - - - -

WNU83 75821.7 - - - 6.65 0.01 28 0.382 0.05 12

WNU83 75821.8 - - - - - - 0.365 0.24 7

WNU83 75823.9 - - - - - - 0.370 0.17 9

WNU61 78014.1 - - - 5.95 0.19 15 0.383 0.04 13

WNU61 78014.2 0.625 0.17 15 5.94 0.19 15 - - -

WNU6 76542.5 - - - 5.85 0.24 13 0.373 0.13 9

WNU51 79018.4 - - - 5.84 0.27 13 0.366 0.25 7 RGR Of Plot

RGR Of Leaf RGR Of Rosette

Coverage

Number Diameter [cm/day]

Gene Name Event # [cm ² /day]

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU51 79020.6 0.623 0.17 14 - - - - - -

WNU5 76045.6 0.604 0.29 11 - - - - - -

WNU43 77267.2 - - - - - - 0.369 0.18 8

WNU42 76598.1 - - - 5.78 0.30 12 - - -

WNU42 76599.4 - - - 6.31 0.06 22 - - -

WNU41 79012.4 - - - 6.13 0.10 18 0.375 0.11 10

WNU41 79013.1 0.617 0.21 13 - - - - - -

WNU35 75794.1 0.610 0.26 12 - - - - - -

WNU35 75794.3 - - - 6.82 0.01 32 0.397 0.03 17

WNU34 76588.3 - - - 5.79 0.28 12 - - -

WNU34 76588.6 - - - - - - 0.370 0.19 9

WNU31 75786.3 - - - 5.96 0.17 15 0.383 0.05 13

WNU31 75786.7 - - - 5.91 0.20 14 - - -

WNU31 75789.5 0.614 0.26 13 7.42 L 43 0.409 L 20

WNU31 75790.8 - - - 6.03 0.15 16 0.391 0.02 15

WNU17 76556.4 0.609 0.30 12 5.95 0.18 15 - - -

WNU14 77113.11 0.643 0.10 18 - - - - - -

WNU11 76398.1 - - - 6.73 0.01 30 0.389 0.03 14

WNU11 76400.2 - - - 5.84 0.25 13 0.381 0.07 12

WNU105 77261.2 - - - 6.22 0.07 20 0.373 0.13 9

WNU105 77262.1 0.631 0.16 16 - - - - - -

WNU102 76550.4 - - - - - - 0.369 0.18 8

CONT. - 0.544 - - 5.18 - - 0.341 - -

WNU28 76826.1 - - - 10.4 0.04 17 - - -

WNU28 76827.3 - - - 9.62 0.30 8 - - -

WNU28 76827.4 - - - 10.1 0.12 13 - - -

WNU28 76829.3 - - - 10.7 0.01 21 0.450 0.08 14

WNU28 76829.5 0.785 0.13 15 - - - - - -

WNU21 75781.10 - - - 10.1 0.11 14 0.428 0.30 8

WNU21 75781.11 0.781 0.13 14 - - - - - -

WNU21 75781.6 - - - 10.5 0.02 18 - - -

WNU21 75781.8 - - - 11.0 L 24 0.441 0.12 11

WNU21 75781.9 - - - - - - 0.439 0.16 11

WNU21 75783.1 - - - 9.96 0.15 12 - - -

WNU21 75784.1 - - - 11.2 L 27 0.468 0.04 18

WNU21 75784.4 - - - 10.2 0.07 15 0.427 0.30 8

WNU21 75784.7 - - - 10.0 0.10 13 - - -

WNU13 78921.3 0.764 0.27 12 10.5 0.03 18 - - -

WNU13 78921.4 - - - 10.9 L 22 0.433 0.20 9 RGR Of Plot

RGR Of Leaf RGR Of Rosette

Coverage

Number Diameter [cm/day]

Gene Name Event # [cm ² /day]

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU13 78923.6 - - - 11.2 L 26 0.441 0.13 11

