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Simultaneous imaging of chromatin fractal dimensions and temperature in living cell nucleus

Research Project

Project/Area Number 16K14655
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field System genome science
Research InstitutionInstitute of Physical and Chemical Research (2017)
Hiroshima University (2016)

Principal Investigator

Shinkai Soya  国立研究開発法人理化学研究所, 生命システム研究センター, 研究員 (60547058)

Co-Investigator(Kenkyū-buntansha) 菅原 武志  広島大学, 理学研究科, 特任助教 (60713005)
Co-Investigator(Renkei-kenkyūsha) OKABE Kohki  東京大学, 薬学系研究科, 助教 (20455398)
OCHIAI Hiroshi  広島大学, 理学研究科, 特任講師 (60640753)
Research Collaborator TAKEDA Shunsuke  
Project Period (FY) 2016-04-01 – 2018-03-31
Project Status Completed (Fiscal Year 2017)
Budget Amount *help
¥3,770,000 (Direct Cost: ¥2,900,000、Indirect Cost: ¥870,000)
Fiscal Year 2017: ¥1,820,000 (Direct Cost: ¥1,400,000、Indirect Cost: ¥420,000)
Fiscal Year 2016: ¥1,950,000 (Direct Cost: ¥1,500,000、Indirect Cost: ¥450,000)
Keywordsクロマチン構造 / フラクタル次元 / 蛍光寿命イメージング / 染色体構造 / 温度イメージング
Outline of Final Research Achievements

Each human cell contains total 2 meter of genomic DNA in a cell nucleus with a 10-micro-meter diameter. How chromatin fibers spatially condense is unclear. In this study, we tried to spatially quantify fractal dimensions, which are mathematical barometers for any structures, of chromatin fibers in living cells. The method is based on energy transfer between two fluorescent probes on fractal structures. The efficiency depends on fractal dimensions. Therefore, we made cells with two fluorescent probes on chromatin fibers. Finally, we developed an imaging method to spatially quantify fractal dimensions of chromatin fibers.

Report

(3 results)
  • 2017 Annual Research Report   Final Research Report ( PDF )
  • 2016 Research-status Report
  • Research Products

    (10 results)

All 2017 2016

All Journal Article (2 results) (of which Peer Reviewed: 2 results,  Open Access: 2 results,  Acknowledgement Compliant: 1 results) Presentation (8 results) (of which Int'l Joint Research: 3 results,  Invited: 3 results)

  • [Journal Article] Bridging the dynamics and organization of chromatin domains by mathematical modeling2017

    • Author(s)
      Shinkai S, Nozaki T, Maeshima K, Togashi Y
    • Journal Title

      Nucleus

      Volume: 印刷中 Issue: 4 Pages: 353-359

    • DOI

      10.1080/19491034.2017.1313937

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Open Access
  • [Journal Article] Dynamic Nucleosome Movement Provides Structural Information of Topological Chromatin Domains in Living Human Cells2016

    • Author(s)
      Shinkai S, Nozaki T, Maeshima K, Togashi Y
    • Journal Title

      PLoS Comput Biol

      Volume: 12 Issue: 10 Pages: e1005136-e1005136

    • DOI

      10.1371/journal.pcbi.1005136

    • Related Report
      2016 Research-status Report
    • Peer Reviewed / Open Access / Acknowledgement Compliant
  • [Presentation] クロマチン動態と構造をつなぐ数理2017

    • Author(s)
      新海創也
    • Organizer
      生命動態の分子メカニズムと数理
    • Place of Presentation
      理研QBiC(大阪府)
    • Year and Date
      2017-03-17
    • Related Report
      2016 Research-status Report
    • Invited
  • [Presentation] Bridging the dynamics and organization of chromatin domains by mathematical modeling2017

    • Author(s)
      Soya Shinkai
    • Organizer
      5th International Symposium of the Mathematics on Chromatin Live Dynamics
    • Place of Presentation
      東広島
    • Year and Date
      2017-03-07
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Presentation] 数理で解き明かすクロマチン動態と構造の関係2017

    • Author(s)
      新海創也
    • Organizer
      理研公開シンポジウム「観る・測る・ 解く」 4 次元細胞計測の現状と未来
    • Related Report
      2017 Annual Research Report
  • [Presentation] Bridging the gap between th dynamics and organization of chromatin domains by mathematical modeling2017

    • Author(s)
      Soya Shinkai
    • Organizer
      Taiwan-Japan Joint Meeting on Bioimaging for Young researchers -Resonance Bio - Academia Sinica - 4D Cell -
    • Related Report
      2017 Annual Research Report
    • Int'l Joint Research
  • [Presentation] 細胞内温度を記述する術を我々は手にしているか?2016

    • Author(s)
      新海創也
    • Organizer
      第1 回Biothermology Workshop
    • Place of Presentation
      基礎生物学研究所(岡崎市)
    • Year and Date
      2016-12-10
    • Related Report
      2016 Research-status Report
    • Invited
  • [Presentation] Dynamic nucleosome movement provides structural information of topological chromatin domains in living human cells2016

    • Author(s)
      Soya Shinkai, Tadasu Nozaki, Kazuhiro Maeshima, Yuichi Togashi
    • Organizer
      2016 Workshop on DNA Reactions and DNA/Chromosome Dynamics
    • Place of Presentation
      Marine Biological Laboratory, USA
    • Year and Date
      2016-09-11
    • Related Report
      2016 Research-status Report
    • Int'l Joint Research
  • [Presentation] 核内クロマチン動態とクロマチンドメイン構造をつなぐモデルのデザインと実験との融合2016

    • Author(s)
      新海創也, 野崎慎, 前島一博, 冨樫祐一
    • Organizer
      CREST「生命動態の理解と制御のための基盤技術の創出」研究領域第6回数理デザイン道場
    • Place of Presentation
      三島
    • Year and Date
      2016-06-13
    • Related Report
      2016 Research-status Report
  • [Presentation] 染色体の動的階層性2016

    • Author(s)
      新海創也
    • Organizer
      細胞システムの動態と論理VIII
    • Place of Presentation
      理化学研究所(和光市)
    • Year and Date
      2016-04-14
    • Related Report
      2016 Research-status Report
    • Invited

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Published: 2016-04-21   Modified: 2019-03-29  

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