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Single molecule & super resolution imaging of chromatin networking through transcription hubs.

Research Project

Project/Area Number 20K06594
Research Category

Grant-in-Aid for Scientific Research (C)

Allocation TypeMulti-year Fund
Section一般
Review Section Basic Section 43040:Biophysics-related
Research InstitutionNational Institute of Genetics

Principal Investigator

Hibino Kayo  国立遺伝学研究所, 遺伝メカニズム研究系, 助教 (40435673)

Project Period (FY) 2020-04-01 – 2023-03-31
Project Status Completed (Fiscal Year 2022)
Budget Amount *help
¥4,290,000 (Direct Cost: ¥3,300,000、Indirect Cost: ¥990,000)
Fiscal Year 2022: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2021: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000)
Fiscal Year 2020: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
KeywordsゲノムDNA / RNA転写 / 1分子イメージング / 超解像顕微鏡法 / クロマチン動態 / ヌクレオソーム / 単一ヌクレオソームイメージング / 1分子イメージング / ゲノム / 生物物理学 / 1分子生物学
Outline of Research at the Start

仮説「巨大な転写装置クラスターをハブとしたグローバルなクロマチンネットワークが存在し、これを介してクロマチン動態と転写が密接に制御されている」を検証するため、超解像顕微鏡技術、単一ヌクレオソームイメージング、計算機シミュレーション、ゲノムの3次元構造解析Hi-C法を組み合わせ、1)転写クラスターの動態とそのクロマチン構造や動態への影響、2)転写クラスターとクロマチンの連結機構、3)クロマチンネットワークの実態を調べる。これにより、生細胞でのクロマチン動態と転写制御の関係を明らかにし、遺伝子発現制御の理解を目指す。本年度は1), 2)を進める。

Outline of Final Research Achievements

The nucleosome behaviors in living human cells were investigated using single-nucleosome imaging combined with rapid-protein depletion technology (AID system) and super-resolution microscopy. The effects of RNA transcription machinery, considered condensates formed by liquid-liquid phase separation, on chromatin structure and dynamics were investigated. Additionally, we elucidated that 1,6-hexanediol (1,6-HD), frequently used in phase-separation biology, has an unexpected effect; 1,6-HD drastically suppresses chromatin motion and hyper-condenses chromatin in human cells. Finally, the effects of cohesin, which mediates the interaction between enhancer and promoter, and transcription machinery on chromatin structure and dynamics were investigated. It is suggested that both constrain nucleosome motion and synergistically regulate chromatin dynamics.

Academic Significance and Societal Importance of the Research Achievements

近年、クロマチンの高次構造を調べる方法としてHi-Cが開発され、世界中に広まっている。本研究は、このHi-C法を利用した世界のトレンドとは一線を画し、新規イメージングを用いてクロマチン高次構造とその動態を転写制御の観点から解明するものである。本研究はHi-C法の研究に対して相補的な情報を得ることができる、世界的にみてユニークなものである。さらに、本研究で得られるヌクレオソームの動きのデータは、世界中でおこなわれている計算機シミュレーションによるクロマチン動態/転写制御モデリングの基盤データとして利用できる。これにより細胞内環境に即したより精緻なモデリングが可能となり、その波及効果は大きい。

Report

(4 results)
  • 2022 Annual Research Report   Final Research Report ( PDF )
  • 2021 Research-status Report
  • 2020 Research-status Report
  • Research Products

    (12 results)

All 2023 2022 2021 2020 Other

All Journal Article (1 results) (of which Peer Reviewed: 1 results,  Open Access: 1 results) Presentation (10 results) (of which Int'l Joint Research: 3 results,  Invited: 7 results) Remarks (1 results)

  • [Journal Article] 1,6-hexanediol rapidly immobilizes and condenses chromatin in living human cells2021

