Title:
CPF1 BASED TRANSCRIPTION REGULATION SYSTEMS IN PLANTS
Document Type and Number:
WIPO Patent Application WO/2019/122394
Kind Code:
A3
Abstract:
The present invention relates to the targeted regulation of gene expression and more specifically to synthetic transcription factors (STFs) comprising at least one highly target specific engineered recognition domain based on a CRISPR/Cpf1 system and further comprising at least one activation or silencing domain to modulate the expression of a gene of interest, preferably to modulate the transcription of a morphogenic gene of a eukaryote, in particular a plant. Further disclosed are methods using the STFs to enhance transformation frequencies, to optimize successful genome editing approaches, to provide haploid or double haploid organisms, and/or to provide compositions suitable for general transformation, but also for breeding purposes.
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Inventors:
LABS MATHIAS (US)
HUMMEL AARON (US)
MEI YU (US)
HUMMEL AARON (US)
MEI YU (US)
Application Number:
PCT/EP2018/086725
Publication Date:
August 08, 2019
Filing Date:
December 21, 2018
Export Citation:
Assignee:
KWS SAAT SE & CO KGAA (DE)
International Classes:
C12N15/82; A01H1/08; A01H4/00; C12N15/63
Domestic Patent References:
| WO2017070598A1 | 2017-04-27 | |||
| WO2005063990A2 | 2005-07-14 | |||
| WO2018147343A1 | 2018-08-16 | |||
| WO2018212361A1 | 2018-11-22 | |||
| WO2011082310A2 | 2011-07-07 |
Other References:
WU, MIIN-FENG, ET AL.: "Auxin-regulated chromatin switch directs acquistion of flower primordium founder fate", ELIFE, 13 October 2015 (2015-10-13), XP055569228, Retrieved from the Internet [retrieved on 20190314], DOI: 10.7554/eLife.09269.001
JENNIFER L. NEMHAUSER ET AL: "Plant synthetic biology for molecular engineering of signalling and development", NATURE PLANTS, vol. 2, no. 3, 2 March 2016 (2016-03-02), pages 16010, XP055569188, DOI: 10.1038/nplants.2016.10
LEVI G. LOWDER ET AL: "A CRISPR/Cas9 Toolbox for Multiplexed Plant Genome Editing and Transcriptional Regulation", PLANT PHYSIOLOGY, vol. 169, no. 2, 21 August 2015 (2015-08-21), Rockville, Md, USA, pages 971 - 985, XP055548389, ISSN: 0032-0889, DOI: 10.1104/pp.15.00636
WUSHENG LIU ET AL: "Synthetic TAL effectors for targeted enhancement of transgene expression in plants", PLANT BIOTECHNOLOGY JOURNAL, vol. 12, no. 4, 1 May 2014 (2014-05-01), GB, pages 436 - 446, XP055568830, ISSN: 1467-7644, DOI: 10.1111/pbi.12150
JEFFREY C MILLER ET AL: "A TALE nuclease architecture for efficient genome editing", NATURE BIOTECHNOLOGY, vol. 29, no. 2, 22 December 2010 (2010-12-22), New York, pages 143 - 148, XP055568321, ISSN: 1087-0156, DOI: 10.1038/nbt.1755
AMI M. KABADI ET AL: "Engineering synthetic TALE and CRISPR/Cas9 transcription factors for regulating gene expression", METHODS, vol. 69, no. 2, 1 September 2014 (2014-09-01), NL, pages 188 - 197, XP055568802, ISSN: 1046-2023, DOI: 10.1016/j.ymeth.2014.06.014
LI ZHENXIANG ET AL: "A potent Cas9-derived gene activator for plant and mammalian cells", NATURE PLANTS, NATURE PUBLISHING GROUP UK, LONDON, vol. 3, no. 12, 20 November 2017 (2017-11-20), pages 930 - 936, XP036428618, DOI: 10.1038/S41477-017-0046-0
Y ESTHER TAK ET AL: "Inducible and multiplex gene regulation using CRISPR-Cpf1-based transcription factors", NATURE METHODS, vol. 14, no. 12, 30 October 2017 (2017-10-30), New York, pages 1163 - 1166, XP055577293, ISSN: 1548-7091, DOI: 10.1038/nmeth.4483
LEVI G. LOWDER ET AL: "Robust Transcriptional Activation in Plants Using Multiplexed CRISPR-Act2.0 and mTALE-Act Systems", MOLECULAR PLANT, vol. 11, no. 2, 28 November 2017 (2017-11-28), GB, pages 245 - 256, XP055577314, ISSN: 1674-2052, DOI: 10.1016/j.molp.2017.11.010
XU TANG ET AL: "A CRISPR-Cpf1 system for efficient genome editing and transcriptional repression in plants", NATURE PLANTS, vol. 3, no. 3, 17 February 2017 (2017-02-17), pages 1 - 5, XP055538473, DOI: 10.1038/nplants.2017.18
RICHARD MOORE ET AL: "Transcription Activator-like Effectors: A Toolkit for Synthetic Biology", ACS SYNTHETIC BIOLOGY, vol. 3, no. 10, 13 February 2014 (2014-02-13), Washington, DC,USA, pages 708 - 716, XP055568918, ISSN: 2161-5063, DOI: 10.1021/sb400137b
