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A holistic ecosystemic investigation of marine giruses, virophages and their eukaryotic hosts

Research Project

Project/Area Number 26430184
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Research Field Genome biology
Research InstitutionKyoto University

Principal Investigator

Ogata Hiroyuki  京都大学, 化学研究所, 教授 (70291432)

Project Period (FY) 2014-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥5,200,000 (Direct Cost: ¥4,000,000、Indirect Cost: ¥1,200,000)
Fiscal Year 2016: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2015: ¥1,560,000 (Direct Cost: ¥1,200,000、Indirect Cost: ¥360,000)
Fiscal Year 2014: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
Keywords巨大ウイルス / 海洋ウイルス / 海洋生態系 / メタゲノム / 多様性 / 微生物生態 / 海洋微生物 / Tara Oceans / ウイルス-宿主相互作用 / 海洋メタゲノム / 微生物多様性 / タラ海洋探査(②フランス)
Outline of Final Research Achievements

Based on a global scale eukaryotic metatranscriptomic data, we revealed that giant viruses actively infect their hosts everywhere at every depth examined. Newly designed PCR primers were used to reveal the existence of over 6,000 genotypes for giant viruses (Megaviridae) in a single water sample collected at Osaka Bay. Developed bioinformatics tools are made publicly accessible through internet (http://www.genome.jp/viptree/, http://www.genome.jp/virushostdb/).

Report

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

    (42 results)

All 2017 2016 2015 2014 Other

All Int'l Joint Research (8 results) Journal Article (12 results) (of which Int'l Joint Research: 9 results,  Peer Reviewed: 11 results,  Open Access: 7 results,  Acknowledgement Compliant: 10 results) Presentation (17 results) (of which Int'l Joint Research: 3 results,  Invited: 5 results) Remarks (5 results)

  • [Int'l Joint Research] CNRS(フランス)

    • Related Report
      2016 Annual Research Report
  • [Int'l Joint Research] Ohaio State University(米国)

    • Related Report
      2016 Annual Research Report
  • [Int'l Joint Research] Aix-Marseille University(フランス)

    • Related Report
      2016 Annual Research Report
  • [Int'l Joint Research] EMBL(ドイツ)

    • Related Report
      2016 Annual Research Report
  • [Int'l Joint Research] Genoscope(フランス)

    • Related Report
      2016 Annual Research Report
  • [Int'l Joint Research] CNRS(フランス)

    • Related Report
      2015 Research-status Report
  • [Int'l Joint Research] EMBL(ドイツ)

    • Related Report
      2015 Research-status Report
  • [Int'l Joint Research] アリゾナ大学(米国)

    • Related Report
      2015 Research-status Report
  • [Journal Article] ViPTree: the viral proteomic tree server2017

    • Author(s)
      Nishimura Y., Yoshida T., Kuronishi M., Uehara H., Ogata H., Goto S.
    • Journal Title

      Bioinformatics

      Volume: 印刷中 Issue: 15 Pages: 1-2

    • DOI

      10.1093/bioinformatics/btx157

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Journal Article] Environmental viral genomes shed new light on virus-host interactions in the ocean2017

    • Author(s)
      Nishimura Y., Watai H., Honda T., Mihara T., Omae K., Roux S., Blanc-Mathieu R., Yamamoto K., Hingamp P., Sako Y., Sullivan M.B., Goto S., Ogata H., Yoshida T.
    • Journal Title

      mSphere

      Volume: 2 Issue: 2 Pages: 1-19

    • DOI

      10.1128/msphere.00359-16

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] A Ralstonia solanacearum phage phiRP15 is closely related to Viunalikeviruses and encodes 19 tRNA-related sequences2016

    • Author(s)
      Tomoko Mihara, Mohamed A. Nasr-Eldin, Orawan Chatchawankanphanich, Anjana Bhunchoth, Namthip Phironrit, Takeru Kawasaki, Miyako Nakano, Makoto Fujie, Hiroyuki Ogata, Takashi Yamada
    • Journal Title

      Virology Reports

      Volume: 6 Pages: 61-73

    • DOI

      10.1016/j.virep.2016.07.001

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Two Asian jumbo phages, phiRSL2 and phiRSF1, infect Ralstonia solanacearum and show common features of phiKZ-related phages2016

    • Author(s)
      Anjana Bhunchoth 他12名
    • Journal Title

      Virology

      Volume: 494 Pages: 56-66

    • DOI

      10.1016/j.virol.2016.03.028

    • Related Report
      2016 Annual Research Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Plankton networks driving carbon export in the oligotrophic ocean.2016

    • Author(s)
      Guidi L., Chaffron S., Bittner L., ..., Ogata H., ..., Karsenti E., Bowler C., Gorsky G.
    • Journal Title

      Nature

      Volume: - Issue: 7600 Pages: 465-470

    • DOI

      10.1038/nature16942

    • NAID

      120005745631

    • Related Report
      2016 Annual Research Report 2015 Research-status Report
    • Peer Reviewed / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Reverse transcriptase genes are highly abundant and transcriptionally active in marine plankton assemblages.2016

    • Author(s)
      Lescot M., Hingamp P., Kojima K.K., Villar E., Romac S., Veluchamy A., Boccara M., Jaillon O., Iudicone D., Bowler C., Wincker P., Claverie J.-M., Ogata H.
    • Journal Title

      ISME J.

