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Study on novel functions of nitrogen fixation and hydrogen utilization in bacteria of the order Bacteroidales

Research Project

Project/Area Number 26292047
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypePartial Multi-year Fund
Section一般
Research Field Applied microbiology
Research InstitutionInstitute of Physical and Chemical Research

Principal Investigator

OHKUMA Moriya  国立研究開発法人理化学研究所, バイオリソースセンター, 室長 (10270597)

Co-Investigator(Kenkyū-buntansha) 野田 悟子  山梨大学, 総合研究部, 准教授 (80342830)
Co-Investigator(Renkei-kenkyūsha) HONGOH Yuichi  東京工業大学, 生命理工学研究科, 教授 (90392117)
Research Collaborator YUKI Masahiro  
INOUE Jun-ichi  
Project Period (FY) 2014-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥16,640,000 (Direct Cost: ¥12,800,000、Indirect Cost: ¥3,840,000)
Fiscal Year 2016: ¥4,810,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥1,110,000)
Fiscal Year 2015: ¥4,810,000 (Direct Cost: ¥3,700,000、Indirect Cost: ¥1,110,000)
Fiscal Year 2014: ¥7,020,000 (Direct Cost: ¥5,400,000、Indirect Cost: ¥1,620,000)
Keywords微生物機能 / 窒素固定 / 水素代謝 / 共生 / シングルセルゲノム / 還元的酢酸生成 / Bacteroidales目細菌 / スピロヘータ / ゲノム / 生態 / 進化 / 微生物 / 生態学 / 分類学 / 微生物ゲノム / 微生物進化 / 生物多様性 / 難培養微生物
Outline of Final Research Achievements

We found bacterial species in the order Bacteroidales that harbor genes for nitrogen fixation or genes homologous to archaea for hydrogen utilization in the genomes, and we detected the respective activities in their representative cultured strains. We identified an endosymbiotic spirochete species of a termite-gut cellulolytic protist species that contributes to the activities for both nitrogen fixation and hydrogen-utilizing reductive acetogenesis in the gut. Through single-cell genome sequencing, we investigated functions and symbiotic mechanisms of this endosymbiont and two ectosymbiotic Bacteroidales species attached onto cell surface of termite-gut protists.

Report

(4 results)
  • 2016 Annual Research Report   Final Research Report ( PDF )
  • 2015 Annual Research Report
  • 2014 Annual Research Report
  • Research Products

    (31 results)

All 2017 2016 2015 2014 Other

All Int'l Joint Research (2 results) Journal Article (10 results) (of which Int'l Joint Research: 6 results,  Peer Reviewed: 8 results,  Open Access: 6 results,  Acknowledgement Compliant: 5 results) Presentation (16 results) (of which Int'l Joint Research: 3 results,  Invited: 5 results) Book (1 results) Remarks (2 results)

  • [Int'l Joint Research] University of Sydney(Australia)

    • Related Report
      2016 Annual Research Report
  • [Int'l Joint Research] リバプール大(英国)

    • Related Report
      2015 Annual Research Report
  • [Journal Article] Desulfovibrio trichonymphae’, an H2-oxidizing bacterium in a tripartite symbiotic system within a protist cell in the termite gut.2017

    • Author(s)
      Kuwahara, H., Yuki, M., Izawa, K., Ohkuma, M., Hongoh, Y
    • Journal Title

      ISME J.

      Volume: 11(3) Pages: 766-776

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Comparison of intracellular “Ca. Endomicrobium trichonymphae” genomovars illuminates the requirement and decay of defense systems against foreign DNA2016

    • Author(s)
      Izawa, K., H. Kuwahara, K. Kihara, M. Yuki, N. Lo, T. Ito, M. Ohkuma, Y. Hongoh
    • Journal Title

      Genome Biol. Evol.