YUE XU ET AL: "Regulation of gene expression by manipulating transcriptional repressor activity using a novel CoSRI technology", PLANT BIOTECHNOLOGY JOURNAL, vol. 15, no. 7, 10 March 2017 (2017-03-10), GB, pages 879 - 893, XP055569163, ISSN: 1467-7644, DOI: 10.1111/pbi.12683
BLACK JOSHUA B ET AL: "Synthetic transcription factors for cell fate reprogramming", CURRENT OPINION IN GENETICS & DEVELOPMENT, CURRENT BIOLOGY LTD, XX, vol. 52, 24 May 2018 (2018-05-24), pages 13 - 21, XP085540975, ISSN: 0959-437X, DOI: 10.1016/J.GDE.2018.05.001
FREDY ALTPETER ET AL: "Advancing Crop Transformation in the Era of Genome Editing", THE PLANT CELL, 22 June 2016 (2016-06-22), US, XP055600117, ISSN: 1040-4651, DOI: 10.1105/tpc.16.00196
JENNIFER L. NEMHAUSER ET AL: "Plant synthetic biology for molecular engineering of signalling and development", NATURE PLANTS, vol. 2, no. 3, 2 March 2016 (2016-03-02), pages 16010, XP055569188, DOI: 10.1038/nplants.2016.10
LEVI G. LOWDER ET AL: "A CRISPR/Cas9 Toolbox for Multiplexed Plant Genome Editing and Transcriptional Regulation", PLANT PHYSIOLOGY, vol. 169, no. 2, 21 August 2015 (2015-08-21), Rockville, Md, USA, pages 971 - 985, XP055548389, ISSN: 0032-0889, DOI: 10.1104/pp.15.00636
WUSHENG LIU ET AL: "Synthetic TAL effectors for targeted enhancement of transgene expression in plants", PLANT BIOTECHNOLOGY JOURNAL, vol. 12, no. 4, 1 May 2014 (2014-05-01), GB, pages 436 - 446, XP055568830, ISSN: 1467-7644, DOI: 10.1111/pbi.12150
JEFFREY C MILLER ET AL: "A TALE nuclease architecture for efficient genome editing", NATURE BIOTECHNOLOGY, vol. 29, no. 2, 22 December 2010 (2010-12-22), New York, pages 143 - 148, XP055568321, ISSN: 1087-0156, DOI: 10.1038/nbt.1755
AMI M. KABADI ET AL: "Engineering synthetic TALE and CRISPR/Cas9 transcription factors for regulating gene expression", METHODS, vol. 69, no. 2, 1 September 2014 (2014-09-01), NL, pages 188 - 197, XP055568802, ISSN: 1046-2023, DOI: 10.1016/j.ymeth.2014.06.014
LI ZHENXIANG ET AL: "A potent Cas9-derived gene activator for plant and mammalian cells", NATURE PLANTS, NATURE PUBLISHING GROUP UK, LONDON, vol. 3, no. 12, 20 November 2017 (2017-11-20), pages 930 - 936, XP036428618, DOI: 10.1038/S41477-017-0046-0
Y ESTHER TAK ET AL: "Inducible and multiplex gene regulation using CRISPR-Cpf1-based transcription factors", NATURE METHODS, vol. 14, no. 12, 30 October 2017 (2017-10-30), New York, pages 1163 - 1166, XP055577293, ISSN: 1548-7091, DOI: 10.1038/nmeth.4483
LEVI G. LOWDER ET AL: "Robust Transcriptional Activation in Plants Using Multiplexed CRISPR-Act2.0 and mTALE-Act Systems", MOLECULAR PLANT, vol. 11, no. 2, 28 November 2017 (2017-11-28), GB, pages 245 - 256, XP055577314, ISSN: 1674-2052, DOI: 10.1016/j.molp.2017.11.010
XU TANG ET AL: "A CRISPR-Cpf1 system for efficient genome editing and transcriptional repression in plants", NATURE PLANTS, vol. 3, no. 3, 17 February 2017 (2017-02-17), pages 1 - 5, XP055538473, DOI: 10.1038/nplants.2017.18
RICHARD MOORE ET AL: "Transcription Activator-like Effectors: A Toolkit for Synthetic Biology", ACS SYNTHETIC BIOLOGY, vol. 3, no. 10, 13 February 2014 (2014-02-13), Washington, DC,USA, pages 708 - 716, XP055568918, ISSN: 2161-5063, DOI: 10.1021/sb400137b
YUE XU ET AL: "Regulation of gene expression by manipulating transcriptional repressor activity using a novel CoSRI technology", PLANT BIOTECHNOLOGY JOURNAL, vol. 15, no. 7, 10 March 2017 (2017-03-10), GB, pages 879 - 893, XP055569163, ISSN: 1467-7644, DOI: 10.1111/pbi.12683
BLACK JOSHUA B ET AL: "Synthetic transcription factors for cell fate reprogramming", CURRENT OPINION IN GENETICS & DEVELOPMENT, CURRENT BIOLOGY LTD, XX, vol. 52, 24 May 2018 (2018-05-24), pages 13 - 21, XP085540975, ISSN: 0959-437X, DOI: 10.1016/J.GDE.2018.05.001
FREDY ALTPETER ET AL: "Advancing Crop Transformation in the Era of Genome Editing", THE PLANT CELL, 22 June 2016 (2016-06-22), US, XP055600117, ISSN: 1040-4651, DOI: 10.1105/tpc.16.00196
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