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Environment-dependent convergence of functional composition in microbial communities

Research Project

Project/Area Number 15K07214
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Ecology/Environment
Research InstitutionNational Institute of Genetics (2016-2017)
Tokyo Institute of Technology (2015)

Principal Investigator

Mori Hiroshi  国立遺伝学研究所, 生命情報研究センター, 助教 (40610837)

Project Period (FY) 2015-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000)
Fiscal Year 2017: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2016: ¥2,990,000 (Direct Cost: ¥2,300,000、Indirect Cost: ¥690,000)
Fiscal Year 2015: ¥780,000 (Direct Cost: ¥600,000、Indirect Cost: ¥180,000)
Keywords細菌群集 / メタゲノム / バイオインフォマティクス / データベース
Outline of Final Research Achievements

We have developed 16S rRNA gene amplicon and metagenomic sequence analysis pipeline MeGAP2. Using MeGAP2, we have inferred taxonomic composition and functional composition of each 16S rRNA gene amplicon and metagenomic sequencing sample in public INSDC DRA database. In addition, we have annotated the environment information of each sample by using Metagenome/Microbes Environmental Ontology. By comparing taxonomic composition and functional composition, we have identified more than 200 sample pairs of possibly causing environment-dependent convergence of functional composition in microbial communities.

Report

(4 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Research-status Report
  • 2015 Research-status Report
  • Research Products

    (17 results)

All 2018 2017 2016 2015

All Journal Article (1 results) (of which Peer Reviewed: 1 results,  Open Access: 1 results) Presentation (12 results) (of which Int'l Joint Research: 3 results,  Invited: 2 results) Book (4 results)

  • [Journal Article] VITCOMIC2: Visualization tool for the phylogenetic composition of microbial communities based on 16S rRNA gene amplicons and metagenomic shotgun sequencing.2018

    • Author(s)
      Mori H, Maruyama T, Yano M, Yamada T, Kurokawa K
    • Journal Title

      BMC Syst. Biol.

      Volume: 12 Issue: S2 Pages: 30-30

    • DOI

      10.1186/s12918-018-0545-2

    • Related Report
      2017 Annual Research Report
    • Peer Reviewed / Open Access
  • [Presentation] Developing tools and database for microbial community analysis2018

    • Author(s)
      Mori H.
    • Organizer
      マイクロバイオーム研究開発の最前線
    • Related Report
      2017 Annual Research Report
    • Invited
  • [Presentation] 微生物群集の系統組成推定ツールVITCOMIC2のMicrobeDB.jpへの応用2018

    • Author(s)
      森宙史, 黒川顕
    • Organizer
      第12回日本ゲノム微生物学会年会
    • Related Report
      2017 Annual Research Report
  • [Presentation] 大量データに対応した微生物群集の系統組成推定・描画ツールVITCOMIC22017

    • Author(s)
      森宙史, 丸山貴之, 矢野雅大, 黒川顕
    • Organizer
      第11回日本ゲノム微生物学会年会
    • Place of Presentation
      慶應義塾大学湘南藤沢キャンパス
    • Year and Date
      2017-03-03
    • Related Report
      2016 Research-status Report
  • [Presentation] VITCOMIC2: visualization tool for the phylogenetic composition of microbial communities based on 16S rRNA gene amplicons and metagenomic shotgun sequencing data2017

    • Author(s)
      Mori H, Maruyama T, Yano M, Yamada T, Kurokawa K.
    • Organizer
      NIG International Symposium 2017 Commemorating the 30th Anniversary of DDBJ
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] VITCOMIC2: visualization of the phylogenetic composition of microbial communities based on 16S rRNA gene amplicons and metagenomic shotgun sequencing2017

    • Author(s)
      Mori H, Maruyama T, Yano M, Yamada T, Kurokawa K.
    • Organizer
      ProkaGENOMICS 2017
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] VITCOMIC2: Visualization tool for the phylogenetic composition of microbial communities based on 16S rRNA gene amplicons and metagenomic shotgun sequencing2017

    • Author(s)
      Mori H, Maruyama T, Yano M, Yamada T, Kurokawa K.
    • Organizer
      GIW 2017
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 微生物群集の系統組成推定・描画ツールVITCOMIC2の開発と応用2017

    • Author(s)
      森宙史
    • Organizer
      NGS現場の会第五回研究会
    • Related Report
      2017 Annual Research Report
  • [Presentation] 微生物統合データベースMicrobeDB.jp 2.0のデータ統合の実際2016

    • Author(s)
      森宙史
    • Organizer
      第5回生命医薬情報学連合大会
    • Place of Presentation
      東京国際交流館プラザ平成
    • Year and Date
      2016-08-25
    • Related Report
      2016 Research-status Report
  • [Presentation] 微生物統合データベース MicrobeDB.jpの検索システムの高度化と新解析パイプライン2016

    • Author(s)
      森宙史, 藤澤貴智, 千葉啓和, 内山郁夫, 菅原秀明, 中村保一, 黒川顕, MicrobeDB.jpプロジェクトチーム
    • Organizer
      第10回日本ゲノム微生物学会年会
    • Place of Presentation
      東京工業大学
    • Year and Date
      2016-03-04
    • Related Report
      2015 Research-status Report
  • [Presentation] 環境情報を用いた微生物統合データベースの超高度化2015

    • Author(s)
      森宙史
    • Organizer
      生命医薬情報学連合大会2015年大会
    • Place of Presentation
      京都大学宇治キャンパスおうばくプラザ
    • Year and Date
      2015-10-31
    • Related Report
      2015 Research-status Report
  • [Presentation] 微生物統合データベースMicrobeDB.jpの超高度化2015

    • Author(s)
      森宙史, 藤澤貴智, 千葉啓和, 内山郁夫, 菅原秀明, 中村保一, 黒川顕, MicrobeDB.jpプロジェクトチーム
    • Organizer
      トーゴーの日シンポジウム2015
    • Place of Presentation
      東京大学弥生講堂一条ホール
    • Year and Date
      2015-10-05
    • Related Report
      2015 Research-status Report
  • [Presentation] 微生物統合データベースMicrobeDB.jpのメタゲノム情報を用いた超高度化2015

    • Author(s)
      森宙史
    • Organizer
      ラン藻ゲノム交流会2015
    • Place of Presentation
      東京大学駒場キャンパス16号館119・129号室
    • Year and Date
      2015-07-25
    • Related Report
      2015 Research-status Report
    • Invited
  • [Book] 細菌のゲノム進化と群集ダイナミクス2017

    • Author(s)
      森宙史
    • Total Pages
      186
    • Publisher
      医学書院
    • Related Report
      2017 Annual Research Report
  • [Book] メタゲノム解析・ホロゲノム解析2017

    • Author(s)
      森宙史, 黒川顕
    • Total Pages
      180
    • Publisher
      医薬ジャーナル社
    • Related Report
      2017 Annual Research Report
  • [Book] 今すぐ始める!メタゲノム解析 実験プロトコール2016

    • Author(s)
      東光一, 森宙史, 黒川顕
    • Total Pages
      231
    • Publisher
      羊土社
    • Related Report
      2016 Research-status Report
  • [Book] 微生物統合データベースによる微生物と環境の研究への貢献, 難培養微生物研究の最新技術 III の1章分として2015

    • Author(s)
      森宙史, 東光一, 山田拓司, 黒川顕
    • Total Pages
      10
    • Publisher
      シーエムシー出版
    • Related Report
      2015 Research-status Report

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Published: 2015-04-16   Modified: 2019-03-29  

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