      Volume: 8(10) Issue: 10 Pages: 3099-3107

    • DOI

      10.1093/gbe/evw227

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Nitrogen fixation and nifH diversity in human gut microbiota2016

    • Author(s)
      Igai, K., M. Itakura, S. Nishijima, H. Tsurumaru, W. Suda, T. Tsutaya, E. Tomitsuka, K. Tadokoro, J. Baba, S. Odani, K. Natsuhara, A. Morita, M. Yoneda, A. R. Greenhill, P. F. Horwood, J. Inoue, M. Ohkuma, Y. Hongoh, T. Yamamoto, P. M. Siba, M. Hattori, K. Minamisawa, M. Umezaki
    • Journal Title

      Sci. Rep.

      Volume: 6 Issue: 1 Pages: 31942-31942

    • DOI

      10.1038/srep31942

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Bacteroides caecicola sp. nov. and Bacteroides gallinaceum sp. nov., isolated from the caecum of an Indonesian chicken2016

    • Author(s)
      Irisawa, T., S. Saputra, M. Kitahara, M. Sakamoto, S. Tiani, T. Yulineri, A. Dinoto, M. Ohkuma
    • Journal Title

      Int. J. Syst. Evol. Microbiol.

      Volume: 66 Issue: 3 Pages: 1431-1437

    • DOI

      10.1099/ijsem.0.000899

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] 難培養微生物のシングルセルゲノム解析2016

    • Author(s)
      雪 真弘、大熊 盛也
    • Journal Title

      バイオサイエンスとインダストリー

      Volume: 74(6) Pages: 488-491

    • NAID

      40021006286

    • Related Report
      2016 Annual Research Report
  • [Journal Article] The outset of another nitrogenase2016

    • Author(s)
      Ohkuma, M.
    • Journal Title

      Environ Microbiol

      Volume: 18 Issue: 1 Pages: 4-4

    • DOI

      10.1111/1462-2920.13001

    • Related Report
      2015 Annual Research Report
  • [Journal Article] Dominant ectosymbiotic bacteria of cellulolytic protists in the termite gut also have the potential to digest lignocellulose2015

    • Author(s)
      Yuki M., Kuwahara H., Shintani M., Izawa K., Sato T., Starns D., Hongoh Y., Ohkuma M.
    • Journal Title

      Environmental Microbiology

      Volume: 17 Issue: 12 Pages: 4942-4953

    • DOI

      10.1111/1462-2920.12945

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Acetogenesis from H2 plus CO2 and nitrogen fixation by an endosymbiotic spirochete of a termite-gut cellulolytic protist2015

    • Author(s)
      Ohkuma, M., S. Noda, S. Hattori, T. Iida, M. Yuki, D. Starns, J. Inoue, A.C. Darby, and Y. Hongoh
    • Journal Title

      Proc Natl Acad Sci USA

      Volume: 112 Issue: 33 Pages: 10224-10230

    • DOI

      10.1073/pnas.1423979112

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] High quality draft genome sequence of Bacteroides barnesiae type strain BL2T (DSM 18169T) from chicken caecum2015

    • Author(s)
      Sakamoto, M., A. L. Lapidus, J. Han, S. Trong, M. Haynes, T. B. K. Reddy, N. Mikhailova, M. Huntemann, A. Pati, N. N. Ivanova, R. Pukall, V. M. Markowitz, T. Woyke, H.-P. Klenk, N. C. Kyrpides, and M. Ohkuma
    • Journal Title

      Stand Genomic Sci

      Volume: 10 Issue: 1 Pages: 48-48

    • DOI

      10.1186/s40793-015-0045-6

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Distribution and Evolution of Nitrogen Fixation Genes in the Phylum <i>Bacteroidetes</i>2015

    • Author(s)
      Inoue, J., Oshima K., Suda, W., Sakamoto, M., Iino, T., Noda, S., Hongoh, Y., Hattori, M. and Ohkuma, M.
    • Journal Title

