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

Elucidation of DNA repair pathway involving the novel endonuclease derived from hyperthermophilic archaea

Research Project

Project/Area Number 18K05442
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Review Section Basic Section 38030:Applied biochemistry-related
Research InstitutionKyushu University

Principal Investigator

Ishino Sonoko  九州大学, 農学研究院, 准教授 (80399740)

Project Period (FY) 2018-04-01 – 2021-03-31
Project Status Completed (Fiscal Year 2020)
Budget Amount *help
¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000)
Fiscal Year 2020: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2019: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2018: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
KeywordsDNA修復 / アーキア / 遺伝子破壊 / DNA損傷 / 超好熱性アーキア / 遺伝子操作 / 遺伝子工学技術
Outline of Final Research Achievements

Base deamination is a typical form of DNA damage, and it must be repaired quickly to maintain the genome integrity of living organisms. Endonuclease V (EndoV) and Endonuclease Q (EndoQ) from hyperthermophilic archaea hydrolyze the phosphodiester bond at the 3′and 5′ site from the damaged nucleotide, respectively.
The two DNA polymerases, PolB and PolD, could repair the lesion and elongate the DNA strand. The in vitro reconstitution system was constructed using the recombinant proteins derived from hyperthermophilic archaea.
EndoMS recognizes and cleaves mismatched base pairs. In order to investigate the intracellular function of the EndoMS gene, mutation accumulation assay was performed using the gene-disrupted strains. Mutation spectra were consistent with the biochemical properties.

Academic Significance and Societal Importance of the Research Achievements

本研究は、生物の遺伝情報を担うDNAが化学的損傷を受けたとき、どのように修復し遺伝情報を守っているのかを理解することを目的に、遺伝学的、および分子化学的にDNA修復機構の解明を進めた。厳しい生育環境で自らの遺伝情報を安定に維持している超好熱性アーキアにおいて、主導するタンパク質因子がどのように関連分子を認識してDNAを修復するのか理解が深まった。
また細胞内に蓄積する変異をゲノムDNAの塩基配列を直接分析することにより、生化学的性質と合わせて議論することを可能にした。
これらの成果は基礎科学への貢献と共に、新たな遺伝子工学技術の開発および医療分野への応用にもつながる。

Report

(3 results)
  • 2020 Final Research Report ( PDF )
  • 2019 Research-status Report
  • 2018 Research-status Report
  • Research Products

    (34 results)

All 2019 2018 Other

All Int'l Joint Research (5 results) Journal Article (5 results) (of which Int'l Joint Research: 2 results,  Peer Reviewed: 5 results,  Open Access: 3 results) Presentation (23 results) (of which Int'l Joint Research: 7 results) Remarks (1 results)

  • [Int'l Joint Research] CNRS-INSERM-Ecole Polytechnique/Institut Pasteur(フランス)

    • Related Report
      2019 Research-status Report
  • [Int'l Joint Research] コペンハーゲン大学(デンマーク)

    • Related Report
      2019 Research-status Report
  • [Int'l Joint Research] CNRS-INSERM-Ecole Polytechnique/Institut Pasteur(フランス)

    • Related Report
      2018 Research-status Report
  • [Int'l Joint Research] Shandong University(中国)

    • Related Report
      2018 Research-status Report
  • [Int'l Joint Research] National Institutes of Health(米国)

    • Related Report
      2018 Research-status Report
  • [Journal Article] Replication protein A complex in Thermococcus kodakarensis interacts with DNA polymerases and helps their effective strand synthesis2019

    • Author(s)
      Nagata Mariko、Ishino Sonoko、Yamagami Takeshi、Ishino Yoshizumi
    • Journal Title

      Bioscience, Biotechnology, and Biochemistry

      Volume: 83 Issue: 4 Pages: 695-704

    • DOI

      10.1080/09168451.2018.1559722

    • Related Report
      2018 Research-status Report
    • Peer Reviewed
  • [Journal Article] Elucidating functions of DP1 and DP2 subunits from the Thermococcus kodakarensis family D DNA polymerase2018

    • Author(s)
      Takashima Natsuki、Ishino Sonoko、Oki Keisuke、Takafuji Mika、Yamagami Takeshi、Matsuo Ryotaro、Mayanagi Kouta、Ishino Yoshizumi
    • Journal Title

      Extremophiles

      Volume: 23 Issue: 1 Pages: 161-172

    • DOI

      10.1007/s00792-018-1070-3

    • Related Report
      2018 Research-status Report
    • Peer Reviewed
  • [Journal Article] New archaeal viruses discovered by metagenomic analysis of viral communities in enrichment cultures2018

    • Author(s)
      Liu Ying、Brandt David、Ishino Sonoko、Ishino Yoshizumi、Koonin Eugene V.、Kalinowski Jorn、Krupovic Mart、Prangishvili David
    • Journal Title

      Environmental Microbiology

      Volume: - Issue: 6 Pages: 2002-2014

    • DOI

      10.1111/1462-2920.14479

    • Related Report
      2018 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Journal Article] Direct visualization of DNA baton pass between replication factors bound to PCNA2018

