Literature DB >> 30099028

Who's In and Who's Out-Compositional Control of Biomolecular Condensates.

Jonathon A Ditlev1, Lindsay B Case2, Michael K Rosen3.   

Abstract

Biomolecular condensates are two- and three-dimensional compartments in eukaryotic cells that concentrate specific collections of molecules without an encapsulating membrane. Many condensates behave as dynamic liquids and appear to form through liquid-liquid phase separation driven by weak, multivalent interactions between macromolecules. In this review, we discuss current models and data regarding the control of condensate composition, and we describe our current understanding of the composition of representative condensates including PML nuclear bodies, P-bodies, stress granules, the nucleolus, and two-dimensional membrane localized LAT and nephrin clusters. Specific interactions, such as interactions between modular binding domains, weaker interactions between intrinsically disorder regions and nucleic acid base pairing, and nonspecific interactions, such as electrostatic interactions and hydrophobic interactions, influence condensate composition. Understanding how specific condensate composition is determined is essential to understanding condensates as biochemical entities and ultimately discerning their cellular and organismic functions.
Copyright © 2018 The Author(s). Published by Elsevier Ltd.. All rights reserved.

Entities:  

Keywords:  LAT cluster; PML nuclear body; biomolecular condensate; composition; phase separation

Mesh：

Substances：

Year:  2018        PMID： 30099028      PMCID： PMC6204295          DOI： 10.1016/j.jmb.2018.08.003

Source DB:  PubMed          Journal:  J Mol Biol        ISSN： 0022-2836            Impact factor:   5.469


  140 in total

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Journal:  Genes Cells       Date:  2013-07-15       Impact factor: 1.891

2.  Structural and functional roles of Daxx SIM phosphorylation in SUMO paralog-selective binding and apoptosis modulation.

Authors:  Che-Chang Chang; Mandar T Naik; Yen-Sung Huang; Jen-Chong Jeng; Pei-Hsin Liao; Hong-Yi Kuo; Chun-Chen Ho; Yung-Lin Hsieh; Chiou-Hong Lin; Nai-Jia Huang; Nandita M Naik; Camy C-H Kung; Shu-Yu Lin; Ruey-Hwa Chen; Kun-Sang Chang; Tai-Huang Huang; Hsiu-Ming Shih
Journal:  Mol Cell       Date:  2011-04-08       Impact factor: 17.970

3.  P-Body Purification Reveals the Condensation of Repressed mRNA Regulons.

Authors:  Arnaud Hubstenberger; Maïté Courel; Marianne Bénard; Sylvie Souquere; Michèle Ernoult-Lange; Racha Chouaib; Zhou Yi; Jean-Baptiste Morlot; Annie Munier; Magali Fradet; Maëlle Daunesse; Edouard Bertrand; Gérard Pierron; Julien Mozziconacci; Michel Kress; Dominique Weil
Journal:  Mol Cell       Date:  2017-09-28       Impact factor: 17.970

4.  Numerous interactions act redundantly to assemble a tunable size of P bodies in Saccharomyces cerevisiae.

Authors:  Bhalchandra S Rao; Roy Parker
Journal:  Proc Natl Acad Sci U S A       Date:  2017-10-23       Impact factor: 11.205

5.  Physical and functional interactions of the Arf tumor suppressor protein with nucleophosmin/B23.

Authors:  David Bertwistle; Masataka Sugimoto; Charles J Sherr
Journal:  Mol Cell Biol       Date:  2004-02       Impact factor: 4.272

6.  G3BP-Caprin1-USP10 complexes mediate stress granule condensation and associate with 40S subunits.

Authors:  Nancy Kedersha; Marc D Panas; Christopher A Achorn; Shawn Lyons; Sarah Tisdale; Tyler Hickman; Marshall Thomas; Judy Lieberman; Gerald M McInerney; Pavel Ivanov; Paul Anderson
Journal:  J Cell Biol       Date:  2016-03-28       Impact factor: 10.539

7.  Intrinsically disordered sequences enable modulation of protein phase separation through distributed tyrosine motifs.

Authors:  Yuan Lin; Simon L Currie; Michael K Rosen
Journal:  J Biol Chem       Date:  2017-09-18       Impact factor: 5.157

8.  A synergistic network of interactions promotes the formation of in vitro processing bodies and protects mRNA against decapping.