      Volume: 10 Issue: 5 Pages: 1134-1146

    • DOI

      10.1038/ismej.2015.192

    • Related Report
      2016 Annual Research Report 2015 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] DNA repair genes in the Megavirales pangenome.2016

    • Author(s)
      Blanc-Mathieu R., Ogata H.
    • Journal Title

      Curr. Opin. Microbiol.

      Volume: 31 Pages: 94-100

    • DOI

      10.1016/j.mib.2016.03.011

    • NAID

      120005741090

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] Linking virus genomes with host taxonomy.2016

    • Author(s)
      Mihara T., Nishimura Y., Shimizu Y., Nishiyama H., Yoshikawa G., Uehara H., Hingamp P., Goto S, Ogata H.
    • Journal Title

      Viruses

      Volume: 8 Issue: 3 Pages: 66-66

    • DOI

      10.3390/v8030066

    • NAID

      120005947134

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] The 474-kilobase-pair complete genome sequence of CeV-01B, a virus infecting Haptolina (Chrysochromulina) ericina (Prymnesiophyceae).2015

    • Author(s)
      Gallot-Lavallee L., Pagarete A., Legendre M., Santini S., Sandaa R.-A., Himmelbauer H., Ogata H., Bratbak G., Claverie J.-M.
    • Journal Title

      Genome Announc.

      Volume: 3 Issue: 6

    • DOI

      10.1128/genomea.01413-15

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Evolution of eukaryotic DNA polymerases via interaction between cells and large DNA viruses.2015

    • Author(s)
      Takemura M., Yokobori S., Ogata H.
    • Journal Title

      J. Mol. Evol.

      Volume: 81 Issue: 1-2 Pages: 24-33

    • DOI

      10.1007/s00239-015-9690-z

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Patterns and ecological drivers of ocean viral communities.2015

    • Author(s)
      Brum J.R., Ignacio-Espinoza J.C., Roux S., ..., Ogata H., ..., Wincker P., Karsenti E., Sullivan M.B.
    • Journal Title

      Science

      Volume: 348 Issue: 6237 Pages: 6237-6237

    • DOI

      10.1126/science.1261498

    • NAID

      120005608041

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Int'l Joint Research / Acknowledgement Compliant
  • [Journal Article] 巨大ウイルスがもたらしたパンドラの箱2014

    • Author(s)
      緒方博之, 武村政春
    • Journal Title

      生物の科学 遺伝

      Volume: 68 Pages: 194-199

    • Related Report
      2014 Research-status Report
  • [Presentation] 遺伝子科学の昨今、生物学からのアプローチ.2016

    • Author(s)
      緒方博之
    • Organizer
      2016年度日仏会館科学シンポジウム「遺伝子の科学」
    • Place of Presentation
      日仏会館ホール
    • Year and Date
      2016-12-03
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] Extreme diversity, high abundance and activities of giant viruses in the sea.2016

    • Author(s)
      Ogata H.
    • Organizer
      日本分子生物学会
    • Place of Presentation
      パシフィコ横浜
    • Year and Date
      2016-12-02
    • Related Report
      2016 Annual Research Report
  • [Presentation] アメーバウイルス研究がもたらしたンパクト.2016

    • Author(s)
      緒方博之
    • Organizer
      日本微生物生態学会年会
    • Place of Presentation
      横須賀
    • Year and Date
      2016-10-24
    • Related Report
      2016 Annual Research Report
  • [Presentation] あなたのウイルスゲノムを分類します.2016

    • Author(s)
      西村陽介, 吉田天士, 緒方博之, 五斗進
    • Organizer
      日本微生物生態学会年会
    • Place of Presentation
      横須賀
    • Year and Date
      2016-10-23
    • Related Report
      2016 Annual Research Report
  • [Presentation] Tara Oceans expedition and giant viruses in marine ecosystems.2016

    • Author(s)
      Ogata H.
    • Organizer
      Biodiversity and Chemical Biology of Marine and Terrestrial Life in the Philippine Region
    • Place of Presentation
      Bohol, Philippines
    • Year and Date
      2016-10-17
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] ウイルスは生命か?-巨大ウイルスを中心に-.2016

    • Author(s)
      緒方博之
    • Organizer
      第56回生物物理若手の会夏の学校
    • Place of Presentation
      支笏湖ユースホステル
    • Year and Date
      2016-09-04
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 海洋巨大ウイルスの多様性と宿主予測.2016