WNU13 78923.8 - - - - - - 0.439 0.18 11

WNU13 78924.2 - - - 9.75 0.23 10 - - -

WNU13 78924.3 - - - 11.5 L 29 0.447 0.15 13

WNU13 78925.3 0.762 0.23 12 10.5 0.03 18 0.428 0.26 8

WNU13 78925.8 0.771 0.20 13 10.5 0.03 18 - - -

CONT. - 0.683 - - 8.88 - - 0.396 - -

WNU60 78878.4 0.820 0.11 17 - - - - - -

WNU47 77178.2 - - - - - - 0.514 0.25 8

WNU47 77180.4 0.837 0.07 19 - - - - - -

WNU33 76581.3 0.821 0.11 17 - - - - - -

WNU33 76581.6 0.813 0.15 16 - - - - - -

WNU27 77747.4 0.801 0.22 14 - - - - - -

WNU27 77748.1 0.784 0.28 12 11.8 0.07 15 0.513 0.24 8

WNU27 77748.2 - - - 11.6 0.10 14 - - -

WNU27 77750.1 - - - 11.6 0.13 13 - - -

WNU26 76673.10 0.789 0.25 12 - - - - - -

WNU26 76673.5 0.886 0.02 26 - - - - - -

WNU26 76674.1 0.813 0.14 16 - - - - - -

CONT. - 0.702 - - 10.2 - - 0.477 - -

WNU92 77124.5 - - - 10.6 0.30 12 - - -

WNU72 77086.3 - - - 10.8 0.23 14 - - -

WNU72 77088.1 - - - 11.4 0.08 20 0.461 0.26 10

WNU57 76647.1 0.826 0.10 14 11.2 0.11 19 0.484 0.09 16

WNU57 76649.5 - - - 10.6 0.28 12 - - -

WNU57 76649.7 - - - 11.0 0.15 17 0.470 0.16 12

CONT. - 0.725 - - 9.47 - - 0.419 - -

Table 98. "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant.

The genes listed in Tables 99-100 improved plant NUE when grown at standard nitrogen concentration levels. These genes produced larger plants with a larger photosynthetic area and increased biomass (fresh weight, dry weight, leaf number, rosette diameter, rosette area and plot coverage) when grown under standard nitrogen conditions as compared to control plants grown under identical growth conditions. Table 99

Genes showing improved plant biomass production at standard nitrogen growth conditions

Dry Weight [mg] Fresh Weight [mg] Leaf Number

% % %

Gene Name Event # P- P- P-

Ave. Incr Ave. Incr Ave. Incr Val. Val. Val.

WNU75 76657.1 - - - 2170.8 0.18 10 9.67 L 8

WNU75 76657.5 - - - - - - 9.29 0.21 3

WNU75 76658.3 183.8 0.15 10 2154.2 0.25 9 9.38 0.07 4

WNU75 76659.6 178.3 0.21 6 2129.2 0.04 7 9.46 0.01 5

WNU54 76641.5 187.1 0.02 12 2216.7 L 12 9.29 0.28 3

WNU54 76643.2 175.0 0.11 4 - - - - - -

WNU54 76644.1 - - - - - - 9.33 0.25 4

WNU54 76645.3 - - - 2175.0 0.14 10 - - -

WNU54 76645.5 - - - - - - 9.46 L 5

WNU54 76645.7 173.3 0.23 3 2125.0 0.07 7 - - -

WNU44 76636.1 - - - - - - 9.46 0.01 5

WNU44 76636.3 - - - - - - 9.58 L 7

WNU44 76639.1 183.3 0.01 9 2141.7 0.05 8 9.54 0.16 6

WNU44 76639.2 - - - - - - 9.46 0.01 5

WNU44 76639.3 175.5 0.24 5 2110.5 0.25 7 - - -

WNU44 76640.3 - - - - - - 9.38 0.06 4

WNU44 76640.9 176.7 0.24 5 - - - - - -

WNU29 76628.1 183.8 0.09 10 2191.7 0.15 11 9.75 L 9

WNU29 76628.4 173.3 0.18 3 2084.5 0.26 5 9.25 0.23 3

WNU29 76628.7 - - - 2162.5 0.21 9 9.33 0.06 4

WNU29 76628.9 - - - - - - 9.33 0.17 4

WNU29 76629.1 - - - - - - 9.62 0.07 7

WNU29 76630.2 - - - - - - 9.38 0.27 4

WNU18 76562.2 176.2 0.23 5 2150.0 0.10 9 - - -

WNU18 76563.3 177.5 0.10 6 2083.3 0.12 5 9.54 0.22 6

WNU18 76564.2 191.8 L 14 2286.3 L 15 9.17 0.24 2

WNU18 76565.5 194.2 L 16 2345.8 0.02 18 9.50 0.20 6

WNU104 76617.1 181.0 0.25 8 2211.9 0.04 12 9.54 0.11 6

WNU104 76618.3 184.6 0.13 10 2212.5 L 12 9.17 0.29 2

WNU104 76619.3 - - - - - - 9.58 L 7

WNU104 76619.6 - - - - - - 9.33 0.14 4

WNU104 76620.2 - - - - - - 9.62 0.02 7

WNU104 76620.4 - - - - - - 9.40 0.05 5

WNU104 76620.5 - - - - - - 9.33 0.14 4

WNU104 76620.7 - - - - - - 9.46 0.16 5

CONT. - 167.7 - - 1980.9 - - 8.98 - -

WNU28 76830.1 - - - - - - 10.5 0.30 2

WNU21 75784.6 - - - - - - 10.9 0.05 6 Dry Weight [mg] Fresh Weight [mg] Leaf Number

% % %

Gene Name Event # P- P- P-

Ave. Incr Ave. Incr Ave. Incr Val. Val. Val.