    • Author(s)
      Mayanagi Kouta、Ishino Sonoko、Shirai Tsuyoshi、Oyama Takuji、Kiyonari Shinichi、Kohda Daisuke、Morikawa Kosuke、Ishino Yoshizumi
    • Journal Title

      Scientific Reports

      Volume: 8 Issue: 1 Pages: 16209-16209

    • DOI

      10.1038/s41598-018-34176-2

    • Related Report
      2018 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] The mesophilic archaeon Methanosarcina acetivorans counteracts uracil in DNA with multiple enzymes: EndoQ, ExoIII, and UDG2018

    • Author(s)
      Shiraishi Miyako、Ishino Sonoko、Heffernan Matthew、Cann Isaac、Ishino Yoshizumi
    • Journal Title

      Scientific Reports

      Volume: 8 Issue: 1 Pages: 1-14

    • DOI

      10.1038/s41598-018-34000-x

    • Related Report
      2018 Research-status Report
    • Peer Reviewed / Open Access / Int'l Joint Research
  • [Presentation] 損傷塩基特異的Endonuclease MSによる二本鎖切断末端の可能な構造変換機構2019

    • Author(s)
      峯 渉、山上 健、沼田倫征、石野園子、石野良純
    • Organizer
      第42回日本分子生物学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] アーキアのミスマッチ修復酵素Endonuclease MSとの相互作用因子として見出され た8-Oxoguanine glycosylaseの機能解析2019

    • Author(s)
      市川貴大、佐々木琢也、山上 健、沼田倫征、石野園子、石野良純
    • Organizer
      第42回日本分子生物学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] アーキアの損傷塩基修復経路の生化学的、遺伝学的研究2019

    • Author(s)
      原田明佳、永田麻梨子、沖啓輔、松見理恵、金井保、跡見晴幸、沼田倫征、石野園子、石野良純
    • Organizer
      第42回日本分子生物学会年会
    • Related Report
      2019 Research-status Report
  • [Presentation] Study on diversity of mismatch repair system in archaea.2019

    • Author(s)
      Wataru Mine, Hanae Kudo, Takeshi Yamagami, Tomoyuki Numata, Patrick Forterre, Mart Krupovic, Yoshizumi Ishino, and Sonoko Ishino.
    • Organizer
      15th International Congress on Thermophiles
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] Reconstitution of endonuclease Q-mediated and endonuclease V-mediated repair pathways for deaminated base repair in the hyperthermophilic archaeon, Thermococcus kodakarensis.2019

    • Author(s)
      Meika Harada, Mariko Nagata, Keisuke Oki, Rie Matsumi, Tamotsu Kanai, Haruyuki Atomi,Tomoyuki Numata, Miyako Shiraishi, Sonoko Ishino, and Yoshizumi Ishino
    • Organizer
      15th International Congress on Thermophiles
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] The nucS homologs in the genomes of hyperthermophilic archaea encode active mismatch-specific endonuclease, EndoMS2019

    • Author(s)
      Takahiro Ichikawa, Enzo Petracco, Hanae Kudo, Takeshi Yamagami, Tomoyuki Numata, Yoshizumi Ishino, and Sonoko Ishino
    • Organizer
      15th International Congress on Thermophiles
    • Related Report
      2019 Research-status Report
    • Int'l Joint Research
  • [Presentation] 超好熱性アーキア由来クランプPCNA上で働くDNA複製タンパク質の生化学および構造の解析2019

    • Author(s)
      石野園子、真柳浩太、白井 剛、清成信一、今井奈美子、大山拓次、山上 健、石野良純
    • Organizer
      日本農芸化学会2019年度大会
    • Related Report
      2018 Research-status Report
  • [Presentation] Regulation of replication fork progression in the hyperthermophilic archaeon Thermococcus kodakarensis.2018

    • Author(s)
      Mariko Nagata, Sonoko Ishino, Takeshi Yamagami, Yoshizumi Ishino
    • Organizer
      OKAZAKI Fragment Memorial Symposium: Celebrating the 50th anniversary of the discontinuous DNA replication model
    • Related Report
      2018 Research-status Report
  • [Presentation] アーキア由来損傷塩基特異的エンドヌクレアーゼEndoQの変異体解析2018

    • Author(s)
      石野園子、牧田成人、白石 都、山上 健、宮園健一、田之倉 優、石野良純
    • Organizer
      極限環境生物学会2018年度(第19回)年会
    • Related Report
      2018 Research-status Report
  • [Presentation] クレンアーキオータ門において機能的にヘリカーゼとプライマーゼを連結するタンパク質の検索2018

    • Author(s)
      山上 健、瀬戸口勇登、沖 啓輔、石野園子、石野良純
    • Organizer
      第41回日本分子生物学会年会
    • Related Report
      2018 Research-status Report
  • [Presentation] ミスマッチ特異的エンドヌクレアーゼEndoMS/NucSのDNA修復における役割2018

