Literature DB >> 28256228

Phase Transitions in Biological Systems with Many Components.

William M Jacobs1, Daan Frenkel2.   

Abstract

Biological mixtures such as the cytosol may consist of thousands of distinct components. There is now a substantial body of evidence showing that, under physiological conditions, intracellular mixtures can phase separate into spatially distinct regions with differing compositions. In this article we present numerical evidence indicating that such spontaneous compartmentalization exploits general features of the phase diagram of a multicomponent biomolecular mixture. In particular, we show that demixed domains are likely to segregate when the variance in the intermolecular interaction strengths exceeds a well-defined threshold. Multiple distinct phases are likely to become stable under very similar conditions, which can then be tuned to achieve multiphase coexistence. As a result, only minor adjustments to the composition of the cytosol or the strengths of the intermolecular interactions are needed to regulate the formation of different domains with specific compositions, implying that phase separation is a robust mechanism for creating spatial organization. We further predict that this functionality is only weakly affected by increasing the number of components in the system. Our model therefore suggests that, for purely physico-chemical reasons, biological mixtures are naturally poised to undergo a small number of demixing phase transitions.
Copyright © 2017 Biophysical Society. Published by Elsevier Inc. All rights reserved.

Mesh:

Year:  2017        PMID: 28256228      PMCID: PMC5340130          DOI: 10.1016/j.bpj.2016.10.043

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  24 in total

Review 1.  Getting RNA and protein in phase.

Authors:  Stephanie C Weber; Clifford P Brangwynne
Journal:  Cell       Date:  2012-06-08       Impact factor: 41.582

2.  Nonspecific binding limits the number of proteins in a cell and shapes their interaction networks.

Authors:  Margaret E Johnson; Gerhard Hummer
Journal:  Proc Natl Acad Sci U S A       Date:  2010-12-27       Impact factor: 11.205

3.  Plasma membranes are poised for activation of raft phase coalescence at physiological temperature.

Authors:  Daniel Lingwood; Jonas Ries; Petra Schwille; Kai Simons
Journal:  Proc Natl Acad Sci U S A       Date:  2008-07-09       Impact factor: 11.205

4.  Predicting phase behavior in multicomponent mixtures.

Authors:  William M Jacobs; Daan Frenkel
Journal:  J Chem Phys       Date:  2013-07-14       Impact factor: 3.488

5.  Robust protein protein interactions in crowded cellular environments.

Authors:  Eric J Deeds; Orr Ashenberg; Jaline Gerardin; Eugene I Shakhnovich
Journal:  Proc Natl Acad Sci U S A       Date:  2007-09-11       Impact factor: 11.205

6.  Inverse size scaling of the nucleolus by a concentration-dependent phase transition.

Authors:  Stephanie C Weber; Clifford P Brangwynne
Journal:  Curr Biol       Date:  2015-02-19       Impact factor: 10.834

7.  Order of lipid phases in model and plasma membranes.

Authors:  Hermann-Josef Kaiser; Daniel Lingwood; Ilya Levental; Julio L Sampaio; Lucie Kalvodova; Lawrence Rajendran; Kai Simons
Journal:  Proc Natl Acad Sci U S A       Date:  2009-09-15       Impact factor: 11.205

8.  Aqueous phase separation as a possible route to compartmentalization of biological molecules.

Authors:  Christine D Keating
Journal:  Acc Chem Res       Date:  2012-02-14       Impact factor: 22.384

9.  Phase transition of a disordered nuage protein generates environmentally responsive membraneless organelles.

Authors:  Timothy J Nott; Evangelia Petsalaki; Patrick Farber; Dylan Jervis; Eden Fussner; Anne Plochowietz; Timothy D Craggs; David P Bazett-Jones; Tony Pawson; Julie D Forman-Kay; Andrew J Baldwin
Journal:  Mol Cell       Date:  2015-03-05       Impact factor: 17.970

10.  Constraints imposed by non-functional protein-protein interactions on gene expression and proteome size.

Authors:  Jingshan Zhang; Sergei Maslov; Eugene I Shakhnovich
Journal:  Mol Syst Biol       Date:  2008-08-05       Impact factor: 11.429

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  35 in total

1.  Designer protein assemblies with tunable phase diagrams in living cells.

Authors:  Meta Heidenreich; Joseph M Georgeson; Emanuele Locatelli; Lorenzo Rovigatti; Saroj Kumar Nandi; Avital Steinberg; Yotam Nadav; Eyal Shimoni; Samuel A Safran; Jonathan P K Doye; Emmanuel D Levy
Journal:  Nat Chem Biol       Date:  2020-07-13       Impact factor: 15.040

2.  To Mix, or To Demix, That Is the Question.

Authors:  Tyler S Harmon; Alex S Holehouse; Rohit V Pappu
Journal:  Biophys J       Date:  2017-02-28       Impact factor: 4.033

3.  Liquid network connectivity regulates the stability and composition of biomolecular condensates with many components.

Authors:  Jorge R Espinosa; Jerelle A Joseph; Ignacio Sanchez-Burgos; Adiran Garaizar; Daan Frenkel; Rosana Collepardo-Guevara
Journal:  Proc Natl Acad Sci U S A       Date:  2020-06-01       Impact factor: 11.205

4.  Composition-dependent thermodynamics of intracellular phase separation.

Authors:  Joshua A Riback; Lian Zhu; Mylene C Ferrolino; Michele Tolbert; Diana M Mitrea; David W Sanders; Ming-Tzo Wei; Richard W Kriwacki; Clifford P Brangwynne
Journal:  Nature       Date:  2020-05-06       Impact factor: 49.962

Review 5.  Biomolecular Phase Separation: From Molecular Driving Forces to Macroscopic Properties.

Authors:  Gregory L Dignon; Robert B Best; Jeetain Mittal
Journal:  Annu Rev Phys Chem       Date:  2020-04-20       Impact factor: 12.703

6.  Profilin reduces aggregation and phase separation of huntingtin N-terminal fragments by preferentially binding to soluble monomers and oligomers.

Authors:  Ammon E Posey; Kiersten M Ruff; Tyler S Harmon; Scott L Crick; Aimin Li; Marc I Diamond; Rohit V Pappu
Journal:  J Biol Chem       Date:  2018-01-22       Impact factor: 5.157

7.  On the origin of non-membrane-bound organelles, and their physiological function.

Authors:  Wylie Stroberg; Santiago Schnell
Journal:  J Theor Biol       Date:  2017-04-06       Impact factor: 2.691

8.  Competing Protein-RNA Interaction Networks Control Multiphase Intracellular Organization.

Authors:  David W Sanders; Nancy Kedersha; Daniel S W Lee; Amy R Strom; Victoria Drake; Joshua A Riback; Dan Bracha; Jorine M Eeftens; Allana Iwanicki; Alicia Wang; Ming-Tzo Wei; Gena Whitney; Shawn M Lyons; Paul Anderson; William M Jacobs; Pavel Ivanov; Clifford P Brangwynne
Journal:  Cell       Date:  2020-04-16       Impact factor: 41.582

Review 9.  Nonspecific characteristics of macromolecules create specific effects in living cells.

Authors:  Kanta Tsumoto; Hiroki Sakuta; Kingo Takiguchi; Kenichi Yoshikawa
Journal:  Biophys Rev       Date:  2020-03-06

10.  Maximum Entropy Optimized Force Field for Intrinsically Disordered Proteins.

Authors:  Andrew P Latham; Bin Zhang
Journal:  J Chem Theory Comput       Date:  2019-12-13       Impact factor: 6.006

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