CONT. - - - - - - - 10.2 - -

WNU92 77124.5 - - - 1525.6 0.14 9 10.1 0.26 3

WNU92 77124.7 129.9 0.23 9 - - - - - -

WNU92 77125.3 - - - 1505.9 0.30 8 - - -

WNU72 77086.3 131.2 0.13 11 1558.3 0.02 11 10.2 0.08 4

WNU72 77088.2 130.3 0.25 10 1581.0 0.19 13 - - -

WNU72 77090.1 136.4 0.27 15 1478.6 0.14 6 - - -

WNU57 76647.1 137.1 0.27 15 - - - - - -

WNU57 76650.2 132.4 0.08 12 1531.5 0.10 10 - - -

WNU3 76633.13 - - - - - - 10.0 0.28 2

WNU15 76551.5 128.4 0.27 8 - - - - - -

WNU15 76552.7 128.5 0.11 8 1493.1 0.09 7 - - -

CONT. - 118.7 - - 1398.2 - - 9.83 - -

WNU78 76662.2 - - - - - - 11.5 0.02 8

WNU78 76665.6 316.3 0.03 20 3141.7 L 24 - - -

WNU74 77578.1 - - - 2687.5 0.12 6 - - -

WNU32 76576.4 - - - - - - 12.1 L 13

WNU32 76576.5 - - - 2883.3 0.14 14 - - -

WNU32 76578.1 - - - 2662.5 0.15 5 - - -

WNU32 76578.3 290.0 0.30 10 2904.2 0.07 14 - - -

WNU32 76580.2 285.0 0.01 8 2879.2 L 13 - - -

WNU32 76580.6 279.2 0.11 6 2966.7 0.03 17 - - -

WNU25 78808.4 277.6 0.13 5 2872.0 0.02 13 - - -

CONT. - 263.3 - - 2539.2 - - 10.7 - -

WNU87 76667.3 - - - - - - 10.2 0.25 7

WNU73 76651.7 - - - - - - 9.88 0.03 4

WNU58 76761.5 - - - - - - 9.92 0.22 4

WNU58 76764.2 164.6 0.24 11 - - - - - -

CONT. - 148.7 - - 1832.8 - - 9.54 - -

WNU66 77753.1 317.4 0.07 13 3801.2 0.09 18 - - -

WNU66 77753.4 - - - 3720.2 0.25 16 - - -

WNU66 77754.4 - - - - - - 10.6 0.04 7

WNU60 78877.12 - - - - - - 10.2 0.29 2

WNU60 78877.6 314.2 0.11 12 3532.1 0.04 10 - - -

WNU60 78877.9 - - - 3525.6 0.22 10 - - -

WNU60 78878.10 - - - - - - 10.7 0.20 7

WNU60 78878.12 - - - 3739.9 0.15 16 - - -

WNU47 77178.9 - - - - - - 10.1 0.28 2

WNU47 77180.5 - - - 3380.2 0.26 5 - - -

WNU33 76581.3 - - - - - - 10.4 0.24 4 Dry Weight [mg] Fresh Weight [mg] Leaf Number

% % %

Gene Name Event # P- P- P-

Ave. Incr Ave. Incr Ave. Incr Val. Val. Val.

WNU33 76581.5 303.8 0.27 8 - - - 10.4 0.06 4

WNU33 76581.6 - - - - - - 10.4 0.08 4

WNU33 76582.1 295.0 0.22 5 3525.0 0.04 10 - - -

WNU33 76584.1 - - - - - - 10.9 0.01 9

WNU33 76584.2 - - - 3399.4 0.27 6 - - -

WNU33 76584.3 326.6 0.14 17 - - - 10.2 0.17 3

WNU27 77747.5 - - - - - - 10.8 0.02 8

WNU27 77748.1 - - - - - - 10.7 0.28 7

WNU27 77750.1 - - - - - - 10.9 0.15 10

WNU26 76672.1 - - - 3398.2 0.25 6 - - -

WNU26 76673.2 297.4 0.12 6 3845.8 0.10 20 - - -

WNU26 76673.4 343.6 0.03 23 3569.6 0.02 11 - - -

WNU26 76673.9 - - - 3573.8 0.20 11 - - -

CONT. - 280.3 - - 3213.9 - - 9.96 - -

Table 99. "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant. Table 100

Genes showing improved plant biomass production at standard nitrogen growth conditions

Rosette Diameter

Plot Coverage [cm ² ] Rosette Area [cm ² ]

[cm]

Gene Name Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU75 76657.1 41.8 0.05 31 5.22 0.06 30 3.99 0.12 14

WNU75 76658.3 43.6 0.04 37 5.46 0.04 36 4.09 0.03 17

WNU75 76659.6 41.6 L 31 5.19 L 30 4.10 L 17

WNU54 76641.5 39.1 0.01 23 4.89 0.02 22 3.96 L 13

WNU54 76643.2 39.8 L 25 4.97 L 24 3.99 L 14

WNU54 76644.1 34.9 0.27 10 - - - - - -

WNU54 76644.4 42.1 L 32 5.26 L 31 4.08 L 16

WNU54 76645.3 37.8 L 19 4.72 L 18 3.80 0.02 9

WNU54 76645.7 36.1 0.21 14 4.52 0.24 13 - - -

WNU44 76636.1 40.9 0.10 29 5.11 0.11 28 4.08 0.11 16

WNU44 76636.3 38.7 L 22 4.84 0.01 21 3.96 0.05 13

WNU44 76639.1 42.8 L 35 5.35 L 33 4.01 L 14

WNU44 76639.2 - - - - - - 3.68 0.22 5

WNU44 76639.4 36.7 0.16 16 4.59 0.18 15 3.78 0.08 8

WNU44 76640.9 36.0 0.25 13 4.50 0.27 12 - - -

WNU29 76628.1 40.7 L 28 5.08 L 27 4.09 L 17 Rosette Diameter

Plot Coverage [cm ² ] Rosette Area [cm ² ]

