Literature DB >> 32482873

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

Jorge R Espinosa1,2,3, Jerelle A Joseph1,2,3, Ignacio Sanchez-Burgos1,2,3, Adiran Garaizar1,2,3, Daan Frenkel2, Rosana Collepardo-Guevara4,2,3.   

Abstract

One of the key mechanisms used by cells to control the spatiotemporal organization of their many components is the formation and dissolution of biomolecular condensates through liquid-liquid phase separation (LLPS). Using a minimal coarse-grained model that allows us to simulate thousands of interacting multivalent proteins, we investigate the physical parameters dictating the stability and composition of multicomponent biomolecular condensates. We demonstrate that the molecular connectivity of the condensed-liquid network-i.e., the number of weak attractive protein-protein interactions per unit of volume-determines the stability (e.g., in temperature, pH, salt concentration) of multicomponent condensates, where stability is positively correlated with connectivity. While the connectivity of scaffolds (biomolecules essential for LLPS) dominates the phase landscape, introduction of clients (species recruited via scaffold-client interactions) fine-tunes it by transforming the scaffold-scaffold bond network. Whereas low-valency clients that compete for scaffold-scaffold binding sites decrease connectivity and stability, those that bind to alternate scaffold sites not required for LLPS or that have higher-than-scaffold valencies form additional scaffold-client-scaffold bridges increasing stability. Proteins that establish more connections (via increased valencies, promiscuous binding, and topologies that enable multivalent interactions) support the stability of and are enriched within multicomponent condensates. Importantly, proteins that increase the connectivity of multicomponent condensates have higher critical points as pure systems or, if pure LLPS is unfeasible, as binary scaffold-client mixtures. Hence, critical points of accessible systems (i.e., with just a few components) might serve as a unified thermodynamic parameter to predict the composition of multicomponent condensates.

Entities:  

Keywords:  biomolecular condensates; cell compartmentalization; liquid–liquid phase separation; membraneless organelles

Year:  2020        PMID: 32482873      PMCID: PMC7306995          DOI: 10.1073/pnas.1917569117

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  67 in total

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3.  mRNA structure determines specificity of a polyQ-driven phase separation.

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Journal:  Science       Date:  2018-04-12       Impact factor: 47.728

Review 4.  Minimal coarse-grained models for molecular self-organisation in biology.

Authors:  Anne E Hafner; Johannes Krausser; Anđela Šarić
Journal:  Curr Opin Struct Biol       Date:  2019-06-18       Impact factor: 6.809

5.  Valence and patterning of aromatic residues determine the phase behavior of prion-like domains.

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6.  Phase separation in biology.

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Journal:  Curr Biol       Date:  2017-10-23       Impact factor: 10.834

Review 7.  Liquid phase condensation in cell physiology and disease.

Authors:  Yongdae Shin; Clifford P Brangwynne
Journal:  Science       Date:  2017-09-22       Impact factor: 47.728

8.  Model for disordered proteins with strongly sequence-dependent liquid phase behavior.

Authors:  Antonia Statt; Helena Casademunt; Clifford P Brangwynne; Athanassios Z Panagiotopoulos
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9.  Phase transition of a disordered nuage protein generates environmentally responsive membraneless organelles.

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Journal:  Mol Cell       Date:  2015-03-05       Impact factor: 17.970

10.  Compositional Control of Phase-Separated Cellular Bodies.

Authors:  Salman F Banani; Allyson M Rice; William B Peeples; Yuan Lin; Saumya Jain; Roy Parker; Michael K Rosen
Journal:  Cell       Date:  2016-06-30       Impact factor: 41.582

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  36 in total

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Review 2.  The solid and liquid states of chromatin.

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3.  'RNA modulation of transport properties and stability in phase-separated condensates.

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4.  Assembly of model postsynaptic densities involves interactions auxiliary to stoichiometric binding.

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5.  Physical theory of biological noise buffering by multicomponent phase separation.

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Journal:  Proc Natl Acad Sci U S A       Date:  2021-06-22       Impact factor: 11.205

Review 6.  Physics-based computational and theoretical approaches to intrinsically disordered proteins.

Authors:  Joan-Emma Shea; Robert B Best; Jeetain Mittal
Journal:  Curr Opin Struct Biol       Date:  2021-02-02       Impact factor: 6.809

7.  Thermodynamics and kinetics of phase separation of protein-RNA mixtures by a minimal model.

Authors:  Jerelle A Joseph; Jorge R Espinosa; Ignacio Sanchez-Burgos; Adiran Garaizar; Daan Frenkel; Rosana Collepardo-Guevara
Journal:  Biophys J       Date:  2021-02-09       Impact factor: 4.033

8.  Nucleosome plasticity is a critical element of chromatin liquid-liquid phase separation and multivalent nucleosome interactions.

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