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Multi-omics study to elucidate the molecular mechanism of anhydrobiosis in tardigrade Ramazzottius varieornatus

Research Project

Project/Area Number 22681029
Research Category

Grant-in-Aid for Young Scientists (A)

Allocation TypeSingle-year Grants
Research Field Genome biology
Research InstitutionKeio University

Principal Investigator

ARAKAWA Kazuharu  慶應義塾大学, 政策・メディア研究科, 特任講師 (40453550)

Project Period (FY) 2010-04-01 – 2014-03-31
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥20,280,000 (Direct Cost: ¥15,600,000、Indirect Cost: ¥4,680,000)
Fiscal Year 2013: ¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000)
Fiscal Year 2012: ¥5,200,000 (Direct Cost: ¥4,000,000、Indirect Cost: ¥1,200,000)
Fiscal Year 2011: ¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Fiscal Year 2010: ¥6,890,000 (Direct Cost: ¥5,300,000、Indirect Cost: ¥1,590,000)
Keywordsメタボローム / システム生物学 / プロテオーム / 乾眠 / クマムシ / クリプトビオシス / マルチオミクス / バイオインフォマティクス / トランスクリプトーム / 乾燥耐性 / ヨコヅナクマムシ / Hypsibius dujardini / CE-MS / LC-MS / 極限環境
Research Abstract

Limno-terrestrial tardigrades can withstand extreme environments and almost complete desiccation through a mechanism called anhydrobiosis, but the its molecular mechanism is yet to be explored. To this end, we have conducted a comprehensive multi-omics analysis using the tardigrade Ramazzottius varieornatus, which is a potential model species for anhydrobiosis. In order to analyze the metabolic changes in the active and dehydrated states, we measured the metabolome in both conditions using two types of high-throughput mass spectrometry (MS) systems, CE-TOFMS and LC-TOFMS. Moreover, phospho-proteome was also analyzed to observed the metabolic regulations. As a result, while changes in gene expression profiles are limited in between active and tun states, dynamic changes were observed in the metabolism of this species in response to desiccation. Changes in the metabolic profiles suggests complex intracellular responses to oxidative and osmotic stress.

Report

(5 results)
  • 2013 Annual Research Report   Final Research Report ( PDF )
  • 2012 Annual Research Report
  • 2011 Annual Research Report
  • 2010 Annual Research Report
  • Research Products

    (60 results)

All 2014 2013 2012 2011 2010 Other

All Journal Article (15 results) (of which Peer Reviewed: 12 results) Presentation (41 results) (of which Invited: 7 results) Remarks (4 results)

  • [Journal Article] Comparative metabolomics of anhydrobiosis in tardigrade Ramazzottius varieornatus2013

    • Author(s)
      Kazuharu Arakawa
    • Journal Title

      Journal of Japanese Society for Extremophiles

      Volume: Vol.11 Pages: 75-82

    • NAID

      40019593227

    • Related Report
      2013 Final Research Report
  • [Journal Article] Merging Multiple Omics Datasets In Silico: Statistical Analyses and Data Interpretation2013

    • Author(s)
      Kazuharu Arakawa, Masaru Tomita
    • Journal Title

      Methods Mol. Biol

      Volume: Vol.985 Pages: 459-470

    • Related Report
      2013 Final Research Report
  • [Journal Article] GEMBASSY: an EMBOSS Associated Software Package for Comprehensive Genome Analyses2013

    • Author(s)
      Hidetoshi Itaya, Kazuki Oshita, Kazuharu Arakawa, Masaru Tomita
    • Journal Title

      Source Code for Biology and Medicine

      Volume: Vol.8 Pages: 17-17

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Analysis of DNA Repair and Protection in the Tardigrade Ramazzottius varieornatus and Hypsibius dujardini after Exposure to UVC Radiation2013

    • Author(s)
      Daiki D. Horikawa, John Cumbers, Iori Sakakibara, Dana Rogoff, Stefan Leuko, Raechel Harnoto, Kazuharu Arakawa, Toshiaki Katayama, Takekazu Kunieda, Atsushi Toyoda, Asao Fujiyama, Lynn J. Rothschild
    • Journal Title

      PLoS One

      Volume: Vol.8

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Analysis of DNA Repair and Protection in the Tardigrade Ramazzottius varieornatus and Hypsibius dujardini after Exposure to UVC Radiation2013

    • Author(s)
      Horikawa DD, Cumbers J, Sakakibara I, Rogoff D, Leuko S, Harnoto R, Arakawa K, Katayama T, Kunieda T, Toyoda A, Fujiyama A, Rothschild LJ
    • Journal Title

