Biomembrane shape regulation by proteins

• Project/Area Number: 17K05607
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Multi-year Fund
• Section: 一般
• Research Field: Biological physics/Chemical physics/Soft matter physics
• Research Institution: The University of Tokyo
• Principal Investigator: Noguchi Hiroshi 東京大学, 物性研究所, 准教授 (00514564)
• Project Period (FY): 2017-04-01 – 2021-03-31
• Project Status: Completed (Fiscal Year 2020)
• Budget Amount: ¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000); 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: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000); Fiscal Year 2017: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
• Keywords: 生物物理 / ソフトマター / 生体膜 / シミュレーション

Outline of Final Research Achievements

Shape transformations of biomembranes were studied by using coarse-grained simulations. We clarified (1) the importance of chirality in membrane tubulation, (2) traveling waves and Turing patterns with coupling with membrane deformation, and (3) non-equilibrium fluctuations of moving membrane by filament growth. We also developed (4) virtual bending method to calculate membrane mechanical properties and (5) how to maintain the angular-momentum conservation at the discretization of Navier-Storks equations.

Academic Significance and Societal Importance of the Research Achievements

細胞内の生命活動における静的や動的な膜構造はタンパク質によって制御されている。これらのタンパク質の欠損は細胞小器官の構造異常や細胞機能不全につながり、その機能を理解することは非常に重要である。しかし、その機構はまだよく理解されていない。本研究では分子レベルから、マイクロメートルのスケールの様々の状況で、タンパク質がどのように生体膜と相互作用し、構造を制御しているかについて重要な知見を明らかにした。

Research Products

• [Int'l Joint Research] University of Lyon/University of Paris(フランス)
• [Int'l Joint Research] リヨン第一大学(フランス)
• [Journal Article] Undulation of a moving fluid membrane pushed by filament growth (2021)
  • Author(s): H. Noguchi and O. Pierre-Louis
  • Journal Title: Sci. Rep. Volume: 11 Issue: 1
  • DOI: 10.1038/s41598-021-87073-6
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Pattern Formation in Reaction-Diffusion System on Membrane with Mechanochemical Feedback (2020)
  • Author(s): N. Tamemoto and H. Noguchi
  • Journal Title: Sci. Rep. Volume: 10 Issue: 1
  • DOI: 10.1038/s41598-020-76695-x
  • Peer Reviewed / Open Access
• [Journal Article] Conformation of ultra-long-chain fatty acid in lipid bilayer: Molecular dynamics study (2020)
  • Author(s): K. Kawaguchi, K. M. Nakagawa, S. Nakagawa, H. Shindou, H. Nagao, and H. Noguchi
  • Journal Title: J. Chem. Phys. Volume: 153 Issue: 16
  • DOI: 10.1063/5.0026030
  • Peer Reviewed
• [Journal Article] Virtual bending method to calculate bending rigidity, saddle-splay modulus, and spontaneous curvature of thin fluid membranes (2020)
  • Author(s): H. Noguchi
  • Journal Title: Phys. Rev. E Volume: 102 Issue: 5
  • DOI: 10.1103/physreve.102.053315
  • Peer Reviewed
• [Journal Article] Shape transition from elliptical to cylindrical membrane tubes induced by chiral crescent-shaped protein rods (2019)
  • Author(s): Hiroshi Noguchi
  • Journal Title: Scientific Reports Volume: 9 Issue: 1 Pages: 11721-11721
  • DOI: 10.1038/s41598-019-48102-7
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Cup-to-vesicle transition of a fluid membrane with spontaneous curvature (2019)
  • Author(s): Hiroshi Noguchi
  • Journal Title: The Journal of Chemical Physics Volume: 151 Issue: 9 Pages: 094903-094903
  • DOI: 10.1063/1.5113646
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Detachment of a fluid membrane from a substrate and vesiculation (2019)
  • Author(s): Hiroshi Noguchi
  • Journal Title: Soft Matter Volume: 15 Issue: 43 Pages: 8741-8748
  • DOI: 10.1039/c9sm01622h
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Angular-momentum conservation in discretization of the Navier-Stokes equation for viscous fluids (2019)
  • Author(s): Hiroshi Noguchi
  • Journal Title: Physical Review E Volume: 99 Issue: 2
  • DOI: 10.1103/physreve.99.023307
  • Peer Reviewed
• [Journal Article] Acceleration and suppression of banana-shapedprotein- induced tubulation by addition of small membrane inclusions of isotropic spontaneous curvatures (2017)
  • Author(s): Hiroshi Noguchi
  • Journal Title: Soft Matter Volume: 13 Issue: 42 Pages: 7771-7779
  • DOI: 10.1039/c7sm01375b
  • Peer Reviewed
• [Presentation] 仮想変形法による薄膜の曲げ弾性率、ガウス弾性率、自発曲率の 計算 (2021)
  • Author(s): 野口博司
  • Organizer: 日本物理学会第76回年次大会
• [Presentation] Modeling of Membrane under Chemical Reaction (2020)
  • Author(s): H. Noguchi
  • Organizer: 2nd Joint SIAM/CAIMS Annual Meeting (AN20) and SIAM Conference on Imaging Science (IS20)
  • Int'l Joint Research / Invited
• [Presentation] 脂質膜へのタンパク質吸着によるマイクロドメイン形成 (2020)
  • Author(s): 野口博司
  • Organizer: 日本物理学会第75回年次大会
• [Presentation] ナビエ・ストークス方程式の離散化時の角運動量保存の喪失について (2019)
  • Author(s): 野口博司
  • Organizer: 日本物理学会2019年秋季大会
• [Presentation] Membrane detachment from substrate induced by protein adhesion (2019)
  • Author(s): Hiroshi Noguchi
  • Organizer: 日本生物物理学会第57回年会
• [Presentation] 基板からの脂質膜の剥離 (2019)
  • Author(s): 野口博司
  • Organizer: つくばソフトマター研究会2019
• [Presentation] Membrane tubulation induced by assembly of chiral banana-shaped protein rods (2018)
  • Author(s): Hiroshi Noguchi
  • Organizer: 第56 回日本生物物理学会年会
• [Presentation] BARドメインの集合による膜チューブ形成機構 (2018)
  • Author(s): 野口博司
  • Organizer: 第91回日本生化学大会
  • Invited
• [Presentation] タンパク質による生体膜の形状制御 (2018)
  • Author(s): 野口博司
  • Organizer: 「ベシクルの変形の物理と数理」勉強会
• [Presentation] Angular-momentum conservation in the discretization of Navier-Stokes equation of viscous fluids (2018)
  • Author(s): Hiroshi Noguchi
  • Organizer: Workshop on Simulations for the Dynamics of Soft-Matters (2018)
• [Presentation] Membrane tubulation induced by banana-shaped protein rods (2018)
  • Author(s): Hiroshi Noguchi
  • Organizer: Juelich Soft Matter Days 2018
• [Presentation] Membrane tubulation induced by assembly of banana-shaped protein rods (2017)
  • Author(s): Hiroshi Noguchi
  • Organizer: 第55回日本生物物理学会年会
  • Invited
• [Presentation] バナナ状タンパク質による生体膜の構造形成 (2017)
  • Author(s): 野口博司
  • Organizer: 日本物理学会2017年秋季大会
• [Remarks] 野口研究室HP
  • URL: https://noguchi.issp.u-tokyo.ac.jp/