Authors:  Stefan Schütz; Erik R Nöldeke; Remco Sprangers
Journal:  Nucleic Acids Res       Date:  2017-06-20       Impact factor: 16.971

9.  ALS/FTD Mutation-Induced Phase Transition of FUS Liquid Droplets and Reversible Hydrogels into Irreversible Hydrogels Impairs RNP Granule Function.

Authors:  Tetsuro Murakami; Seema Qamar; Julie Qiaojin Lin; Gabriele S Kaminski Schierle; Eric Rees; Akinori Miyashita; Ana R Costa; Roger B Dodd; Fiona T S Chan; Claire H Michel; Deborah Kronenberg-Versteeg; Yi Li; Seung-Pil Yang; Yosuke Wakutani; William Meadows; Rodylyn Rose Ferry; Liang Dong; Gian Gaetano Tartaglia; Giorgio Favrin; Wen-Lang Lin; Dennis W Dickson; Mei Zhen; David Ron; Gerold Schmitt-Ulms; Paul E Fraser; Neil A Shneider; Christine Holt; Michele Vendruscolo; Clemens F Kaminski; Peter St George-Hyslop
Journal:  Neuron       Date:  2015-10-29       Impact factor: 17.173

10.  NEDDylation promotes stress granule assembly.

Authors:  Aravinth Kumar Jayabalan; Anthony Sanchez; Ra Young Park; Sang Pil Yoon; Gum-Yong Kang; Je-Hyun Baek; Paul Anderson; Younghoon Kee; Takbum Ohn
Journal:  Nat Commun       Date:  2016-07-06       Impact factor: 14.919
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  89 in total

1.  Organizing the oocyte: RNA localization meets phase separation.

Authors:  Sarah E Cabral; Kimberly L Mowry
Journal:  Curr Top Dev Biol       Date:  2020-03-09       Impact factor: 4.897

2.  A quantitative inventory of yeast P body proteins reveals principles of composition and specificity.

Authors:  Wenmin Xing; Denise Muhlrad; Roy Parker; Michael K Rosen
Journal:  Elife       Date:  2020-06-19       Impact factor: 8.140

3.  Phase Separation in Biology and Disease.

Authors:  Julie D Forman-Kay; Richard W Kriwacki; Geraldine Seydoux
Journal:  J Mol Biol       Date:  2018-09-11       Impact factor: 5.469

4.  PML is recruited to heterochromatin during S phase and represses DAXX-mediated histone H3.3 chromatin assembly.

Authors:  Prashanth Krishna Shastrula; Isabel Sierra; Zhong Deng; Frederick Keeney; James E Hayden; Paul M Lieberman; Susan M Janicki
Journal:  J Cell Sci       Date:  2019-03-26       Impact factor: 5.285

5.  Enzymatic degradation of liquid droplets of DNA is modulated near the phase boundary.

Authors:  Omar A Saleh; Byoung-Jin Jeon; Tim Liedl
Journal:  Proc Natl Acad Sci U S A       Date:  2020-06-29       Impact factor: 11.205

Review 6.  Liquid-Liquid Phase Separation and Its Mechanistic Role in Pathological Protein Aggregation.

Authors:  W Michael Babinchak; Witold K Surewicz
Journal:  J Mol Biol       Date:  2020-03-10       Impact factor: 5.469

Review 7.  Effect of additives on liquid droplets and aggregates of proteins.

Authors:  Kentaro Shiraki; Masahiro Mimura; Suguru Nishinami; Tomoto Ura
Journal:  Biophys Rev       Date:  2020-03-12

8.  Hypothesis: nucleoid-associated proteins segregate with a parental DNA strand to generate coherent phenotypic diversity.

Authors:  Yoan Konto-Ghiorghi; Vic Norris
Journal:  Theory Biosci       Date:  2020-10-23       Impact factor: 1.919

9.  Mechanisms of noncanonical binding dynamics in multivalent protein-protein interactions.

Authors:  Wesley J Errington; Bence Bruncsics; Casim A Sarkar
Journal:  Proc Natl Acad Sci U S A       Date:  2019-11-27       Impact factor: 11.205

Review 10.  Phase-separated bacterial ribonucleoprotein bodies organize mRNA decay.

Authors:  Nisansala S Muthunayake; Dylan T Tomares; W Seth Childers; Jared M Schrader
Journal:  Wiley Interdiscip Rev RNA       Date:  2020-05-23       Impact factor: 9.957
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