[cm]

Gene Name Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU29 76628.4 34.1 0.30 1 - - - - - -

WNU29 76628.7 36.7 0.22 16 4.59 0.24 15 - - -

WNU29 76628.9 39.0 0.01 23 4.87 0.01 22 3.97 0.09 13

WNU29 76629.3 41.2 L 30 5.15 0.01 29 4.05 0.03 16

WNU18 76561.2 36.1 0.05 14 4.51 0.07 13 - - -

WNU18 76562.2 40.0 L 26 5.00 L 25 4.14 L 18

WNU18 76564.2 40.3 0.02 27 5.04 0.02 26 4.01 0.12 14

WNU18 76565.5 45.8 L 44 5.73 L 43 4.29 L 22

WNU104 76617.1 41.4 L 30 5.18 L 29 4.05 0.02 16

WNU104 76618.3 39.3 L 24 4.91 L 23 3.92 0.01 12

WNU104 76619.6 33.9 0.29 7 - - - - - -

WNU104 76620.2 35.1 0.24 10 4.39 0.28 9 - - -

WNU104 76620.4 - - - 4.25 0.28 6 - - -

CONT. - 31.8 - - 4.01 - - 3.50 - -

WNU28 76826.1 67.4 0.15 13 8.42 0.15 13 4.90 0.18 7

WNU21 75781.10 69.4 0.27 16 8.67 0.27 16 - - -

WNU21 75781.8 67.6 0.03 13 8.45 0.03 13 4.86 0.09 6

WNU21 75784.1 70.6 0.06 18 8.82 0.06 18 4.94 0.05 7

WNU21 75784.4 68.1 0.30 14 8.52 0.30 14 - - -

WNU13 78921.4 69.1 0.03 16 8.64 0.03 16 4.96 0.11 8

WNU13 78923.6 69.0 0.29 16 8.63 0.29 16 5.01 0.18 9

WNU13 78924.3 70.6 0.06 18 8.82 0.06 18 4.90 0.26 6

WNU13 78925.3 68.7 0.07 15 8.58 0.07 15 4.92 L 7

CONT. - 59.6 - - 7.45 - - 4.60 - -

WNU92 77124.5 78.2 0.25 23 - - - - - -

WNU72 77086.3 74.2 L 16 9.27 0.03 10 4.98 0.01 7

WNU72 77088.2 78.2 0.12 23 9.78 0.21 16 - - -

WNU72 77090.1 69.0 0.29 8 - - - - - -

WNU57 76647.1 77.2 0.12 21 9.65 0.22 14 - - -

WNU57 76650.2 75.8 0.02 19 9.47 0.08 12 - - -

WNU52 76605.3 72.0 0.30 13 - - - - - -

CONT. - 63.8 - - 8.44 - - 4.67 - -

WNU78 76661.4 86.1 0.05 19 10.8 0.05 19 5.64 0.02 8

WNU78 76662.2 89.1 0.17 24 11.1 0.17 24 5.74 0.21 10

WNU78 76665.6 84.5 0.07 17 10.6 0.07 17 5.68 0.09 8

WNU71 77656.1 82.3 0.03 14 10.3 0.03 14 5.63 0.04 7

WNU67 79472.2 82.7 0.11 15 10.3 0.11 15 5.62 0.10 7

WNU67 79473.4 - - - 10.6 0.20 17 5.76 0.04 10

WNU32 76576.4 97.3 0.05 35 12.2 0.05 35 5.89 0.01 12

WNU32 76578.1 93.3 0.13 29 11.7 0.13 29 5.96 0.07 14 Rosette Diameter

Plot Coverage [cm ² ] Rosette Area [cm ² ]

[cm]

Gene Name Event #

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU32 76578.3 - - - - - - 5.65 0.28 8

WNU32 76580.6 88.5 L 23 11.1 L 23 5.81 L 11

CONT. - 72.0 - - 9.00 - - 5.24 - -

WNU87 76667.3 62.3 0.15 13 7.79 0.20 11 - - -

WNU73 76651.7 64.3 L 17 8.03 L 14 4.92 L 9

WNU73 76653.1 59.9 0.27 9 - - - - - -

CONT. - 54.9 - - 7.02 - - 4.52 - -

WNU33 76581.3 67.9 0.17 6 8.49 0.17 6 - - -

WNU33 76584.2 69.5 0.04 9 8.69 0.04 9 5.18 0.20 3

WNU33 76584.3 69.0 0.12 8 8.62 0.12 8 5.17 0.20 3

WNU27 77747.5 71.8 0.22 12 8.97 0.22 12 5.30 0.29 5

WNU27 77748.1 75.4 0.15 18 9.43 0.15 18 5.40 L 7

WNU27 77748.2 77.9 0.03 22 9.73 0.03 22 5.55 L 10

WNU27 77750.1 76.9 0.01 20 9.61 0.01 20 5.48 0.01 9

WNU26 76673.5 - - - - - - 5.31 0.17 6

CONT. - 63.9 - - 7.98 - - 5.03 - -

Table 100: "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p-value; L means that p-value is less than 0.01, p<0.1 was considered as significant.