      PLoS One

      Volume: 8 Issue: 6 Pages: e64793-e64793

    • DOI

      10.1371/journal.pone.0064793

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] GEMBASSY: an EMBOSS Associated Software Package for Comprehensive Genome Analyses2013

    • Author(s)
      Itaya H, Oshita K, Arakawa K, Tomita M
    • Journal Title

      Source Code for Biology and Medicine

      Volume: 8 Issue: 1 Pages: 17-17

    • DOI

      10.1186/1751-0473-8-17

    • Related Report
      2013 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Comparative metabolomics of anhydrobiosis in tardigrade Ramazzottius varieornatus2013

    • Author(s)
      Arakawa K
    • Journal Title

      Journal of Japanese Society for Extremophiles

      Volume: 11 Pages: 75-82

    • NAID

      40019593227

    • Related Report
      2012 Annual Research Report
  • [Journal Article] Two families of novel abundant heat-soluble proteins in an anhydrobiotic tardigrade2012

    • Author(s)
      Ayami Yamaguchi, Sae Tanaka, Shiho Yamaguchi, Hirokazu Kuwahara, Chizuko Takamura, Shinobu Ohmi, Daiki D. Horikawa, Atsushi Toyoda, Toshiaki Katayama, Kazuharu Arakawa, Asao Fujiyama, Takeo Kubo, Takekazu Kunieda
    • Journal Title

      PLoS One

      Volume: Vol.7

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Two Novel Heat-Soluble Protein Families Abundantly Expressed in an Anhydrobiotic Tardigrade2012

    • Author(s)
      Yamaguchi A, Tanaka S, Yamaguchi S, Kuwahara H, Takamura C, Imajoh-Ohmi S, Horikawa DD, Toyoda A, Katayama T, Arakawa K, Fujiyama A, Kubo T and Kunieda T
    • Journal Title

      PLoS ONE

      Volume: 7 Issue: 8 Pages: e44209-e44209

    • DOI

      10.1371/journal.pone.0044209

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Metabolic flux analysis and visualization2011

    • Author(s)
      Yoshihiro Toya, Nobuaki Kono, Kazuharu Arakawa, Masaru Tomita
    • Journal Title

      Journal of Proteome Research

      Volume: Vol.10 Pages: 3313-3323

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] KBWS: an EMBOSS associated package for accessing bioinformatics web services2011

    • Author(s)
      Kazuki Oshita, Kazuharu Arakawa, Masaru Tomita
    • Journal Title

      Source Code for Biology and Medicine

      Volume: Vol.6 Pages: 8-8

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] KBWS : an EMBOSS associated package for accessing bioinformatics web services2011

    • Author(s)
      Kazuki Oshita
    • Journal Title

      Source Code for Biology and Medicine

      Volume: 6 Issue: 1 Pages: 8-8

    • DOI

      10.1186/1751-0473-6-8

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Metabolic flux analysis and visualization2011

    • Author(s)
      Yoshihiro Toya
    • Journal Title

      Journal of Proteome Research

      Volume: 10 Issue: 8 Pages: 3313-3323

    • DOI

      10.1021/pr2002885

    • Related Report
      2011 Annual Research Report
    • Peer Reviewed
  • [Journal Article] G-language Genome Analysis Environment with REST and SOAP Web Service Interfaces2010

    • Author(s)
      Kazuharu Arakawa, Nobuhiro Kido, Kazuki Oshita, Masaru Tomita
    • Journal Title

      Nucleic Acids Research

      Volume: Vol.48

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] G-language Genome Analysis Environment with REST and SOAP Web Service Interfaces2010

    • Author(s)
      Kazuharu Arakawa
    • Journal Title

      Nucleic Acids Research

      Volume: 45

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Presentation] クマムシにおける乾眠の早さの違いはどこからうまれるのか2014

    • Author(s)
      荒川和晴
    • Organizer
      生命情報科学若手の会 第五回研究会
    • Place of Presentation
      口頭
    • Year and Date
      2014-02-17
    • Related Report
      2013 Final Research Report
  • [Presentation] クマムシにおける乾眠の早さの違いはどこからうまれるのか2014

    • Author(s)
      荒川和晴
    • Organizer
      生命情報科学若手の会 第五回研究会
    • Place of Presentation
      新倹見川
    • Related Report
      2013 Annual Research Report
  • [Presentation] 生命活動のサスペンド&レジュームを可能にするクマムシ乾眠の分子機構2014

