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Simulation study on structure formation in biomembranes under shear flow

Research Project

Project/Area Number 24740285
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Biophysics/Chemical physics
Research InstitutionThe University of Tokyo

Principal Investigator

SHIBA Hayato  東京大学, 物性研究所, 助教 (20549563)

Project Period (FY) 2012-04-01 – 2014-03-31
Project Status Completed (Fiscal Year 2013)
Budget Amount *help
¥3,380,000 (Direct Cost: ¥2,600,000、Indirect Cost: ¥780,000)
Fiscal Year 2013: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000)
Fiscal Year 2012: ¥2,470,000 (Direct Cost: ¥1,900,000、Indirect Cost: ¥570,000)
Keywordsオニオン相 / 粗視化分子動力学法 / 界面活性剤 / 剪断流 / 欠陥ダイナミクス / 並列計算 / 流体力学的計算手法 / リーク構造 / マルチラメラ状態 / 構造レオロジー / 粗視化分子動力学 / 超並列計算 / 国際情報交換(ドイツ)
Research Abstract

Multilamellar layers of surfactant membranes often form onion structures composed of unit cells of spherically multi-layered membranes. In this project, a highly-coarse-grained model with explicit solvent has been employed to treat this problem. We have done large-scale parallel simulations of the model to simulate a sub-micrometer-scale system, to allow large-scale undulation and deformation. In the simulations, the layers exhibited roll-like structures, which are in qualitative consistence with a precursor state to the onion phase observed in the previous experiments. We drew the dynamical phase diagram as a function of the membrane volume fraction and the shear rate.

Report

(3 results)
  • 2013 Annual Research Report   Final Research Report ( PDF )
  • 2012 Research-status Report
  • Research Products

    (22 results)

All 2014 2013 2012 Other

All Journal Article (5 results) (of which Peer Reviewed: 2 results) Presentation (16 results) Remarks (1 results)

  • [Journal Article] Coarse-Grained Simulation of Surfactant Membranes2014

    • Author(s)
      H. Shiba and H. Noguchi
    • Journal Title

      Activity Report 2014 of ISSP Supercomputer Center

    • Related Report
      2013 Final Research Report
  • [Journal Article] 界面活性剤系の構造形成の粗視化分子シミュレーション2014

    • Author(s)
      芝隼人, 野口博司
    • Journal Title

      分子シミュレーション研究会会誌

      Volume: アンサンブル16-1 Pages: 59-59

    • NAID

      40019989687

    • Related Report
      2013 Final Research Report
  • [Journal Article] 界面活性剤系の構造形成の粗視化分子シミュレーション2014

    • Author(s)
      芝隼人, 野口博司
    • Journal Title

      分子シミュレーション研究会会誌 “アンサンブル”

      Volume: 16 Pages: 59-65

    • NAID

      40019989687

    • Related Report
      2013 Annual Research Report
  • [Journal Article] Mechanical properties and microdomain separation of fluid membranes with anchored polymers2013

    • Author(s)
      H. Wu, H. Shiba, and H. Noguchi
    • Journal Title

      Soft Matter

      Volume: 9 Issue: 41 Pages: 9907-9907

    • DOI

      10.1039/c3sm51680f

    • Related Report
      2013 Final Research Report
    • Peer Reviewed
  • [Journal Article] Structure formation of surfactant membranes under shear flow2013

    • Author(s)
      H. Shiba, H. Noguchi, and G. Gompper
    • Journal Title

      J. Chem. Phys.

      Volume: 139 Issue: 1 Pages: 14702-14702

    • DOI

      10.1063/1.4811239

    • Related Report
      2013 Annual Research Report 2013 Final Research Report
    • Peer Reviewed
  • [Presentation] 脂質膜ラメラ系における欠陥ダイナミクス2014

    • Author(s)
      芝隼人, 野口博司
    • Organizer
      日本物理学会第69回年次大会
    • Place of Presentation
      東海大学湘南キャンパス
    • Year and Date
      2014-03-30
    • Related Report
      2013 Final Research Report
  • [Presentation] Coarse-grained molecular simulation of multi-lamellar membranes under shear flow2014

    • Author(s)
      H. Shiba
    • Organizer
      Workshop on Non-Equilibrium Surfactant Solution
    • Place of Presentation
      首都大学東京南大沢キャンパス
    • Year and Date
      2014-03-07
    • Related Report
      2013 Final Research Report
  • [Presentation] 脂質膜ラメラ系における欠陥ダイナミクス2014

    • Author(s)
      芝隼人
    • Organizer
      日本物理学会第69回年次大会
    • Place of Presentation
      東海大学湘南キャンパス(神奈川県平塚市)
    • Related Report
      2013 Annual Research Report
  • [Presentation] Coarse-grained molecular simulation of multi-lamellar membranes under shear flow2014

    • Author(s)
      Hayato Shiba
    • Organizer
      Workshop on Non-Eqiulibrium Surfactant Solution
    • Place of Presentation
      首都大学東京南大沢キャンパス(東京都八王子市)
    • Related Report
      2013 Annual Research Report
  • [Presentation] H. Noguchi, and G. Gompper, Structure formation of surfactant membrane under shear flow2013

    • Author(s)
      H. Shiba
    • Organizer
      International Soft Matter Conference 2013
    • Place of Presentation
      ローマ・ラ・サピエンツァ大学, ローマ(イタリア)
    • Year and Date
      2013-09-13
    • Related Report
      2013 Final Research Report
  • [Presentation] Structure formation of surfactant membrane under shear flow2013

    • Author(s)
      H. Shiba, H. Noguchi, and G. Gompper
    • Organizer
      The University of Tokyo-Korea University The 2nd Joint Workshop on Bio-Soft Matter
    • Place of Presentation
      高麗大学、京城(韓国)
    • Year and Date
      2013-03-02
    • Related Report
      2013 Final Research Report
  • [Presentation] Structure formation of surfactant membrane under shear2013

    • Author(s)
      H. Shiba, H. Noguchi, and G. Gompper
    • Organizer
      Self-Organization and Emergent Dynamics in Active Soft Matter
    • Place of Presentation
      京都大学基礎物理学研究所, 京都
    • Year and Date
      2013-02-19
    • Related Report
      2013 Final Research Report
  • [Presentation] 剪断流下の界面活性剤系の構造形成の粗視化分子シミュレーション2013

    • Author(s)
      芝隼人
    • Organizer
      新学術領域研究「揺らぎと構造の協奏」第1回領域研究会
    • Place of Presentation
      KKRホテル熱海(静岡県熱海市)
    • Related Report
      2013 Annual Research Report
  • [Presentation] Structure formation of surfactant membrane under shear flow2013

    • Author(s)
      Hayato Shiba
    • Organizer
      International Soft Matter Conference 2013
    • Place of Presentation
      Sapienza - Universita di Roma, Rome, Italy
    • Related Report
      2013 Annual Research Report
  • [Presentation] 剪断流による脂質膜系の不安定性2013

    • Author(s)
      芝 隼人、野口博司、Gerhard Gompper
    • Organizer
      日本物理学会第68回年次大会
    • Place of Presentation
      広島大学東広島キャンパス(広島県東広島市)
    • Related Report
      2012 Research-status Report
  • [Presentation] Structure formation of surfactant membrane under shear flow2013

    • Author(s)
      Hayato Shiba, Hiroshi Noguchi, Gerhard Gompper
    • Organizer
      The University of Tokyo - Korea University The 2nd Joint Workshop on Bio-Soft Matter
    • Place of Presentation
      Korea University, Seoul, Korea
    • Related Report
      2012 Research-status Report
  • [Presentation] Structure formation of surfactant membrane under shear2013

    • Author(s)
      Hayato Shiba, Hiroshi Noguchi, Gerhard Gompper
    • Organizer
      YITP Intl. Symposium "Self-organization and Emergent Dynamics in Active Soft Matter"
    • Place of Presentation
      京都大学基礎物理学研究所(京都府京都市)
    • Related Report
      2012 Research-status Report
  • [Presentation] 剪断流下の脂質膜系の構造形成2013

    • Author(s)
      芝 隼人、野口博司、Gerhard Gompper
    • Organizer
      物性研究所共同利用スパコン・計算物質科学研究センター・元素戦略プロジェクト合同研究会「計算物性物理学の新展開」
    • Place of Presentation
      東京大学物性研究所(千葉県柏市)
    • Related Report
      2012 Research-status Report
  • [Presentation] Structure formation of biomembranes under shear2012

    • Author(s)
      H. Shiba, H. Noguchi, and G. Gompper
    • Organizer
      Biomembrane Days in Potsdam
    • Place of Presentation
      Max Planck Institut für Kolloid und Grenzflächenforschung, ポツダム(ドイツ)
    • Year and Date
      2012-09-18
    • Related Report
      2013 Final Research Report
  • [Presentation] 剪断流下の脂質膜系の構造形成2012

    • Author(s)
      芝 隼人、野口博司、Gerhard Gompper
    • Organizer
      第3回CMSI研究会~超並列計算が拓く新しい計算物質科学~
    • Place of Presentation
      自然科学研究機構岡崎コンファレンスセンター(愛知県岡崎市)
    • Related Report
      2012 Research-status Report
  • [Presentation] Structure formation of biomembranes under shear2012

    • Author(s)
      Hayato Shiba, Hiroshi Noguchi, Gerhard Gompper
    • Organizer
      Biomembrane Days in Potsdam
    • Place of Presentation
      Max Planck Institut fuer Kolloid- und Grenzflächenforshung, Potsdam, Germany
    • Related Report
      2012 Research-status Report
  • [Remarks]

    • URL

      http://noguchi.issp.u-tokyo.ac.jp/shiba

    • Related Report
      2013 Final Research Report

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Published: 2013-05-31   Modified: 2019-07-29  

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