The genes listed in Table 101 improved plant NUE when grown at standard nitrogen concentration levels. These genes produced faster developing plants when grown under normal (standard) nitrogen growth conditions, compared to control plants, grown under identical growth conditions, as measured by growth rate of leaf number, rosette diameter and plot coverage.

Table 101

Genes showing improved rosette growth performance at standard nitrogen growth conditions

RGR Of Plot

RGR Of Leaf RGR Of Rosette

Coverage

Number Diameter [cm/day]

Gene Name Event # [cm ² /day]

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU75 76657.1 - - - 13.9 0.07 23 - - -

WNU75 76658.3 - - - 14.7 0.02 30 - - -

WNU75 76659.6 0.836 0.26 14 14.5 0.03 28 0.566 0.21 12

WNU54 76641.5 - - - 13.5 0.13 19 0.558 0.29 10

WNU54 76643.2 - - - 13.3 0.17 17 - - - RGR Of Plot

RGR Of Leaf RGR Of Rosette

Coverage

Number Diameter [cm/day]

Gene Name Event # [cm ² /day]

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU54 76644.1 0.838 0.24 14 - - - - - -

WNU54 76644.4 0.841 0.23 15 13.6 0.11 20 - - -

WNU54 76645.3 - - - 12.9 0.27 14 - - -

WNU44 76636.1 - - - 13.4 0.14 19 - - -

WNU44 76636.3 - - - 13.4 0.14 18 0.558 0.28 10

WNU44 76639.1 - - - 14.3 0.04 26 - - -

WNU44 76640.9 - - - 13.1 0.23 15 - - -

WNU29 76628.1 - - - 13.4 0.15 18 0.568 0.20 12

WNU29 76628.9 0.837 0.24 14 13.0 0.23 15 - - -

WNU29 76629.3 - - - 13.7 0.09 21 - - -

WNU18 76562.2 - - - 15.1 0.01 33 0.579 0.13 14

WNU18 76564.2 - - - 13.9 0.08 22 - - -

WNU18 76565.5 - - - 14.3 0.04 26 0.565 0.24 11

WNU104 76617.1 - - - 13.5 0.13 19 - - -

WNU104 76618.3 - - - 13.7 0.10 21 - - -

WNU104 76619.3 0.863 0.15 18 - - - - - -

CONT. - 0.732 - - 11.3 - - 0.507 - -

WNU45 79666.1 0.782 0.10 19 - - - - - -

WNU45 79667.7 0.737 0.27 12 - - - - - -

WNU28 76826.1 - - - 11.8 0.14 15 0.522 0.04 18

WNU21 75781.10 - - - 12.2 0.08 19 0.519 0.07 17

WNU21 75781.8 - - - 11.8 0.14 15 - - -

WNU21 75781.9 - - - 11.6 0.22 13 - - -

WNU21 75784.1 - - - 12.0 0.10 17 - - -

WNU21 75784.4 - - - 11.7 0.18 14 - - -

WNU21 75784.6 - - - 11.4 0.29 11 - - -

WNU13 78921.4 - - - 12.3 0.05 20 0.524 0.04 18

WNU13 78923.6 - - - 12.1 0.11 18 - - -

WNU13 78924.3 - - - 11.7 0.17 14 - - -

WNU13 78925.3 0.769 0.15 17 12.2 0.06 19 0.511 0.07 15

CONT. - 0.656 - - 10.3 - - 0.444 - -

WNU92 77124.5 - - - 12.2 0.08 19 0.511 0.25 9

WNU72 77086.3 - - - 11.5 0.26 11 - - -

WNU72 77088.2 - - - 12.2 0.07 19 0.520 0.15 11

WNU57 76647.1 - - - 12.2 0.08 18 - - -

WNU57 76650.2 0.846 0.12 12 11.8 0.15 14 - - -

CONT. - 0.752 - - 10.3 - - 0.470 - -

WNU78 76661.4 - - - 14.4 0.18 13 - - -

WNU78 76662.2 - - - 14.8 0.11 16 - - - RGR Of Plot

RGR Of Leaf RGR Of Rosette

Coverage

Number Diameter [cm/day]

Gene Name Event # [cm ² /day]

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU78 76665.6 - - - 15.1 0.06 19 0.607 0.28 9

