Literature DB >> 27087801

Phenomenology based multiscale models as tools to understand cell membrane and organelle morphologies.

N Ramakrishnan1, Ravi Radhakrishnan1.   

Abstract

An intriguing question in cell biology is "how do cells regulate their shape?" It is commonly believed that the observed cellular morphologies are a result of the complex interaction among the lipid molecules (constituting the cell membrane), and with a number of other macromolecules, such as proteins. It is also believed that the common biophysical processes essential for the functioning of a cell also play an important role in cellular morphogenesis. At the cellular scale-where typical dimensions are in the order of micrometers-the effects arising from the molecular scale can either be modeled as equilibrium or non-equilibrium processes. In this chapter, we discuss the dynamically triangulated Monte Carlo technique to model and simulate membrane morphologies at the cellular scale, which in turn can be used to investigate several questions related to shape regulation in cells. In particular, we focus on two specific problems within the framework of isotropic and anisotropic elasticity theories: namely, (i) the origin of complex, physiologically relevant, membrane shapes due to the interaction of the membrane with curvature remodeling proteins, and (ii) the genesis of steady state cellular shapes due to the action of non-equilibrium forces that are generated by the fission and fusion of transport vesicles and by the binding and unbinding of proteins from the parent membrane.

Entities:  

Keywords:  Helfrich Hamiltonian; Monte Carlo; cell membrane; continuum models; curvature remodeling; detailed balance; fission and fusion; lipid bilayer; self-assembly; triangulated surfaces

Year:  2015        PMID: 27087801      PMCID: PMC4830133          DOI: 10.1016/bs.adplan.2015.06.004

Source DB:  PubMed          Journal:  Adv Planar Lipid Bilayers Liposomes


  103 in total

Review 1.  Dynamin and its role in membrane fission.

Authors:  J E Hinshaw
Journal:  Annu Rev Cell Dev Biol       Date:  2000       Impact factor: 13.827

Review 2.  Epsins: adaptors in endocytosis?

Authors:  Beverly Wendland
Journal:  Nat Rev Mol Cell Biol       Date:  2002-12       Impact factor: 94.444

Review 3.  How proteins produce cellular membrane curvature.

Authors:  Joshua Zimmerberg; Michael M Kozlov
Journal:  Nat Rev Mol Cell Biol       Date:  2006-01       Impact factor: 94.444

Review 4.  Multiscale modeling of biomolecular systems: in serial and in parallel.

Authors:  Gary S Ayton; Will G Noid; Gregory A Voth
Journal:  Curr Opin Struct Biol       Date:  2007-03-23       Impact factor: 6.809

Review 5.  Sheets, ribbons and tubules - how organelles get their shape.

Authors:  Gia K Voeltz; William A Prinz
Journal:  Nat Rev Mol Cell Biol       Date:  2007-02-07       Impact factor: 94.444

6.  The BAR domain superfamily: membrane-molding macromolecules.

Authors:  Adam Frost; Vinzenz M Unger; Pietro De Camilli
Journal:  Cell       Date:  2009-04-17       Impact factor: 41.582

7.  The influence of anisotropic membrane inclusions on curvature elastic properties of lipid membranes.

Authors:  Miha Fosnaric; Klemen Bohinc; Dorit R Gauger; Ales Iglic; Veronika Kralj-Iglic; Sylvio May
Journal:  J Chem Inf Model       Date:  2005 Nov-Dec       Impact factor: 4.956

8.  Reconstructing protein remodeled membranes in molecular detail from mesoscopic models.

Authors:  Edward Lyman; Haosheng Cui; Gregory A Voth
Journal:  Phys Chem Chem Phys       Date:  2011-04-18       Impact factor: 3.676

Review 9.  Mechanisms shaping the membranes of cellular organelles.

Authors:  Yoko Shibata; Junjie Hu; Michael M Kozlov; Tom A Rapoport
Journal:  Annu Rev Cell Dev Biol       Date:  2009       Impact factor: 13.827

10.  Multiscale computational models in physical systems biology of intracellular trafficking.

Authors:  Richard W Tourdot; Ryan P Bradley; Natesan Ramakrishnan; Ravi Radhakrishnan
Journal:  IET Syst Biol       Date:  2014-10       Impact factor: 1.615

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  3 in total

1.  Biophysics of membrane curvature remodeling at molecular and mesoscopic lengthscales.

Authors:  N Ramakrishnan; Ryan P Bradley; Richard W Tourdot; Ravi Radhakrishnan
Journal:  J Phys Condens Matter       Date:  2018-05-22       Impact factor: 2.333

2.  Thermodynamic free energy methods to investigate shape transitions in bilayer membranes.

Authors:  N Ramakrishnan; Richard W Tourdot; Ravi Radhakrishnan
Journal:  Int J Adv Eng Sci Appl Math       Date:  2016-01-22

3.  Mem3DG: Modeling membrane mechanochemical dynamics in 3D using discrete differential geometry.

Authors:  Cuncheng Zhu; Christopher T Lee; Padmini Rangamani
Journal:  Biophys Rep (N Y)       Date:  2022-06-15
  3 in total

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