    • Author(s)
      荒川和晴
    • Organizer
      東海大学 医学部 基礎医学系 分子生命科学 情報生物医学研究室セミナー
    • Place of Presentation
      伊勢原
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] 生命活動はどのように始まり, そしてどのように止まるか - クマムシ乾眠機構からのアプローチ2013

    • Author(s)
      荒川和晴
    • Organizer
      定量生物学の会 第六回年会
    • Place of Presentation
      大阪
    • Year and Date
      2013-11-24
    • Related Report
      2013 Final Research Report
  • [Presentation] Molecular mechanisms of cryptobiosis in tardigrade Ramazzottius varieornatus - the third state between life and death2013

    • Author(s)
      Kazuharu Arakawa
    • Organizer
      7th AYRCOB
    • Place of Presentation
      東京
    • Year and Date
      2013-09-10
    • Related Report
      2013 Annual Research Report 2013 Final Research Report
  • [Presentation] Multi-Omics Study of Tardigrade Ramazzottius Varieornatus Reveals Dynamic Metabolic Response During Anhydrobiosis2013

    • Author(s)
      Kazuharu Arakawa, Ito T, Kunieda T, Horikawa D, Soga T, Tomita M
    • Organizer
      Plant & Animal Genome Asia 2013
    • Place of Presentation
      Singapore
    • Year and Date
      2013-03-18
    • Related Report
      2013 Final Research Report
  • [Presentation] ヨコヅナクマムシはどのようにして生と死のはざまを生きるか2013

    • Author(s)
      荒川和晴
    • Organizer
      生命情報科学若手の会 第四回研究会
    • Place of Presentation
      岡崎
    • Year and Date
      2013-03-01
    • Related Report
      2013 Final Research Report 2012 Annual Research Report
  • [Presentation] 生命活動はどのように始まり, そしてどのように止まるか - ヨコヅナクマムシ乾眠機構からのアプローチ2013

    • Author(s)
      荒川和晴
    • Organizer
      定量オミックスワークショップ
    • Place of Presentation
      大阪
    • Year and Date
      2013-01-22
    • Related Report
      2013 Final Research Report
  • [Presentation] 生命活動のサスペンド&レジュームを可能にするクマムシ乾眠の分子機構2013

    • Author(s)
      荒川和晴
    • Organizer
      JAMSTEC BIOGEOS領域セミナー
    • Place of Presentation
      横須賀
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] 生命活動はどのように始まり、そしてどのように止まるか - クマムシ乾眠機構からのアプローチ2013

    • Author(s)
      荒川和晴
    • Organizer
      定量生物学の会 第六回年会
    • Place of Presentation
      大阪
    • Related Report
      2013 Annual Research Report
    • Invited
  • [Presentation] クマムシにおける乾眠の早さの違いはどこからうまれるのか2013

    • Author(s)
      荒川和晴, 冨田勝
    • Organizer
      第36回日本分子生物学会年会
    • Place of Presentation
      神戸
    • Related Report
      2013 Annual Research Report
  • [Presentation] 微量サンプルシーケンスで切り拓く微小な非モデル生物の分子生物学2013

    • Author(s)
      荒川和晴
    • Organizer
      NGS現場の会 第三回研究会
    • Place of Presentation
      神戸
    • Related Report
      2013 Annual Research Report
  • [Presentation] De novo transcriptome sequencing and assembly of tardigrade species from ultra low input mRNA-Seq2013

    • Author(s)
      Arakawa K, Tomita M
    • Organizer
      ISMB/ECCB 2013
    • Place of Presentation
      ベルリン
    • Related Report
      2013 Annual Research Report
  • [Presentation] Metabolomics of tardigrade Ramazzottius varieornatus reveals dynamic metabolic response during anhydrobiosis2012

    • Author(s)
      Kazuharu Arakawa, Ito T, Kunieda T, Horikawa D, Soga T, Tomita M
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡
    • Year and Date
      2012-12-13
    • Related Report
      2013 Final Research Report
  • [Presentation] Metabolomics of tardigrade Ramazzottius varieornatus reveals dynamic metabolic response during anhydrobiosis2012

    • Author(s)
      Kazuharu Arakawa, Ito T, Kunieda T, Horikawa D, Soga T, Tomita M
    • Organizer
      JST-BBSRC Workshop on Systems Redox Regulation
    • Place of Presentation
      鶴岡
    • Year and Date
      2012-10-25
    • Related Report
      2013 Final Research Report
  • [Presentation] 生命活動とは何か ー 生命と非生命の境界線を探る2012

    • Author(s)
      荒川和晴
    • Organizer
      4 会合同シンポジウム「これからの生命科学を考える」
    • Place of Presentation
      東京
    • Year and Date
      2012-10-16
    • Related Report
      2013 Final Research Report
  • [Presentation] Multi-omics study of the molecular mechanisms of extremo-tolerance in tardigrade Ramazzottius varieornatus2012

