Literature DB >> 35355617

A general computational framework for the dynamics of single- and multi-phase vesicles and membranes.

Tiankui Zhang1, Charles W Wolgemuth1,2,3.   

Abstract

The dynamics of thin, membrane-like structures are ubiquitous in nature. They play especially important roles in cell biology. Cell membranes separate the inside of a cell from the outside, and vesicles compartmentalize proteins into functional microregions, such as the lysosome. Proteins and/or lipid molecules also aggregate and deform membranes to carry out cellular functions. For example, some viral particles can induce the membrane to invaginate and form an endocytic vesicle that pulls the virus into the cell. While the physics of membranes has been extensively studied since the pioneering work of Helfrich in the 1970's, simulating the dynamics of large scale deformations remains challenging, especially for cases where the membrane composition is spatially heterogeneous. Here, we develop a general computational framework to simulate the overdamped dynamics of membranes and vesicles. We start by considering a membrane with an energy that is a generalized functional of the shape invariants and also includes line discontinuities that arise due to phase boundaries. Using this energy, we derive the internal restoring forces and construct a level set-based algorithm that can stably simulate the large-scale dynamics of these generalized membranes, including scenarios that lead to membrane fission. This method is applied to solve for shapes of single-phase vesicles using a range of reduced volumes, reduced area differences, and preferred curvatures. Our results match well the experimentally measured shapes of corresponding vesicles. The method is then applied to explore the dynamics of multiphase vesicles, predicting equilibrium shapes and conditions that lead to fission near phase boundaries.

Entities:  

Keywords:  biphasic vesicles; endocytosis; exocytosis; membrane dynamics

Year:  2021        PMID: 35355617      PMCID: PMC8959479          DOI: 10.1016/j.jcp.2021.110815

Source DB:  PubMed          Journal:  J Comput Phys        ISSN: 0021-9991            Impact factor:   3.553


  32 in total

1.  Membrane elasticity in giant vesicles with fluid phase coexistence.

Authors:  T Baumgart; S Das; W W Webb; J T Jenkins
Journal:  Biophys J       Date:  2005-05-13       Impact factor: 4.033

2.  Modelling and simulations of multi-component lipid membranes and open membranes via diffuse interface approaches.

Authors:  Xiaoqiang Wang; Qiang Du
Journal:  J Math Biol       Date:  2007-08-15       Impact factor: 2.259

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Authors:  W Helfrich
Journal:  Z Naturforsch C       Date:  1973 Nov-Dec       Impact factor: 1.649

Review 4.  Thermodynamics and mechanics of membrane curvature generation and sensing by proteins and lipids.

Authors:  Tobias Baumgart; Benjamin R Capraro; Chen Zhu; Sovan L Das
Journal:  Annu Rev Phys Chem       Date:  2011       Impact factor: 12.703

5.  Influenza virus M2 protein mediates ESCRT-independent membrane scission.

Authors:  Jeremy S Rossman; Xianghong Jing; George P Leser; Robert A Lamb
Journal:  Cell       Date:  2010-09-17       Impact factor: 41.582

Review 6.  Lipid somersaults: Uncovering the mechanisms of protein-mediated lipid flipping.

Authors:  Thomas Günther Pomorski; Anant K Menon
Journal:  Prog Lipid Res       Date:  2016-08-12       Impact factor: 16.195

7.  Lipid membranes with an edge.

Authors:  R Capovilla; J Guven; J A Santiago
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2002-08-30

Review 8.  Mechanisms of endocytosis.

Authors:  Gary J Doherty; Harvey T McMahon
Journal:  Annu Rev Biochem       Date:  2009       Impact factor: 23.643

Review 9.  Lipid rafts as a membrane-organizing principle.

Authors:  Daniel Lingwood; Kai Simons
Journal:  Science       Date:  2010-01-01       Impact factor: 47.728

10.  Production of Isolated Giant Unilamellar Vesicles under High Salt Concentrations.

Authors:  Hannah Stein; Susann Spindler; Navid Bonakdar; Chun Wang; Vahid Sandoghdar
Journal:  Front Physiol       Date:  2017-02-13       Impact factor: 4.566

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