      Microbes and Environments

      Volume: 30 Issue: 1 Pages: 44-50

    • DOI

      10.1264/jsme2.ME14142

    • NAID

      130005061711

    • ISSN
      1342-6311, 1347-4405
    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Presentation] シロアリ腸内原生生物細胞表面共生細菌のmicrodiversity解析にもとづく伝播様式についての考察2016

    • Author(s)
      猪飼 桂、望月 悠司、雪 真弘、大熊 盛也、本郷 裕一
    • Organizer
      日本微生物生態学会第31回大会
    • Place of Presentation
      横須賀文化会館(神奈川県・横須賀市)
    • Year and Date
      2016-10-23
    • Related Report
      2016 Annual Research Report
  • [Presentation] 長期に隔離された共生微生物群集では群集レベルの競争が生じるか?2016

    • Author(s)
      北出 理、佐藤 渚、野田 悟子、飯田 敏也、大熊 盛也
    • Organizer
      日本微生物生態学会第31回大会
    • Place of Presentation
      横須賀文化会館(神奈川県・横須賀市)
    • Year and Date
      2016-10-23
    • Related Report
      2016 Annual Research Report
  • [Presentation] シロアリ腸内の難培養性細菌のシングルセルゲノム解析2016

    • Author(s)
      大熊盛也、雪 真弘、David Starns、桑原宏和、本郷裕一
    • Organizer
      日本微生物資源学会第23回大会
    • Place of Presentation
      千葉大学(千葉県・千葉市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] バイオマスの循環を支えるシロアリの多重共生系2016

    • Author(s)
      野田悟子、雪真弘、大熊盛也
    • Organizer
      日本水環境学会シンポジウム
    • Place of Presentation
      秋田県立大学(秋田県・秋田市)
    • Related Report
      2016 Annual Research Report
  • [Presentation] シロアリ腸内の原生生物の細胞内で効率的に働く共生細菌2015

    • Author(s)
      大熊盛也
    • Organizer
      第38回日本分子生物学会年会 第88回日本生化学会大会 合同大会
    • Place of Presentation
      神戸国際会議場(兵庫県・神戸)
    • Year and Date
      2015-12-04
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] Single-cell genomics of Bacteroidales ectosymbionts of termite-gut protists2015

    • Author(s)
      Masahiro Yuki, Hirokazu Kuwahara, David Starns, Kazuki Izawa, Yuichi Hongoh, Moriya Ohkuma
    • Organizer
      2nd International Symposium, Matryoshka-type Evolution of Eukaryotic Cells
    • Place of Presentation
      筑波大学大学会館(茨城県・つくば市)
    • Year and Date
      2015-10-01
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Comparative genomics of the nitrogen-fixing endosymbionts of the cellulolytic protists Pseudotrichonympha spp. in the gut of termites2015

    • Author(s)
      Agent Pramono, Akinori Yamada,Hirokazu Kuwahara,Takako Mabuchi,Osamu Kitade, Nathan Lo, Atsushi Toyoda, Takehiko Ito, Moriya Ohkuma, Yuichi Hongoh
    • Organizer
      2nd International Symposium, Matryoshka-type Evolution of Eukaryotic Cells
    • Place of Presentation
      筑波大学大学会館(茨城県・つくば市)
    • Year and Date
      2015-10-01
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] CO2 and N2-fixing endosymbionts of termite-gut cellulolytic pritists2015

    • Author(s)
      Ohkuma, M.
    • Organizer
      2nd International Symposium, Matryoshka-type Evolution of Eukaryotic Cells
    • Place of Presentation
      筑波大学大学会館(茨城県・つくば市)
    • Year and Date
      2015-09-30
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] シロアリ腸内の原生生物細胞内の細菌の共生と進化2015