    • Author(s)
      Kazuharu Arakawa
    • Organizer
      日本微生物生態学会
    • Place of Presentation
      豊橋
    • Year and Date
      2012-09-20
    • Related Report
      2013 Final Research Report
  • [Presentation] Metabolomics of tardigrade Ramazzottius varieornatus reveals dynamic metabolic response during anhydrobiosis2012

    • Author(s)
      Kazuharu Arakawa, Ito T, Kunieda T, Horikawa D, Soga T, Tomita M
    • Organizer
      12th International Symposium on Tardigrada
    • Place of Presentation
      Portugal
    • Year and Date
      2012-06-25
    • Related Report
      2013 Final Research Report
  • [Presentation] ヨコヅナクマムシ乾眠機構のメタボローム解析2012

    • Author(s)
      荒川和晴
    • Organizer
      極限環境生物学会
    • Place of Presentation
      東京
    • Year and Date
      2012-06-23
    • Related Report
      2013 Final Research Report 2012 Annual Research Report
  • [Presentation] Metabolomics of tardigrade Ramazzottius varieornatus reveals dynamic metabolic response during anhydrobiosis2011

    • Author(s)
      Kazuharu Arakawa, Ito T, Kunieda T, Horikawa D, Soga T, Tomita M
    • Organizer
      第34回日本分子生物学会年会
    • Place of Presentation
      横浜
    • Year and Date
      2011-12-14
    • Related Report
      2013 Final Research Report 2011 Annual Research Report
  • [Presentation] ヨコヅナクマムシのマルチオミクス解析2011

    • Author(s)
      荒川和晴
    • Organizer
      生命情報科学若手の会第3回研究会
    • Place of Presentation
      岡崎
    • Year and Date
      2011-10-16
    • Related Report
      2013 Final Research Report
  • [Presentation] ヨコヅナクマムシのマルチオミクス解析2011

    • Author(s)
      荒川和晴
    • Organizer
      生命情報科学若手の会第三回研究会
    • Place of Presentation
      岡崎
    • Year and Date
      2011-10-16
    • Related Report
      2011 Annual Research Report
  • [Presentation] ヨコヅナクマムシのマルチオミクス解析2011

    • Author(s)
      荒川和晴
    • Organizer
      生命情報科学若手の会沖縄セミナー
    • Place of Presentation
      沖縄
    • Year and Date
      2011-09-03
    • Related Report
      2013 Final Research Report 2011 Annual Research Report
  • [Presentation] ヨコヅナクマムシゲノムの構造・機能アノテーションにおけるmRNA-Seqデータの活用2011

    • Author(s)
      荒川和晴
    • Organizer
      NGS現場の会第一回研究会
    • Place of Presentation
      熱海
    • Year and Date
      2011-05-19
    • Related Report
      2011 Annual Research Report
  • [Presentation] G-language System : an ecosystem of bioinformatics suites2010

    • Author(s)
      Kazuharu Arakawa
    • Organizer
      第33回日本分子生物学会年会
    • Place of Presentation
      神戸
    • Year and Date
      2010-12-10
    • Related Report
      2010 Annual Research Report
  • [Presentation] G-language Bookmarklet : a gateway for Semantic Web, Linked Data, and Web Services2010

    • Author(s)
      Kazuharu Arakawa
    • Organizer
      European Conference on Computational Biology
    • Place of Presentation
      ゲント、ベルギー
    • Year and Date
      2010-09-27
    • Related Report
      2010 Annual Research Report
  • [Presentation] Pathway Projector : web-based zoomable pathway browser using KEGG Atlas and Google Maps API2010

    • Author(s)
      Nobuaki Kono
    • Organizer
      European Conference on Computational Biology
    • Place of Presentation
      ゲント、ベルギー
    • Year and Date
      2010-09-27
    • Related Report
      2010 Annual Research Report
  • [Presentation] G-language Bookmarklet : a gateway for Semantic Web, Linked Data, and Web Services2010

    • Author(s)
      Kazuharu Arakawa
    • Organizer
      Intelligent Systems for Molecular Biology
    • Place of Presentation
      ボストン、アメリカ
    • Year and Date
      2010-07-12
    • Related Report
      2010 Annual Research Report
  • [Presentation] G-language Bookmarklet : a gateway for Semantic Web, Linked Data, and Web Services2010