    • Author(s)
      緒方博之
    • Organizer
      水圏微生物研究フォーラム
    • Place of Presentation
      東京大学大気海洋研究所
    • Year and Date
      2016-08-09
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] Virus-host database: a manually curated resource for viral host prediction.2016

    • Author(s)
      Mihara T., Nishimura Y., Nishiyama H., Goto S., Ogata H.
    • Organizer
      8th Aquatic Virus Workshop
    • Place of Presentation
      Plymouth
    • Year and Date
      2016-07-13
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 海洋ウイルス 環境ゲノムから見る多様性・相互作用・分布2016

    • Author(s)
      緒方博之
    • Organizer
      日本海洋学会春季大会
    • Place of Presentation
      東京
    • Year and Date
      2016-03-17
    • Related Report
      2015 Research-status Report
    • Invited
  • [Presentation] Assessing the diversity of the Megaviridae giant viruses based on RNA polymerase beta genes.2015

    • Author(s)
      Mihara T., Koyano H., Hingamp P., Goto S., Ogata H.
    • Organizer
      Informatics in Biology, Medicine and Pharmacology 2015
    • Place of Presentation
      宇治
    • Year and Date
      2015-10-30
    • Related Report
      2015 Research-status Report
  • [Presentation] Revealing complete genomes from metagenomes: a case study for viruses in the ocean.2015

    • Author(s)
      Nishimura Y., Watai W., Honda T., Omae K., Mihara T., Hingamp P., Yamamoto K., Sako Y., Yoshida T., Goto S., Ogata H.
    • Organizer
      Informatics in Biology, Medicine and Pharmacology 2015
    • Place of Presentation
      宇治
    • Year and Date
      2015-10-29
    • Related Report
      2015 Research-status Report
  • [Presentation] A GenomeNet resource for virus-host interaction network analyses.2015

    • Author(s)
      Mihara T., Nishimura Y., Uehara H., Hingamp P., Goto S., Ogata H.
    • Organizer
      Annual meeting of Japanese Society of Microbial Ecology, 2015
    • Place of Presentation
      土浦
    • Year and Date
      2015-10-18
    • Related Report
      2015 Research-status Report
  • [Presentation] A viral proteomic tree server and its application to a marine metagenomic study.2015

    • Author(s)
      Nishimura Y., Mihara T., Yoshida T., Hingamp P., Ogata H., Goto S
    • Organizer
      Annual meeting of Japanese Society of Microbial Ecology, 2015
    • Place of Presentation
      土浦
    • Year and Date
      2015-10-18
    • Related Report
      2015 Research-status Report
  • [Presentation] Metagenomic analysis of viral communities in Osaka bay, Japan.2015

    • Author(s)
      Watai H., Nishimura Y., Mihara T., Honda T, Yamamoto K, Hingamp P., Goto S., Ogata H., Sako Y, Yoshida T.
    • Organizer
      Annual meeting of Japanese Society of Microbial Ecology, 2015
    • Place of Presentation
      土浦
    • Year and Date
      2015-10-18
    • Related Report
      2015 Research-status Report
  • [Presentation] Diversity of marine giant DNA viruses.2015

    • Author(s)
      Mihara T., Koyano H., Goto S., Ogata H.
    • Organizer
      International Workshop on Bioinformatics and Systems Biology 2015
    • Place of Presentation
      Boston
    • Year and Date
      2015-07-19
    • Related Report
      2015 Research-status Report
    • Int'l Joint Research
  • [Presentation] 巨大ウイルスは海洋生態系進化の原動力である2014

    • Author(s)
      緒方博之
    • Organizer
      第37回日本分子生物学会年会
    • Place of Presentation
      パシフィコ横浜
    • Year and Date
      2014-11-25 – 2014-11-27
    • Related Report
      2014 Research-status Report
  • [Presentation] Why do some viruses encode amino acid biosynthetic genes?2014

    • Author(s)
      Mihara T., Goto S., Ogata H.
    • Organizer
      生命医薬情報学連合大会 2014
    • Place of Presentation
      仙台国際センター
    • Year and Date
      2014-10-02 – 2014-10-04
    • Related Report
      2014 Research-status Report
  • [Remarks] Virus-Host Database

    • URL

      http://www.genome.jp/virushostdb/

    • Related Report
      2016 Annual Research Report
  • [Remarks] ViPTree

    • URL

      http://www.genome.jp/viptree/

    • Related Report
      2016 Annual Research Report
  • [Remarks] Taxonomy summary

    • URL

      http://www.genome.jp/tools-bin/taxsummary

    • Related Report
      2016 Annual Research Report
  • [Remarks] MGENES

    • URL

      http://www.genome.jp/mgenes/

    • Related Report
      2016 Annual Research Report
  • [Remarks] ウイルス―宿主データベース

    • URL

      http://www.genome.jp/virushostdb/

    • Related Report
      2015 Research-status Report

URL: 

Published: 2014-04-04   Modified: 2022-01-27  

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