Title:
DIGITAL ANALYSIS OF MICROBIAL FLORA
Document Type and Number:
WIPO Patent Application WO/2020/218553
Kind Code:
A1
Abstract:
The present disclosure provides a method for evaluating an absolute number of a microbial flora composition inexpensively, simply, and/or highly accurately. The method for analyzing a microbial flora composition comprises a step for evaluating the microbial flora composition from a specimen including amplified nucleic acids derived from respective cells in the microbial flora. According to this method, in an execution before whole-genome sequencing, the absolute number of the microbial flora can be evaluated inexpensively and simply, and after whole-genome sequencing, it becomes possible to compare with a long gene sequence by narrowing, from digital sequence information, information to be analyzed, thereby increasing the degree of accuracy.
Inventors:
HOSOKAWA MASAHITO (JP)
TAKEYAMA HARUKO (JP)
NISHIKAWA YOHEI (JP)
KOGAWA MASATO (JP)
TAKEYAMA HARUKO (JP)
NISHIKAWA YOHEI (JP)
KOGAWA MASATO (JP)
Application Number:
PCT/JP2020/017792
Publication Date:
October 29, 2020
Filing Date:
April 24, 2020
Export Citation:
Assignee:
BITBIOME INC (JP)
International Classes:
C12Q1/6844; C12M1/00; C12M1/28; C12M1/34; C12Q1/04; C12Q1/6869
Domestic Patent References:
| WO2019216271A1 | 2019-11-14 |
Foreign References:
| US20180371525A1 | 2018-12-27 | |||
| US20160068899A1 | 2016-03-10 |
Other References:
LAN FREEMAN ET AL: "Single-cell genome sequencing at ultra-high-throughput with microfluidic droplet barcoding. (includes Online Methods)", NATURE BIOTECHNOLOGY, vol. 35, no. 7, 1 July 2017 (2017-07-01), pages 640 - 646+4pp, XP002785526, ISSN: 1546-1696, DOI: 10.1038/nbt.3880
MASAHITO HOSOKAWA, YOHEI NISHIKAWA, MASATO KOGAWA, HARUKO TAKEYAMA: "Massively parallel whole genome amplification for single-cell sequencing using droplet microfluidics", SCIENTIFIC REPORTS, vol. 7, no. 1, 1 December 2017 (2017-12-01), XP055672497, DOI: 10.1038/s41598-017-05436-4
KOGAWA, MASATO ET AL.: "Obtaining high-quality draft genomes from uncultured microbes by cleaning and co-assembly of single- cell amplified genomes", SCIENTIFIC REPORTS, vol. 8, no. 2059, 1 February 2018 (2018-02-01), pages 1 - 11, XP002785526, DOI: 10.1038/s41598-018-20384-3
TAMMINEN, MANU V. ET AL.: "Single gene -based distinction of individual microbial genomes from a mixed population of microbial cells", FRONTIERS IN MICROBIOLOGY, vol. 6, no. 195, 11 March 2015 (2015-03-11), pages 1 - 10, XP055672497, DOI: 10.3389/ fmicb.2015.00195
NISHIKAWA, YOHEI ET AL., DROPLET MICROFLUIDICS TOWARD ACCURATE GENOME SEQUENCING OF ENVIRONMENTAL BACTERIA AT THE SINGLE- CELL LEVEL, vol. 98, March 2018 (2018-03-01)
RIEKA CHIJIIWA, HOSOKAWA MASAHITO, KOGAWA MASATO, NISHIKAWA YOHEI, IDE KEIGO, SAKANASHI CHIKAKO, TAKAHASHI KAI, TAKEYAMA HARUKO: "Single-cell genomics of uncultured bacteria reveals dietary fiber responders in the mouse gut microbiota", MICROBIOME, vol. 8, no. 1, 1 December 2020 (2020-12-01), XP055759172, DOI: 10.1186/s40168-019-0779-2
YOHEI NISHIKAWA, KOGAWA MASATO, HOSOKAWA MASAHITO, MINETA KATSUHIKO, TAKAHASHI KAI, SAKANASHI CHIKAKO, BEHZAD HAYEDEH, GOJOBORI TA: "Massively parallel single-cell genome sequencing enables high-resolution analysis of soil and marine microbiome", BIORXIV, 6 March 2020 (2020-03-06), XP055759176, Retrieved from the Internet [retrieved on 20201211], DOI: 10.1101/2020.03.05.962001
MASAHITO HOSOKAWA, YOHEI NISHIKAWA, MASATO KOGAWA, HARUKO TAKEYAMA: "Massively parallel whole genome amplification for single-cell sequencing using droplet microfluidics", SCIENTIFIC REPORTS, vol. 7, no. 1, 1 December 2017 (2017-12-01), XP055672497, DOI: 10.1038/s41598-017-05436-4
KOGAWA, MASATO ET AL.: "Obtaining high-quality draft genomes from uncultured microbes by cleaning and co-assembly of single- cell amplified genomes", SCIENTIFIC REPORTS, vol. 8, no. 2059, 1 February 2018 (2018-02-01), pages 1 - 11, XP002785526, DOI: 10.1038/s41598-018-20384-3
TAMMINEN, MANU V. ET AL.: "Single gene -based distinction of individual microbial genomes from a mixed population of microbial cells", FRONTIERS IN MICROBIOLOGY, vol. 6, no. 195, 11 March 2015 (2015-03-11), pages 1 - 10, XP055672497, DOI: 10.3389/ fmicb.2015.00195
NISHIKAWA, YOHEI ET AL., DROPLET MICROFLUIDICS TOWARD ACCURATE GENOME SEQUENCING OF ENVIRONMENTAL BACTERIA AT THE SINGLE- CELL LEVEL, vol. 98, March 2018 (2018-03-01)
RIEKA CHIJIIWA, HOSOKAWA MASAHITO, KOGAWA MASATO, NISHIKAWA YOHEI, IDE KEIGO, SAKANASHI CHIKAKO, TAKAHASHI KAI, TAKEYAMA HARUKO: "Single-cell genomics of uncultured bacteria reveals dietary fiber responders in the mouse gut microbiota", MICROBIOME, vol. 8, no. 1, 1 December 2020 (2020-12-01), XP055759172, DOI: 10.1186/s40168-019-0779-2
YOHEI NISHIKAWA, KOGAWA MASATO, HOSOKAWA MASAHITO, MINETA KATSUHIKO, TAKAHASHI KAI, SAKANASHI CHIKAKO, BEHZAD HAYEDEH, GOJOBORI TA: "Massively parallel single-cell genome sequencing enables high-resolution analysis of soil and marine microbiome", BIORXIV, 6 March 2020 (2020-03-06), XP055759176, Retrieved from the Internet
Attorney, Agent or Firm:
YAMAMOTO Shusaku et al. (JP)
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