Literature DB >> 33387533

Biochemical Timekeeping Via Reentrant Phase Transitions.

Bede Portz1, James Shorter2.   

Abstract

Appreciation for the role of liquid-liquid phase separation in the functional organization of cellular matter has exploded in recent years. More recently there has been a growing effort to understand the principles of heterotypic phase separation, the demixing of multiple proteins and nucleic acids into a single functional condensate. A phase transition is termed reentrant if it involves the transformation of a system from one state into a macroscopically similar or identical state via at least two phase transitions elicited by variation of a single parameter. Reentrant liquid-liquid phase separation can occur when the condensation of one species is tuned by another. Reentrant phase transitions have been modeled in vitro using protein and RNA mixtures. These biochemical studies reveal two features of reentrant phase separation that are likely important to functional cellular condensates: (1) the ability to generate condensates with layered functional topologies, and (2) the ability to generate condensates whose composition and duration are self-limiting to enable a form of biochemical timekeeping. We relate these biochemical studies to potential cellular examples and discuss how layered topologies and self-regulation may impact key biological processes.
Copyright © 2020 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  RNA; condensates; disordered proteins; phase separation; reentrant phase transitions; transcription

Mesh:

Substances:

Year:  2020        PMID: 33387533      PMCID: PMC8154630          DOI: 10.1016/j.jmb.2020.166794

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   6.151


  83 in total

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Journal:  Science       Date:  2020-06-19       Impact factor: 47.728

2.  A Liquid-to-Solid Phase Transition of the ALS Protein FUS Accelerated by Disease Mutation.

Authors:  Avinash Patel; Hyun O Lee; Louise Jawerth; Shovamayee Maharana; Marcus Jahnel; Marco Y Hein; Stoyno Stoynov; Julia Mahamid; Shambaditya Saha; Titus M Franzmann; Andrej Pozniakovski; Ina Poser; Nicola Maghelli; Loic A Royer; Martin Weigert; Eugene W Myers; Stephan Grill; David Drechsel; Anthony A Hyman; Simon Alberti
Journal:  Cell       Date:  2015-08-27       Impact factor: 41.582

Review 3.  The tip of the iceberg: RNA-binding proteins with prion-like domains in neurodegenerative disease.

Authors:  Oliver D King; Aaron D Gitler; James Shorter
Journal:  Brain Res       Date:  2012-01-21       Impact factor: 3.252

4.  The C-Terminal Domain of RNA Polymerase II Is a Multivalent Targeting Sequence that Supports Drosophila Development with Only Consensus Heptads.

Authors:  Feiyue Lu; Bede Portz; David S Gilmour
Journal:  Mol Cell       Date:  2019-02-11       Impact factor: 17.970

5.  Transcription Factors Activate Genes through the Phase-Separation Capacity of Their Activation Domains.

Authors:  Ann Boija; Isaac A Klein; Benjamin R Sabari; Alessandra Dall'Agnese; Eliot L Coffey; Alicia V Zamudio; Charles H Li; Krishna Shrinivas; John C Manteiga; Nancy M Hannett; Brian J Abraham; Lena K Afeyan; Yang E Guo; Jenna K Rimel; Charli B Fant; Jurian Schuijers; Tong Ihn Lee; Dylan J Taatjes; Richard A Young
Journal:  Cell       Date:  2018-11-15       Impact factor: 41.582

6.  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

7.  Phosphorylation-regulated binding of RNA polymerase II to fibrous polymers of low-complexity domains.

Authors:  Ilmin Kwon; Masato Kato; Siheng Xiang; Leeju Wu; Pano Theodoropoulos; Hamid Mirzaei; Tina Han; Shanhai Xie; Jeffry L Corden; Steven L McKnight
Journal:  Cell       Date:  2013-11-21       Impact factor: 41.582

8.  Poly(ADP-ribose) Engages the TDP-43 Nuclear-Localization Sequence to Regulate Granulo-Filamentous Aggregation.

Authors:  Leeanne McGurk; Edward Gomes; Lin Guo; James Shorter; Nancy M Bonini
Journal:  Biochemistry       Date:  2018-12-17       Impact factor: 3.162

9.  Transcription-Dependent Formation of Nuclear Granules Containing FUS and RNA Pol II.

Authors:  Valery F Thompson; Rachel A Victor; Andres A Morera; Mahta Moinpour; Meilani N Liu; Conner C Kisiel; Kaitlyn Pickrel; Charis E Springhower; Jacob C Schwartz
Journal:  Biochemistry       Date:  2018-12-11       Impact factor: 3.321

10.  Phase separation of YAP reorganizes genome topology for long-term YAP target gene expression.

Authors:  Danfeng Cai; Daniel Feliciano; Peng Dong; Eduardo Flores; Martin Gruebele; Natalie Porat-Shliom; Shahar Sukenik; Zhe Liu; Jennifer Lippincott-Schwartz
Journal:  Nat Cell Biol       Date:  2019-12-02       Impact factor: 28.824

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  4 in total

Review 1.  Conformational Freedom and Topological Confinement of Proteins in Biomolecular Condensates.

Authors:  Daniel Scholl; Ashok A Deniz
Journal:  J Mol Biol       Date:  2021-11-09       Impact factor: 5.469

Review 2.  Merging Established Mechanisms with New Insights: Condensates, Hubs, and the Regulation of RNA Polymerase II Transcription.

Authors:  Megan Palacio; Dylan J Taatjes
Journal:  J Mol Biol       Date:  2021-08-30       Impact factor: 5.469

Review 3.  Melatonin: Regulation of Prion Protein Phase Separation in Cancer Multidrug Resistance.

Authors:  Doris Loh; Russel J Reiter
Journal:  Molecules       Date:  2022-01-21       Impact factor: 4.411

Review 4.  Higher-order organization of biomolecular condensates.

Authors:  Charlotte M Fare; Alexis Villani; Lauren E Drake; James Shorter
Journal:  Open Biol       Date:  2021-06-16       Impact factor: 6.411

  4 in total

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