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Reconstruction of Planctomycete genome with targeted-metagenomics

Research Project

Project/Area Number 26440255
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Ecology/Environment
Research InstitutionNational Institute of Advanced Industrial Science and Technology

Principal Investigator

Suenaga Hikaru  国立研究開発法人産業技術総合研究所, 創薬基盤研究部門, 主任研究員 (90357252)

Project Period (FY) 2014-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥4,940,000 (Direct Cost: ¥3,800,000、Indirect Cost: ¥1,140,000)
Fiscal Year 2016: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2015: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2014: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Keywordsメタゲノミクス / ゲノムインフォマティクス / 難培養微生物 / 微生物進化 / 海洋微生物 / メタゲノム / 環境メタゲノム解析 / ゲノム / バイオインフォマティクス / 極限環境適応
Outline of Final Research Achievements

The overall ecological functions of Planctomycetes have not been studied in depth despite their wide distribution in natural environments. Given that the group are often difficult to culture, a deep understanding of the ecological function of this group would only be accessible by metagenomic approaches. Therfore, a microbial mat from the sediment shelf was analyzed by a targeted-metagenomic approach. The DNA extracted from the microbial mat was pyrosequenced with 454-platform. The degradation genes for Benzoyl-CoA which is one central intermediate of anaerobic aromatic degradation were found in the assembled metagenomic sequences. Other catabolic genes involved in nitrogen cycle were also found. The presented findings indicate that the metabolic diversity of Planctomycetes is wider than currently known.

Report

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

    (9 results)

All 2017 2016 2015 2014

All Journal Article (5 results) (of which Int'l Joint Research: 3 results,  Peer Reviewed: 5 results,  Open Access: 5 results,  Acknowledgement Compliant: 3 results) Presentation (4 results) (of which Int'l Joint Research: 2 results)

  • [Journal Article] Complete genome sequence of the polychlorinated biphenyl-degrading bacterium Pseudomonas putida KF715 (NBRC 110667) isolated from biphenyl-contaminated soil2017

    • Author(s)
      Suenaga, H., Yamazoe, A., Hosoyama, A., Kimura, N., Hirose, J., Watanabe, T., Fujihara, H., Futagami, T., Goto, M., Furukawa, K.
    • Journal Title

      Genome announcements

      Volume: 5 Issue: 7

    • DOI

      10.1128/genomea.01624-16

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Screening, identification, and characterization of α-xylosidase from a soil metagenome2016

    • Author(s)
      Matsuzawa T, Kimura N, Suenaga H, Yaoi K.
    • Journal Title

      J BIOSCI BIOENG

      Volume: 122 Issue: 4 Pages: 393-399

    • DOI

      10.1016/j.jbiosc.2016.03.012

    • NAID

      40020966071

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Targeted metagenomics unveils the molecular basis for adaptive evolution of enzymes to their environment2015

    • Author(s)
      Hikaru Suenaga
    • Journal Title

      FRONTIERS IN MICROBIOLOGY

      Volume: 6 Pages: 1-5

    • DOI

      10.3389/fmicb.2015.01018

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] メタゲノム手法は微生物培養法を凌駕するのか?2015

    • Author(s)
      末永光
    • Journal Title

      KAGAKU TO SEIBUTSU

      Volume: 53 Issue: 8 Pages: 488-490

    • DOI

      10.1271/kagakutoseibutsu.53.488

    • NAID

      130005165650

    • ISSN
      0453-073X, 1883-6852
    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Diversity of extradiol dioxygenases in aromatic-degrading microbial community explored using both culture-dependent and culture-independent approaches2014

    • Author(s)
      Hikaru Suenaga, Shiori Mizuta, Kentaro Miyazaki and Katsuro Yaoi
    • Journal Title

      FEMS Microbiology Ecology

      Volume: 90 Pages: 367-379

    • DOI

      10.1111/1574-6941.12390

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Presentation] Which is a better approach for enzyme exploration?: culture-dependent and -independent (metagenomic) approaches to the screening for aromatic-degrading enzymes.2016

    • Author(s)
      Hikaru Suenaga
    • Organizer
      International Symposium Microbial Ecology
    • Place of Presentation
      Palais des Congres de Montreal, Montreal, Canada
    • Year and Date
      2016-08-25
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] メタゲノム解析により推察される大西洋熱水噴出域に棲息する微生物群の環境適応 戦略2015

    • Author(s)
      末永光、Sixing Huang、Regina Schauer、Hanno Teering、Anke Meyerdierks、Rudolf Amann
    • Organizer
      NGS現場の会 第四回研究会
    • Place of Presentation
      つくば
    • Year and Date
      2015-07-02
    • Related Report
      2015 Research-status Report
  • [Presentation] Which is better approach for enzyme exploration?: Culture-dependent and -independent (metagenomic) approaches to the screening for aromatic-degrading enzymes2015

    • Author(s)
      Hikaru Suenaga, Kentaro Miyazaki, Katsuro Yaoi
    • Organizer
      FEMS 2015
    • Place of Presentation
      オランダ
    • Year and Date
      2015-06-10
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research
  • [Presentation] メタゲノム手法と培養法:酵素遺伝子スクリーニングのための手法間の比較解析2014

    • Author(s)
      末永光、水田志織、宮崎健太郎、矢追克郎
    • Organizer
      環境微生物系学会合同大会
    • Place of Presentation
      浜松
    • Year and Date
      2014-10-23
    • Related Report
      2014 Research-status Report

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Published: 2014-04-04   Modified: 2018-03-22  

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