    • Author(s)
      大熊盛也
    • Organizer
      日本進化学会第17回大会
    • Place of Presentation
      中央大学後楽園キャンパス(東京都・東京)
    • Year and Date
      2015-08-21
    • Related Report
      2015 Annual Research Report
    • Invited
  • [Presentation] シロアリ腸内原生生物に細胞表面共生するSymbiothrix dinenymphaeの1細胞ゲノム解析2015

    • Author(s)
      雪真弘、桑原宏和、新谷政己、伊澤和輝、本郷裕一、大熊盛也
    • Organizer
      日本農芸化学会2015年度大会
    • Place of Presentation
      岡山 岡山大学津島キャンパス
    • Year and Date
      2015-03-28
    • Related Report
      2014 Annual Research Report
  • [Presentation] Bacteroidetes門細菌の窒素固定に関する諸解析2015

    • Author(s)
      井上潤一、本郷裕一、坂本光央、大島健志朗、服部正平、大熊盛也
    • Organizer
      日本農芸化学会2015年度大会
    • Place of Presentation
      岡山 岡山大学津島キャンパス
    • Year and Date
      2015-03-27
    • Related Report
      2014 Annual Research Report
  • [Presentation] 高等シロアリ腸内に共生する優占種細菌3種のシングル・セルゲノム解析2014

    • Author(s)
      雪 真弘、桑原 宏和, ,新谷 政己, 本郷 裕一, 大熊 盛也
    • Organizer
      環境微生物系学会合同大会2014
    • Place of Presentation
      浜松 アクトシティ浜松
    • Year and Date
      2014-10-22
    • Related Report
      2014 Annual Research Report
  • [Presentation] Single cell genomic insights into Treponema diversity in the gut of the higher termite Nasutitermes takasagoensis.2014

    • Author(s)
      David Starns、雪 真弘, 桑原 宏和, 本郷 裕一, Darby Alistair, 大熊 盛也
    • Organizer
      環境微生物系学会合同大会2014
    • Place of Presentation
      浜松 アクトシティ浜松
    • Year and Date
      2014-10-22
    • Related Report
      2014 Annual Research Report
  • [Presentation] Metabolic integration across endosymbiotic communities2014

    • Author(s)
      Moriya Ohkuma
    • Organizer
      Arthur M. Sackler Coloquium "Symbioses becoming permanent: The origins and evolutionary trajectories of organelles"
    • Place of Presentation
      Irvine CA, USA
    • Year and Date
      2014-10-17
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Nitrogen fixation and evolution of nif genes in the phylum Bacteroidetes2014

    • Author(s)
      Jun-ichi Inoue, Mitsuo Sakamoto, Kenshiro Oshima, Masahira Hattori, Moriya Ohkuma
    • Organizer
      15th International Symposium on Microbial Ecology (ISME15)
    • Place of Presentation
      Seoul, South Korea
    • Year and Date
      2014-08-26
    • Related Report
      2014 Annual Research Report
  • [Presentation] Molecular studies of termite-gut protists on cellulose utilization2014

    • Author(s)
      Moriya Ohkuma
    • Organizer
      17th Congress of International Union for the Study of Social Insects
    • Place of Presentation
      Cairns, Australia
    • Year and Date
      2014-07-16
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Book] 第7章シロアリ共生微生物 共生微生物―生物と密接に関わるミクロな生命体― 大野博司(編)2016

    • Author(s)
      大熊盛也
    • Publisher
      化学同人
    • Related Report
      2016 Annual Research Report
  • [Remarks] シロアリ腸内の原生生物の表面共生細菌がリグノセルロース分解に寄与

    • URL

      http://www.riken.jp/pr/press/2015/20150706_1/

    • Related Report
      2015 Annual Research Report
  • [Remarks] シロアリは腸内微生物によって高効率にエネルギーと栄養を獲得

    • URL

      http://www.riken.jp/pr/press/2015/20150512_2/

    • Related Report
      2015 Annual Research Report

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Published: 2014-04-04   Modified: 2022-01-31  

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