    • Author(s)
      Itoh Yuji、Iida Shiori、Tamura Sachiko、Nagashima Ryosuke、Shiraki Kentaro、Goto Tatsuhiko、Hibino Kayo、Ide Satoru、Maeshima Kazuhiro
    • Journal Title

      Life Science Alliance

      Volume: 4 Issue: 4 Pages: e202001005-e202001005

    • DOI

      10.26508/lsa.202001005

    • Related Report
      2020 Research-status Report
    • Peer Reviewed / Open Access
  • [Presentation] Dynamic organization of human mitotic chromosomes2023

    • Author(s)
      Hibino, K.
    • Organizer
      Women and Future in Science seminar
    • Related Report
      2022 Annual Research Report
    • Invited
  • [Presentation] Single nucleosome imaging during human chromosome condensation.2022

    • Author(s)
      Hibino, K.
    • Organizer
      44th Indian Biophysical Society Meeting
    • Related Report
      2022 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] 単一ヌクレオソームイメージングで捉えるヒト染色体凝縮2022

    • Author(s)
      Hibino, K., Sakai, Y., Kanemaki, M., Maeshima, K.
    • Organizer
      第74回日本細胞生物学会
    • Related Report
      2022 Annual Research Report
  • [Presentation] ヒト染色体凝縮過程の単一ヌクレオソームイメージング2022

    • Author(s)
      日比野佳代、境祐二、鐘巻将人、前島一博
    • Organizer
      第94回日本遺伝学会
    • Related Report
      2022 Annual Research Report
    • Invited
  • [Presentation] Single molecule imaging unveils human chromosome condensation2022

    • Author(s)
      Hibino, K., Sakai, Y., Kanemaki, M., Maeshima, K.
    • Organizer
      The 60th Annual Meeting of the Biophysical Society of Japan
    • Related Report
      2022 Annual Research Report
  • [Presentation] Single molecule imaging sheds light on the mechanism of the human chromosome condensation.2022

    • Author(s)
      Hibino, K.
    • Organizer
      2022 East Asian Single-Molecule Biophysics Symposium
    • Related Report
      2022 Annual Research Report
    • Int'l Joint Research / Invited
  • [Presentation] ヒト染色体中でコンデンシンはクロマチンの動きを束縛する2022

    • Author(s)
      日比野佳代、境祐二、鐘巻将人、前島一博
    • Organizer
      第45回日本分子生物学会年会 (MBSJ2022)
    • Related Report
      2022 Annual Research Report
    • Invited
  • [Presentation] Single molecule imaging unveils the dynamic organization of the human chromosomes.2021

    • Author(s)
      Hibino Kayo、Sakai Yuji、Kanemaki Masato、Maeshima Kazuhiro
    • Organizer
      The 44th Annual Meeting of The Molecular Biology Society of Japan (MBSJ2021)
    • Related Report
      2021 Research-status Report
  • [Presentation] Single nucleosome imaging sheds light on the dynamic organization of the human chromosomes.2021

    • Author(s)
      Hibino Kayo、Sakai Yuji、Kanemaki Masato、Maeshima Kazuhiro
    • Organizer
      The 59th Annual Meeting of the Biophysical Society of Japan
    • Related Report
      2021 Research-status Report
    • Int'l Joint Research / Invited
  • [Presentation] Single nucleosome imaging sheds light on the dynamic organization of the human chromosomes2020

    • Author(s)
      Hibino Kayo、Sakai Yuji、Kanemaki Masato、Maeshima Kazuhiro
    • Organizer
      The 58th Annual Meeting of the Biophysical Society of Japan
    • Related Report
      2020 Research-status Report
    • Invited
  • [Remarks] ヘキサンジオールは細胞内のクロマチンの動きを止める

    • URL

      https://www.nig.ac.jp/nig/ja/2021/02/research-highlights_ja/rh20210204.html

    • Related Report
      2020 Research-status Report

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Published: 2020-04-28   Modified: 2024-01-30  

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