WNU74 77576.2 0.812 0.26 14 - - - - - -

WNU74 77578.4 - - - 15.4 0.05 21 0.609 0.30 9

WNU71 77656.1 - - - 14.2 0.22 12 - - -

WNU67 79413.2 - - - 14.2 0.27 11 0.640 0.09 15

WNU67 79413.5 - - - 14.2 0.29 11 - - -

WNU67 79472.2 - - - 14.7 0.12 15 0.609 0.25 9

WNU67 79473.4 - - - 14.2 0.27 11 0.611 0.24 9

WNU32 76576.4 - - - 16.2 L 27 - - -

WNU32 76578.1 - - - 16.2 L 27 0.629 0.13 13

WNU32 76578.3 - - - 14.5 0.18 14 - - -

WNU32 76580.6 - - - 15.7 0.02 23 0.611 0.24 9

CONT. - 0.714 - - 12.8 - - 0.559 - -

WNU87 76667.1 0.787 0.08 21 - - - - - -

WNU87 76667.3 - - - 11.6 0.05 14 - - -

WNU87 76670.4 0.789 0.07 21 - - - - - -

WNU73 76651.7 0.822 0.03 26 12.1 L 19 0.506 0.08 11

WNU73 76653.1 - - - 11.1 0.21 9 - - -

WNU58 76761.1 0.795 0.05 22 - - - - - -

WNU58 76761.5 0.760 0.16 16 - - - - - -

WNU58 76764.3 0.743 0.25 14 - - - - - -

WNU58 76765.4 0.764 0.15 17 11.1 0.20 10 - - -

WNU39 77171.2 0.757 0.21 16 11.4 0.11 12 - - -

WNU39 77171.4 0.748 0.21 15 - - - 0.491 0.22 8

WNU39 77173.2 0.757 0.18 16 - - - - - -

WNU2 77867.5 0.730 0.30 12 - - - - - -

WNU2 77868.4 0.734 0.26 12 - - - - - -

WNU2 77869.3 0.764 0.18 17 - - - - - -

CONT. - 0.653 - - 10.2 - - 0.454 - -

WNU66 77754.3 0.917 0.22 14 - - - - - -

WNU66 77754.4 0.925 0.19 15 - - - - - -

WNU60 78878.10 1.00 0.04 25 - - - - - -

WNU33 76584.1 0.924 0.19 15 - - - - - -

WNU33 76584.2 - - - 13.1 0.27 9 - - -

WNU27 77747.5 - - - 13.1 0.26 9 - - -

WNU27 77748.1 - - - 13.8 0.06 15 0.580 0.21 8

WNU27 77748.2 - - - 14.2 0.03 18 0.590 0.13 10

WNU27 77750.1 - - - 14.0 0.04 17 0.573 0.29 7

WNU26 76675.3 0.911 0.23 13 - - - - - - RGR Of Plot

RGR Of Leaf RGR Of Rosette

Coverage

Number Diameter [cm/day]

Gene Name Event # [cm ² /day]

P- % P- % P- %

Ave. Ave. Ave.

Val. Incr. Val. Incr. Val. Incr.

WNU26 76675.4 0.909 0.27 13 - - - - - -

CONT. - 0.803 - - 12.0 - - 0.534 - -

Table 101. "CONT." - Control; "Ave." - Average; " Incr." = % increment; "p-val." - p- value; L means that p-value is less than 0.01, p<0.1 was considered as significant.

EXAMPLE 21

EVALUATION OF TRANSGENIC BRACHYPODIUM NUE AND YIELD UNDER LOW OR NORMAL NITROGEN FERTILIZATION IN GREENHOUSE ASSAY

Assay 1: Nitrogen Use efficiency measured plant biomass and yield at limited and optimal nitrogen concentration under greenhouse conditions until heading - This assay follows the plant biomass formation and growth (measured by height) of plants which are grown in the greenhouse at limiting and non-limiting (e.g., normal) nitrogen growth conditions. Transgenic Brachypodium seeds were sown in peat plugs. The Ti transgenic seedlings were then transplanted to 27.8 X 11.8 X 8.5 cm trays filled with peat and perlite in a 1 : 1 ratio. The trays were irrigated with a solution containing nitrogen limiting conditions, which were achieved by irrigating the plants with a solution containing 3 mM inorganic nitrogen in the form of NH ₄ N0 ₃ , supplemented with 1 mM KH ₂ P0 ₄ , 1 mM MgS0 _4, 3.6 mM KC1, 2 mM CaCl ₂ and microelements, while normal nitrogen levels were achieved by applying a solution of 6 mM inorganic nitrogen also in the form of NH ₄ N0 ₃ with 1 mM KH ₂ P0 ₄ , 1 mM MgS0 _4, 2 mM CaCl ₂ , 3.6 mM KC1 and microelements. All plants were grown in the greenhouse until heading. Plant biomass (the above ground tissue) was weighted right after harvesting the shoots (plant fresh weight [FW]). Following, plants were dried in an oven at 70 °C for 48 hours and weighed (plant dry weight [DW]).

Each construct was validated at its Ti generation. Transgenic plants transformed with a construct conformed by an empty vector carrying the BASTA selectable marker were used as control (Figure 9B).

The plants were analyzed for their overall size, fresh weight and dry matter. Transgenic plants performance was compared to control plants grown in parallel under the same conditions. Mock- transgenic plants with no gene and no promoter at all, were used as control (Figure 9B).

The experiment was planned in blocks and nested randomized plot distribution within them. For each gene of the invention five independent transformation events were analyzed from each construct.

