• Search Research Projects
  • Search Researchers
  • How to Use
  1. Back to previous page

Development of deep-sequencing approach for genome damage repair

Research Project

Project/Area Number 26640117
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field Genome biology
Research InstitutionThe University of Tokyo (2015-2016)
National Institute of Genetics (2014)

Principal Investigator

Iida Tetsushi  東京大学, 分子細胞生物学研究所, 助教 (60391851)

Project Period (FY) 2014-04-01 – 2017-03-31
Project Status Completed (Fiscal Year 2016)
Budget Amount *help
¥3,900,000 (Direct Cost: ¥3,000,000、Indirect Cost: ¥900,000)
Fiscal Year 2015: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2014: ¥2,210,000 (Direct Cost: ¥1,700,000、Indirect Cost: ¥510,000)
Keywordsゲノム維持修復 / リボヌクレオチド / rNMP / 損傷 / 定量 / 次世代シークエンサー / ゲノム
Outline of Final Research Achievements

Ribonucleotides misincorporated in the genome are an inevitable source of endogenous DNA damage, and also serve as signals for genome repair. However, damage repair has been previously evaluated indirectly, and the balance between incorporation and repair of ribonucleotides has not been elucidated. In this project, we developed a competitive sequencing method, RiSQ-seq, which enables absolute quantification of misincorporated ribonucleotides throughout the genome at single-base resolution. RiSQ-seq analysis revealed that ribonucleotides were incorporated non-uniformly in the genome. Direct comparison of ribonucleotide levels in wild-type and repair-deficient mutant cells enabled evaluation of ribonucleotide excision repair (RER) activity at base resolution. Profiling of RER efficiency revealed that the distinct preferences of ribonucleotide incorporation and RER result in hotspots of insertion and deletion mutation. RiSQ-seq can be used to evaluate the risk of mutations.

Report

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

    (11 results)

All 2016 2015 2014 Other

All Journal Article (3 results) (of which Peer Reviewed: 3 results,  Acknowledgement Compliant: 1 results,  Open Access: 1 results) Presentation (7 results) (of which Int'l Joint Research: 1 results,  Invited: 3 results) Remarks (1 results)

  • [Journal Article] iAID: an improved auxin-inducible degron system for the construction of a 'tight' conditional mutant in the budding yeast Saccharomyces cerevisiae.2015

    • Author(s)
      Tanaka S, Miyazawa-Onami M, Iida T, Araki H.
    • Journal Title

      Yeast

      Volume: 32 Issue: 8 Pages: 567-581

    • DOI

      10.1002/yea.3080

    • Related Report
      2015 Research-status Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Mudi, a web tool for identifying mutations by bioinformatics analysis of whole-genome sequence2014

    • Author(s)
      Naoko Iida, Fumiaki Yamao, Yasukazu Nakamura, Tetsushi Iida.
    • Journal Title

      Genes to Cells

      Volume: Vol.19、No.1 Issue: 6 Pages: 517-527

    • DOI

      10.1111/gtc.12151

    • Related Report
      2014 Research-status Report
    • Peer Reviewed
  • [Journal Article] Population genomics of the fission yeast Schizosaccharomyces pombe2014

    • Author(s)
      Jeffrey A. Fawcett, Tetsushi Iida, Shohei Takuno, Ryuichi P. Sugino, Tomoyuki Kado, Kazuto Kugou, Sachiko Mura, Takehiko Kobayashi, Kunihiro Ohta, Jun-ichi Nakayama, Hideki Innan
    • Journal Title

      PLOS ONE

      Volume: 9 Issue: 8 Pages: e104241-e104241

    • DOI

      10.1371/journal.pone.0104241

    • Related Report
      2014 Research-status Report
    • Peer Reviewed / Open Access
  • [Presentation] 酵母からはじめるゲノム修復研究2016

    • Author(s)
      飯田哲史
    • Organizer
      酵母研究ルネッサンス2016
    • Place of Presentation
      東京都・目黒区・東京大学駒場IIリサーチキャンパス
    • Year and Date
      2016-11-29
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 内因性ゲノム損傷rNMPの絶対定量法でせまるゲノム修復2016

    • Author(s)
      飯田哲史, 小林武彦
    • Organizer
      日本分子生物学会
    • Place of Presentation
      神奈川県・横浜市・パシフィコ横浜
    • Year and Date
      2016-11-28
    • Related Report
      2016 Annual Research Report
  • [Presentation] Evaluation of repair activity by absolute quantification of misincorporated ribonucleotides in the genome2016

    • Author(s)
      Iida,T., Iida, N., Sese, J., Nakamura, Y. and Kobayashi, T
    • Organizer
      3R Symposium
    • Place of Presentation
      島根県・松江市・ホテル一畑
    • Year and Date
      2016-11-13
    • Related Report
      2016 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 内因性ゲノム損傷とその修復の役割2016

    • Author(s)
      飯田哲史
    • Organizer
      国立遺伝学研究所・研究集会
    • Place of Presentation
      静岡県・三島市・国立遺伝学研究所
    • Year and Date
      2016-10-24
    • Related Report
      2016 Annual Research Report
    • Invited
  • [Presentation] 蓄積した内因性ゲノム損傷定量法の確立2015

    • Author(s)
      飯田哲史, 小林武彦
    • Organizer
      第23回 DNA複製・組換え・修復ワークショップ
    • Place of Presentation
      静岡県・焼津市・焼津グランドホテル
    • Year and Date
      2015-10-19
    • Related Report
      2015 Research-status Report
  • [Presentation] 内因性ゲノム損傷の網羅的定量からみるゲノムの姿2015

    • Author(s)
      飯田哲史
    • Organizer
      国立遺伝学研究所・研究集会「染色体DNAの安定維持の分子メカニズム」
    • Place of Presentation
      静岡県・三島市・国立遺伝学研究所
    • Year and Date
      2015-10-01
    • Related Report
      2015 Research-status Report
    • Invited
  • [Presentation] Detecting ribonucleotides in the yeast genome2014

    • Author(s)
      Tetsushi Iida
    • Organizer
      3R Symposium
    • Place of Presentation
      静岡県御殿場市 御殿場高原時の栖
    • Year and Date
      2014-11-17 – 2014-11-21
    • Related Report
      2014 Research-status Report
  • [Remarks] MUDI / Mutation discovery

    • URL

      http://naoii.nig.ac.jp/mudi_top.html

    • Related Report
      2014 Research-status Report

URL: 

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

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi