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

直接数値計算を用いたモデル微生物の動的性質に関する理学的研究

Publicly Offered Research

Project AreaSynergy of Fluctuation and Structure:Foundation of Universal Laws in Nonequilibrium Systems
Project/Area Number 26103522
Research Category

Grant-in-Aid for Scientific Research on Innovative Areas (Research in a proposed research area)

Allocation TypeSingle-year Grants
Review Section Science and Engineering
Research InstitutionKyoto University

Principal Investigator

山本 量一  京都大学, 工学(系)研究科(研究院), 教授 (10263401)

Project Period (FY) 2014-04-01 – 2016-03-31
Project Status Completed (Fiscal Year 2015)
Budget Amount *help
¥3,380,000 (Direct Cost: ¥2,600,000、Indirect Cost: ¥780,000)
Fiscal Year 2015: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Fiscal Year 2014: ¥1,690,000 (Direct Cost: ¥1,300,000、Indirect Cost: ¥390,000)
Keywordsモデル微生物 / シミュレーション / 流体力学 / アクティブマター / ソフトマター
Outline of Annual Research Achievements

水中を泳動する微生物は、紐状の鞭毛や表面に生えた繊毛によって水中を自己推進するが、これは船や飛行機などの人工物はもちろん、魚類や昆虫などとも全く異なるメカニズムに基づいている。近年、泳動する微生物に対する力学的・物理学的アプローチの研究が国際的に大きな注目を集めているが、ようやく微生物の単体運動に関する理解に手が届き始めたところに過ぎない。非平衡ダイナミクスの実例としてより重要で、現象の変化にも富んだそれらの集団運動については、理解が全く進んでいないのが現状である。これはこの分野の理論的手法が未熟であることに主な原因があり、ソフトマターで成功した新しい手法を導入することで大きなブレークスルーが期待できる。
我々はこれまでに、球状、および任意形状粒子の濃厚な分散系の直接数値計算を実現するSmoothed Profile(PS)法というシミュレーション法を開発し,平成27年度には、荷電コロイド粒子の動的電気泳動現象の直接数値計算と、泳動するモデル微生物の集団運動の直接数値計算を行った。電気泳動に関しては,その重要な因子である電気二重層の分極を定量的に扱うため、荷電コロイド粒子の分極率を定量的に計算した。モデル微生物については,平板間に制限された空間での分散系のシミュレーションを行った.puller型の場合に液体中に自走粒子の数密度に関する波の進行が観察された.さらに,この進行波の定量的な理解を試みて動的構造因子S(k,ω)を計算すると,通常のコロイド分散系には見られない音波的な密度の揺らぎモードが観察されるなど,自走粒子に特徴的な振る舞いを見出した.興味深いことに,この進行波がpusher型では見られないこともわかった.

Research Progress Status

27年度が最終年度であるため、記入しない。

Strategy for Future Research Activity

27年度が最終年度であるため、記入しない。

Report

(2 results)
  • 2015 Annual Research Report
  • 2014 Annual Research Report
  • Research Products

    (15 results)

All 2016 2015 2014

All Journal Article (9 results) (of which Int'l Joint Research: 1 results,  Peer Reviewed: 9 results,  Acknowledgement Compliant: 1 results,  Open Access: 1 results) Presentation (6 results) (of which Int'l Joint Research: 3 results,  Invited: 3 results)

  • [Journal Article] Synchronized molecular-dynamics simulation for the thermal lubrication of a polymeric liquid between parallel plates2016

    • Author(s)
      Shugo Yasuda and Ryoichi Yamamoto
    • Journal Title

      Computers and Fluids

      Volume: 124 Pages: 185-189

    • DOI

      10.1016/j.compfluid.2015.05.018

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Rheological evaluation of colloidal dispersions using the smooth profile method: formulation and applications2016

    • Author(s)
      John J. Molina, Kotaro Otomura, Hayato Shiba, Hideki Kobayashi, Masaki Sano, and Ryoichi Yamamoto
    • Journal Title

      J. Fluid Mech.

      Volume: 792 Pages: 590-619

    • DOI

      10.1017/jfm.2016.78

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed / Int'l Joint Research
  • [Journal Article] Purely hydrodynamic origin for swarming of swimming particles2016

    • Author(s)
      Norihiro Oyama, John Jairo Molina, and Ryoichi Yamamoto
    • Journal Title

      Phys. Rev. E

      Volume: 93 Issue: 4

    • DOI

      10.1103/physreve.93.043114

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Dynamic polarization of a charged colloid in an oscillating electric field2015

    • Author(s)
      Chunyu Shih, John J. Molina, and Ryoichi Yamamoto
    • Journal Title

      Molec. Phys.

      Volume: 113 Issue: 17-18 Pages: 2511-2522

    • DOI

      10.1080/00268976.2015.1059510

    • Related Report
      2015 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Mutual information reveals multiple structural relaxation mechanisms in a model glassformer2015

    • Author(s)
      Andrew J. Dunleavy, Karoline Wiesner, Ryoichi Yamamoto, and C. Patrick Royall
    • Journal Title

      Nature Comm.

      Volume: 6 Issue: 1

    • DOI

      10.1038/ncomms7089

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Attachment of solid elongated particles on the surface of a stationary gas bubble2015

    • Author(s)
      Gregory Lecrivain, Giacomo Petrucci, Uwe Hampel and Ryoichi Yamamoto
    • Journal Title

      Int. J. Multiphase Flow

      Volume: 71 Pages: 83-93

    • DOI

      10.1016/j.ijmultiphaseflow.2015.01.002

    • NAID

      120005567896

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Dynamic Electrophoresis of Charged Colloids in an Alternating Electric Field2014

    • Author(s)
      Chunyu Shih and Ryoichi Yamamoto
    • Journal Title

      Phys. Rev. E

      Volume: 89 Issue: 6

    • DOI

      10.1103/physreve.89.062317

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Acknowledgement Compliant
  • [Journal Article] Synchronized molecular dynamics simulation via macroscopic heat and momentum transfer: an application to polymer lubrication2014

    • Author(s)
      Shugo Yasuda and Ryoichi Yamamoto
    • Journal Title

      Phys. Rev. X

      Volume: 4 Issue: 4

    • DOI

      10.1103/physrevx.4.041011

    • NAID

      120005555514

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Direct Numerical Simulations of Sedimenting Spherical Particles at Finite Reynolds Number2014

    • Author(s)
      Adnan Hamid, John J. Molina, and Ryoichi Yamamoto
    • Journal Title

      RSC Advances

      Volume: 4 Issue: 96 Pages: 53681-53693

    • DOI

      10.1039/c4ra11025k

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed
  • [Presentation] Collective motion of active swimming particles analogous to acoustic wave propagation2015

    • Author(s)
      Ryoichi Yamamoto
    • Organizer
      Pacifichem2015
    • Place of Presentation
      Hawaii, USA
    • Year and Date
      2015-12-15
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Dynamics of active colloids in confined systems2015

    • Author(s)
      John. J. Molina
    • Organizer
      Pacifichem2015
    • Place of Presentation
      Hawaii, USA
    • Year and Date
      2015-12-15
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Anomalous wave-propagation in an active swimmer dispersion2015

    • Author(s)
      Ryoichi Yamamoto
    • Organizer
      International Symposium on Fluctuation and Structure out of Equilibrium 2015
    • Place of Presentation
      Kyoto, Japan
    • Year and Date
      2015-08-20
    • Related Report
      2015 Annual Research Report
    • Int'l Joint Research
  • [Presentation] Simulating Particles Moving through Fluids2015

    • Author(s)
      Ryoichi Yamamoto
    • Organizer
      Physics of Structural and Dynamical Hierarchy in Soft Matter
    • Place of Presentation
      Tokyo, Japan
    • Year and Date
      2015-03-16 – 2015-03-18
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] DNS of colloidal dispersions using the smoothed profile method: formulation and applications2015

    • Author(s)
      Ryoichi Yamamoto
    • Organizer
      High Performance and Parallel Computing for Materials Defects and Multiphase Flows
    • Place of Presentation
      Singapore
    • Year and Date
      2015-03-02 – 2015-03-06
    • Related Report
      2014 Annual Research Report
    • Invited
  • [Presentation] Direct Numerical Simulations (DNS) of Swimming Particles2014

    • Author(s)
      Ryoichi Yamamoto
    • Organizer
      International symposium and workshop on Computational condensed matter: advances and challenges (CompMat2014)
    • Place of Presentation
      Whitehaven, UK
    • Year and Date
      2014-09-07 – 2014-09-09
    • Related Report
      2014 Annual Research Report
    • Invited

URL: 

Published: 2014-04-04   Modified: 2018-03-28  

Information User Guide FAQ News Terms of Use Attribution of KAKENHI

Powered by NII kakenhi