Phenotyping

Plant Fresh and Dry shoot weight - In Heading assays when heading stage has completed (about day 30 from sowing), the plants were harvested and directly weighed for the determination of the plant fresh weight on semi-analytical scales (0.01 gr) (FW) and left to dry at 70°C in a drying chamber for about 48 hours before weighting to determine plant dry weight (DW).

Time to Heading - In both Seed Maturation and Heading assays heading was defined as the full appearance of the first spikelet in the plant. The time to heading occurrence is defined by the date the heading is completely visible. The time to heading occurrence date was documented for all plants and then the time from planting to heading was calculated.

Leaf thickness - In Heading assays when minimum 5 plants per plot in at least 90% of the plots in an experiment have been documented at heading, measurement of leaf thickness was performed using a micro-meter on the second leaf below the flag leaf.

Plant Height - In both Seed Maturation and Heading assays once heading was completely visible, the height of the first spikelet was measured from soil level to the bottom of the spikelet.

Tillers number - In Heading assays manual count of tillers was preformed per plant after harvest, before weighing.

The genes listed in Table 102-105 improved plant biomass, growth rate and

NUE when grown at low nitrogen concentration levels (nitrogen-limiting growth conditions; Tables 102-103) and at standard (normal) nitrogen growth conditions (Tables 104-105). These genes produced faster developing plants as compared to control plants which are grown under identical growth conditions, as measured by the increase in biomass (e.g., dry and fresh weight, leaf thickness) and in number of tillers. Table 102

Genes showing improved plant performance at low Nitrogen growth conditions under regulation of At6669 promoter

Table 103

Genes showing improved plant performance at low Nitrogen growth conditions under regulation of At6669 promoter

Gene Tiller Number Time to Heading [day]

Event #

Name Ave. P-Val. % Incr. Ave. P-Val. % Incr.

CONT. - 3.92 - - 28.84 - -

WNU78 1073 - - - 27.54 0.24 -4.49

WNU44 1175 4.67 0.15 19.15 - - -

WNU78 1184 - - - 27.00 0.19 -6.37

WNU78 1186 - - - 27.25 0.18 -5.50

WNU44 1194 - - - 21.37 0.00 -25.91

WNU87 1200 - - - 26.46 0.04 -8.25 Gene Tiller Number Time to Heading [day]

Event #

Name Ave. P-Val. % Incr. Ave. P-Val. % Incr.

WNU 87 1204 - - - 26.18 0.07 -9.20

WNU 87 1206 4.55 0.25 16.17 26.90 0.09 -6.72

WNU92 1240 - - - 27.14 0.16 -5.88

Table 103. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p-value, L- p<0.01.

It should be noted that a negative increment (in percentages) when found in time to heading indicates potential for drought avoidance.

Table 104

Genes showing improved plant performance at Normal growth conditions under regulation of At6669 promoter

Dry Weight [mg] Fresh Weight [mg] Leaf Thickness

Gene Eve

P- % P- Name nt # Av

Ave. Va Incr Va % Incr. Ave. P-Val. % Incr.

e.

I. I.

CONT 2.1

- 0.448 - - - - 0.2223 - - 9

WNU 107 0.0 18.9

0.533 - - - - - - 78 4 8 9

WNU 117 0.1 16.2

0.520 - - - 0.2375 0.0844 6.841612 44 5 9 0

WNU 118 0.0 28.7 2.6 0.0

0.576 22.48 - - - 78 4 4 7 8 4

WNU 118 0.0 32.4 2.6 0.1

0.593 19.62 0.2354 0.1512 5.9044 78 5 3 0 2 4

WNU 118 0.2 11.0

0.497 - - - - - - 78 6 6 8

WNU 119 0.0 22.0

0.546 - - - - - - 44 4 4 7

WNU 120 0.0 22.4 2.4 0.2

0.548 12.15 - - - 87 0 6 4 5 2

- - - 13.89 0.2333 0.2509 4.9672

WNU 120 2.4 0.2 Dry Weight [mg] Fresh Weight [mg] Leaf Thickness

Gene Eve

P- % P- Name nt # Av

Ave. Va Incr Va % Incr. Ave. P-Val. % Incr.

e.

I. I.

87 1 9 2

WNU 120 0.0 28.7 2.8 0.0

0.576 28.12 - - - 87 3 4 7 0 3

WNU 120 0.0 29.5 2.4 0.1

0.580 13.37 - - - 87 4 1 2 8 7

WNU 121 0.3 11.3

0.498 - - - 0.2367 0.1632 6.4667 87 1 0 6

WNU 124 0.0 42.1 2.7 0.0

0.636 25.52 0.2345 0.2044 5.4920 92 0 0 2 5 2

Table 104. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p-value, L- p<0.01.

Table 105

Genes showing improved plant performance at Normal growth conditions under regulation of At6669 promoter

Table 105. "CONT." - Control; "Ave." - Average; "% Incr." = % increment; "p-val." - p-value, L- p<0.01. It should be noted that a negative increment (in percentages) when found in time to heading indicates potential for drought avoidance.