    • Author(s)
      石野園子、工藤華枝、Stephane Skouloubris、Caroline l’Hermitte-Stead、Asmae Essadik、Jean Christophe Lambry、Hannu Myllykallio、石野良純
    • Organizer
      第41回日本分子生物学会年会
    • Related Report
      2018 Research-status Report
  • [Presentation] アーキアのDNA複製進行時におけるMCMの活性制御2018

    • Author(s)
      永田麻梨子、石野園子、山上 健、石野良純
    • Organizer
      第41回日本分子生物学会年会
    • Related Report
      2018 Research-status Report
  • [Presentation] 超好熱性アーキアThermococcus kodakarensis由来ファミリーD DNAポリメラーゼの分子解剖による機能分布の解明2018

    • Author(s)
      沖 啓輔、山上 健、永田麻梨子、高島夏希、真柳浩太、白井 剛、石野園子、石野良純
    • Organizer
      第41回日本分子生物学会年会
    • Related Report
      2018 Research-status Report
  • [Presentation] Biochemical and Structural analyses of replication proteins bound to PCNA2018

    • Author(s)
      Sonoko Ishino, Kouta Mayanagi, Tsuyoshi Shirai, Shinichi Kiyonari, Namiko Imai, Takuji Oyama, and Yoshizumi Ishino
    • Organizer
      12th International Congress on Extremophiles
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] Euryarchaea-specific RecJ-like protein may work in stalled fork repair with Hef.2018

    • Author(s)
      Mariko Nagata, Sonoko Ishino, Takeshi Yamagami, Jan-Robert Simons,Tamotsu Kanai, Haruyuki Atomi, and Yoshizumi Ishino
    • Organizer
      12th International Congress on Extremophiles
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] Family D DNA polymerase tethers primase and helicase in the replisome in Thermococcus kodakarensis.2018

    • Author(s)
      Keisuke Oki, Takeshi Yamagami, Mariko Nagata, Natsuki Takashima, Kouta Mayanagi, Sonoko Ishino, and Yoshizumi Ishino.
    • Organizer
      12th International Congress on Extremophiles
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] Structure-based mutational analysis of the lesion-specific endonuclease.2018

    • Author(s)
      Sonoko Ishino, Ken-ichi Miyazono, Naruto Makita, Tomoko Ito, Masaru Tanokura and Yoshizumi Ishino
    • Organizer
      Molecular Biology of Archaea 6 / EMBO Workshop
    • Related Report
      2018 Research-status Report
    • Int'l Joint Research
  • [Presentation] クランプ分子と協調するDNAミスマッチ特異的切断酵素の進化2018

    • Author(s)
      石野 園子、Stephane Skouloubris、工藤 華枝、Caroline l’Hermitte-Stead、Asmae Essadik、Jean-Christophe Lambry、石野 良純、Hannu Myllykallio
    • Organizer
      第31回日本Archaea研究会講演会
    • Related Report
      2018 Research-status Report
  • [Presentation] DNAミスマッチ特異的切断酵素EndoMS/NucSはクランプ分子と協調してゲノムの安定性維持に働く2018

    • Author(s)
      石野園子、Stephane Skouloubris、工藤華枝、Caroline l’Hermitte-Stead、Asmae Essadik、Jean-Christophe Lambry、石野良純、Hannu Myllykallio
    • Organizer
      平成30年度日本生化学会九州支部例会
    • Related Report
      2018 Research-status Report
  • [Presentation] Replication protein A in Thermococcus kodakarensis functionally interacts with DNA polymerases2018

    • Author(s)
      永田麻梨子、石野園子、山上 健、石野良純
    • Organizer
      平成30年度日本生化学会九州支部例会
    • Related Report
      2018 Research-status Report
  • [Presentation] 超好熱性アーキアThermococcus kodakarensisのレプリソーム形成機構解析2018

    • Author(s)
      沖 啓輔、永田麻梨子、高島夏希、山上 健、石野園子、石野良純
    • Organizer
      平成30年度日本生化学会九州支部例会
    • Related Report
      2018 Research-status Report
  • [Presentation] クレンアーキオタにおけるレプリソーム構成タンパク質の探索2018

    • Author(s)
      瀬戸口勇登、沖 啓輔、山上 健、石野園子、石野良純
    • Organizer
      平成30年度日本生化学会九州支部例会
    • Related Report
      2018 Research-status Report
  • [Presentation] アーキアに機能的なMutS/MutLタンパク質は存在するか?2018

    • Author(s)
      峯 渉、工藤華枝、山上 健、石野良純、石野園子
    • Organizer
      平成30年度日本生化学会九州支部例会
    • Related Report
      2018 Research-status Report
  • [Remarks] 九州大学 生物化学(石野)研究室

    • URL

      http://www.agr.kyushu-u.ac.jp/lab/seibutsukagaku/index.html

    • Related Report
      2019 Research-status Report 2018 Research-status Report

URL: 

Published: 2018-04-23   Modified: 2022-01-27  

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi