Literature DB >> 26764729

Multiscale modeling and simulation of microtubule-motor-protein assemblies.

Tong Gao1, Robert Blackwell2, Matthew A Glaser2, M D Betterton2, Michael J Shelley1.   

Abstract

Microtubules and motor proteins self-organize into biologically important assemblies including the mitotic spindle and the centrosomal microtubule array. Outside of cells, microtubule-motor mixtures can form novel active liquid-crystalline materials driven out of equilibrium by adenosine triphosphate-consuming motor proteins. Microscopic motor activity causes polarity-dependent interactions between motor proteins and microtubules, but how these interactions yield larger-scale dynamical behavior such as complex flows and defect dynamics is not well understood. We develop a multiscale theory for microtubule-motor systems in which Brownian dynamics simulations of polar microtubules driven by motors are used to study microscopic organization and stresses created by motor-mediated microtubule interactions. We identify polarity-sorting and crosslink tether relaxation as two polar-specific sources of active destabilizing stress. We then develop a continuum Doi-Onsager model that captures polarity sorting and the hydrodynamic flows generated by these polar-specific active stresses. In simulations of active nematic flows on immersed surfaces, the active stresses drive turbulent flow dynamics and continuous generation and annihilation of disclination defects. The dynamics follow from two instabilities, and accounting for the immersed nature of the experiment yields unambiguous characteristic length and time scales. When turning off the hydrodynamics in the Doi-Onsager model, we capture formation of polar lanes as observed in the Brownian dynamics simulation.

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Year:  2015        PMID: 26764729      PMCID: PMC5082993          DOI: 10.1103/PhysRevE.92.062709

Source DB:  PubMed          Journal:  Phys Rev E Stat Nonlin Soft Matter Phys        ISSN: 1539-3755


  54 in total

1.  Single kinesin molecules studied with a molecular force clamp.

Authors:  K Visscher; M J Schnitzer; S M Block
Journal:  Nature       Date:  1999-07-08       Impact factor: 49.962

2.  Self-organization and mechanical properties of active filament bundles.

Authors:  Karsten Kruse; Frank Jülicher
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2003-05-19

3.  Nonlinear competition between asters and stripes in filament-motor systems.

Authors:  F Ziebert; W Zimmermann
Journal:  Eur Phys J E Soft Matter       Date:  2005-10-07       Impact factor: 1.890

4.  Crosslinkers and motors organize dynamic microtubules to form stable bipolar arrays in fission yeast.

Authors:  Marcel E Janson; Rose Loughlin; Isabelle Loïodice; Chuanhai Fu; Damian Brunner; François J Nédélec; Phong T Tran
Journal:  Cell       Date:  2007-01-26       Impact factor: 41.582

5.  Defect annihilation and proliferation in active nematics.

Authors:  Luca Giomi; Mark J Bowick; Xu Ma; M Cristina Marchetti
Journal:  Phys Rev Lett       Date:  2013-05-29       Impact factor: 9.161

6.  Active multistage coarsening of actin networks driven by myosin motors.

Authors:  Marina Soares e Silva; Martin Depken; Björn Stuhrmann; Marijn Korsten; Fred C MacKintosh; Gijsje H Koenderink
Journal:  Proc Natl Acad Sci U S A       Date:  2011-05-18       Impact factor: 11.205

7.  Vorticity, defects and correlations in active turbulence.

Authors:  Sumesh P Thampi; Ramin Golestanian; Julia M Yeomans
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2014-11-28       Impact factor: 4.226

8.  Scale-free correlations in starling flocks.

Authors:  Andrea Cavagna; Alessio Cimarelli; Irene Giardina; Giorgio Parisi; Raffaele Santagati; Fabio Stefanini; Massimiliano Viale
Journal:  Proc Natl Acad Sci U S A       Date:  2010-06-14       Impact factor: 11.205

9.  Requirements for contractility in disordered cytoskeletal bundles.

Authors:  Martin Lenz; Margaret L Gardel; Aaron R Dinner
Journal:  New J Phys       Date:  2012-03-28       Impact factor: 3.729

10.  Topology and dynamics of active nematic vesicles.

Authors:  Felix C Keber; Etienne Loiseau; Tim Sanchez; Stephen J DeCamp; Luca Giomi; Mark J Bowick; M Cristina Marchetti; Zvonimir Dogic; Andreas R Bausch
Journal:  Science       Date:  2014-09-05       Impact factor: 47.728

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  11 in total

1.  Microtubule Dynamics, Kinesin-1 Sliding, and Dynein Action Drive Growth of Cell Processes.

Authors:  Dietmar B Oelz; Urko Del Castillo; Vladimir I Gelfand; Alex Mogilner
Journal:  Biophys J       Date:  2018-09-11       Impact factor: 4.033

Review 2.  Molecular simulations of cellular processes.

Authors:  Fabio Trovato; Giordano Fumagalli
Journal:  Biophys Rev       Date:  2017-11-28

3.  A Mechanistic View of Collective Filament Motion in Active Nematic Networks.

Authors:  Moritz Striebel; Isabella R Graf; Erwin Frey
Journal:  Biophys J       Date:  2019-11-28       Impact factor: 4.033

4.  Mechanisms of chromosome biorientation and bipolar spindle assembly analyzed by computational modeling.

Authors:  Christopher Edelmaier; Adam R Lamson; Zachary R Gergely; Saad Ansari; Robert Blackwell; J Richard McIntosh; Matthew A Glaser; Meredith D Betterton
Journal:  Elife       Date:  2020-02-13       Impact factor: 8.140

5.  Toward the cellular-scale simulation of motor-driven cytoskeletal assemblies.

Authors:  Wen Yan; Saad Ansari; Adam Lamson; Matthew A Glaser; Robert Blackwell; Meredith D Betterton; Michael Shelley
Journal:  Elife       Date:  2022-05-26       Impact factor: 8.713

6.  Contributions of Microtubule Dynamic Instability and Rotational Diffusion to Kinetochore Capture.

Authors:  Robert Blackwell; Oliver Sweezy-Schindler; Christopher Edelmaier; Zachary R Gergely; Patrick J Flynn; Salvador Montes; Ammon Crapo; Alireza Doostan; J Richard McIntosh; Matthew A Glaser; Meredith D Betterton
Journal:  Biophys J       Date:  2016-09-28       Impact factor: 4.033

7.  Comparison of explicit and mean-field models of cytoskeletal filaments with crosslinking motors.

Authors:  Adam R Lamson; Jeffrey M Moore; Fang Fang; Matthew A Glaser; Michael J Shelley; Meredith D Betterton
Journal:  Eur Phys J E Soft Matter       Date:  2021-03-29       Impact factor: 1.890

8.  Physical determinants of bipolar mitotic spindle assembly and stability in fission yeast.

Authors:  Robert Blackwell; Christopher Edelmaier; Oliver Sweezy-Schindler; Adam Lamson; Zachary R Gergely; Eileen O'Toole; Ammon Crapo; Loren E Hough; J Richard McIntosh; Matthew A Glaser; Meredith D Betterton
Journal:  Sci Adv       Date:  2017-01-20       Impact factor: 14.136

9.  A theory that predicts behaviors of disordered cytoskeletal networks.

Authors:  Julio M Belmonte; Maria Leptin; François Nédélec
Journal:  Mol Syst Biol       Date:  2017-09-27       Impact factor: 11.429

10.  Kinesin-5-independent mitotic spindle assembly requires the antiparallel microtubule crosslinker Ase1 in fission yeast.

Authors:  Sergio A Rincon; Adam Lamson; Robert Blackwell; Viktoriya Syrovatkina; Vincent Fraisier; Anne Paoletti; Meredith D Betterton; Phong T Tran
Journal:  Nat Commun       Date:  2017-05-17       Impact factor: 14.919

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