EXAMPLE 22

EVALUATION OF TRANSGENIC BRACHYPODIUM NUE AND YIELD UNDER LOW OR NORMAL NITROGEN FERTILIZATION IN GREENHOUSE ASSAY

Assay 2: Nitrogen Use efficiency measured plant biomass and yield at limited and optimal nitrogen concentration under greenhouse conditions until Seed Maturation - This assay follows the plant biomass and yield production of plants that were grown in the greenhouse at limiting and non-limiting nitrogen growth conditions. Transgenic Brachypodium seeds were sown in peat plugs. The Ti transgenic seedlings were then transplanted to 27.8 X 11.8 X 8.5 cm trays filled with peat and perlite in a 1: 1 ratio. The trays were irrigated with a solution containing nitrogen limiting conditions, which were achieved by irrigating the plants with a solution containing 3 mM inorganic nitrogen in the form of NH ₄ N0 ₃ , supplemented with 1 mM KH ₂ P0 ₄ , 1 mM MgS0 _4i 3.6 mM KC1, 2 mM CaCl ₂ and microelements, while normal nitrogen levels were achieved by applying a solution of 6 mM inorganic nitrogen also in the form of NH ₄ N0 ₃ with 1 mM KH ₂ P0 ₄ , 1 mM MgS0 _4, 2 mM CaCl ₂ , 3.6 mM KC1 and microelements. All plants were grown in the greenhouse until seed maturation. Each construct was validated at its Ti generation. Transgenic plants transformed with a construct conformed by an empty vector carrying the BASTA selectable marker were used as control (Figure 9B).

The plants were analyzed for their overall biomass, fresh weight and dry matter, as well as a large number of yield and yield components related parameters. Transgenic plants performance was compared to control plants grown in parallel under the same conditions. Mock- transgenic plants with no gene and no promoter at all (Figure 9B). The experiment was planned in blocks and nested randomized plot distribution within them. For each gene of the invention five independent transformation events were analyzed from each construct.

Phenotyping

Plant Fresh and Dry vegetative weight - In Seed Maturation assays when maturity stage has completed (about day 80 from sowing), the plants were harvested and directly weighed for the determination of the plant fresh weight (FW) and left to dry at 70°C in a drying chamber for about 48 hours before weighting to determine plant dry weight (DW).

Spikelets Dry weight (SDW) - In Seed Maturation assays when maturity stage has completed (about day 80 from sowing), the spikelets were separated from the biomass, left to dry at 70°C in a drying chamber for about 48 hours before weighting to determine spikelets dry weight (SDW).

Grain Yield per Plant - In Seed Maturation assays after drying of spikelets for SDW, spikelets were run through production machine, then through cleaning machine, until seeds were produced per plot, then weighed and Grain Yield per Plant was calculated.

Grain Number - In Seed Maturation assays after seeds per plot were produced and cleaned, the seeds were run through a counting machine and counted.

1000 Seed Weight - In Seed Maturation assays after seed production, a fraction was taken from each sample (seeds per plot; -0.5 gr), counted and photographed. 1000 seed weight was calculated.

Harvest Index - In Seed Maturation assays after seed production, harvest index was calculated by dividing grain yield and vegetative dry weight.

Time to Heading - In both Seed Maturation and Heading assays heading was defined as the full appearance of the first spikelet in the plant. The time to heading occurrence is defined by the date the heading is completely visible. The time to heading occurrence date was documented for all plants and then the time from planting to heading was calculated.

Leaf thickness - In Heading assays when minimum 5 plants per plot in at least 90% of the plots in an experiment have been documented at heading, measurement of leaf thickness was performed using a micro-meter on the second leaf below the flag leaf.

Grain filling period - In Seed Maturation assays maturation was defined by the first color-break of spikelet + stem on the plant, from green to yellow/brown.

Plant Height - In both Seed Maturation and Heading assays once heading was completely visible, the height of the first spikelet was measured from soil level to the bottom of the spikelet.

Tillers number - In Heading assays manual count of tillers was preformed per plant after harvest, before weighing. Number of reproductive heads per plant - In Heading assays manual count of heads per plant was performed.

Statistical analyses - To identify genes conferring significantly improved tolerance to abiotic stresses, the results obtained from the transgenic plants were compared to those obtained from control plants. To identify outperforming genes and constructs, results from the independent transformation events tested were analyzed separately. Data was analyzed using Student's t-test and results were considered significant if the p value was less than 0.1. The JMP statistics software package was used (Version 5.2.1, SAS Institute Inc., Cary, NC, USA).

Although the invention has been described in conjunction with specific embodiments thereof, it is evident that many alternatives, modifications and variations will be apparent to those skilled in the art. Accordingly, it is intended to embrace all such alternatives, modifications and variations that fall within the spirit and broad scope of the appended claims.

All publications, patents and patent applications mentioned in this specification are herein incorporated in their entirety by reference into the specification, to the same extent as if each individual publication, patent or patent application was specifically and individually indicated to be incorporated herein by reference. In addition, citation or identification of any reference in this application shall not be construed as an admission that such reference is available as prior art to the present invention. To the extent that section headings are used, they should not be construed as necessarily limiting.