    • Author(s)
      Kazuharu Arakawa
    • Organizer
      Bioinformatics Open Source Conference
    • Place of Presentation
      ボストン、アメリカ
    • Year and Date
      2010-07-09
    • Related Report
      2010 Annual Research Report
  • [Presentation] Multi-Omics Study of Tardigrade Ramazzottius Varieornatus Reveals Dynamic Metabolic Response During Anhydrobiosis

    • Author(s)
      Arakawa K
    • Organizer
      Plant & Animal Genome Asia 2013
    • Place of Presentation
      シンガポール
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Metabolomics of tardigrade Ramazzottius varieornatus reveals dynamic metabolic response during anhydrobiosis

    • Author(s)
      Arakawa K
    • Organizer
      第35回日本分子生物学会年会
    • Place of Presentation
      福岡
    • Related Report
      2012 Annual Research Report
  • [Presentation] Metabolomics of tardigrade Ramazzottius varieornatus reveals dynamic metabolic response during anhydrobiosis

    • Author(s)
      Arakawa K
    • Organizer
      JST-BBSRC Workshop on Systems Redox Regulation
    • Place of Presentation
      鶴岡
    • Related Report
      2012 Annual Research Report
  • [Presentation] 生命活動とは何か ー 生命と非生命の境界線を探る

    • Author(s)
      荒川和晴
    • Organizer
      4会合同シンポジウム「これからの生命科学を考える」
    • Place of Presentation
      東京
    • Related Report
      2012 Annual Research Report
  • [Presentation] Multi-omics study of the molecular mechanisms of extremo-tolerance in tardigrade Ramazzottius varieornatus

    • Author(s)
      Arakawa K
    • Organizer
      日本微生物生態学会
    • Place of Presentation
      豊橋
    • Related Report
      2012 Annual Research Report
  • [Presentation] Metabolomics of tardigrade Ramazzottius varieornatus reveals dynamic metabolic response during anhydrobiosis

    • Author(s)
      Arakawa K
    • Organizer
      12th International Symposium on Tardigrada
    • Place of Presentation
      ポルトガル
    • Related Report
      2012 Annual Research Report
  • [Presentation] ヨコヅナクマムシはどのようにして生と死のはざまを生きるか

    • Author(s)
      荒川和晴
    • Organizer
      山口大学理学部附属生命パスウェイ解析センター講演会
    • Place of Presentation
      山口
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] 生命活動はどのように始まり、そしてどのように止まるか - ヨコヅナクマムシ乾眠機構からのアプローチ

    • Author(s)
      荒川和晴
    • Organizer
      定量オミックスワークショップ
    • Place of Presentation
      大阪
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] ヨコヅナクマムシ極限環境耐性のマルチオミクス解析

    • Author(s)
      荒川和晴
    • Organizer
      インシリコ・メガバンク研究会
    • Place of Presentation
      仙台
    • Related Report
      2012 Annual Research Report
    • Invited
  • [Presentation] Metabolomics of tardigrade Ramazzottius varieornatus reveals dynamic metabolic response during anhydrobiosis

    • Author(s)
      Arakawa K
    • Organizer
      FOSBE2012
    • Place of Presentation
      鶴岡
    • Related Report
      2012 Annual Research Report
  • [Presentation] Metabolomics of tardigrade Ramazzottius varieornatus reveals dynamic metabolic response during anhydrobiosis

    • Author(s)
      Arakawa K
    • Organizer
      生命医薬情報学連合大会
    • Place of Presentation
      東京
    • Related Report
      2012 Annual Research Report
  • [Presentation] Quantitative metabolomics of extremotolerant tardigrade Ramazzottius varieornatus reveals dynamic response during anhydrobiosis

    • Author(s)
      Arakawa K
    • Organizer
      ECCB2012
    • Place of Presentation
      スイス
    • Related Report
      2012 Annual Research Report
  • [Remarks]

    • URL

      http://web.sfc.keio.ac.jp/~gaou/

    • Related Report
      2013 Final Research Report
  • [Remarks] 荒川和晴 - 業績一覧

    • URL

      http://web.sfc.keio.ac.jp/%7Egaou/wiki/wiki.cgi?page=%B8%A6%B5%E6%B6%C8%C0%D3

    • Related Report
      2012 Annual Research Report
  • [Remarks]

    • URL

      http://web.sfc.keio.ac.jp/%7Egaou/wiki/wiki.cgi?Page=%B8%6%B5%E6%B6%C8%C0%D3

    • Related Report
      2011 Annual Research Report
  • [Remarks]

    • URL

      http://kumamushi.org/

    • Related Report
      2010 Annual Research Report

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Published: 2010-08-23   Modified: 2019-07-29  

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