Literature DB >> 33496264

Charge-driven condensation of RNA and proteins suggests broad role of phase separation in cytoplasmic environments.

Bercem Dutagaci1, Grzegorz Nawrocki1, Joyce Goodluck2, Ali Akbar Ashkarran3, Charles G Hoogstraten1, Lisa J Lapidus2, Michael Feig1.   

Abstract

Phase separation processes are increasingly being recognized as important organizing mechanisms of biological macromolecules in cellular environments. Well-established drivers of phase separation are multi-valency and intrinsic disorder. Here, we show that globular macromolecules may condense simply based on electrostatic complementarity. More specifically, phase separation of mixtures between RNA and positively charged proteins is described from a combination of multiscale computer simulations with microscopy and spectroscopy experiments. Phase diagrams were mapped out as a function of molecular concentrations in experiment and as a function of molecular size and temperature via simulations. The resulting condensates were found to retain at least some degree of internal dynamics varying as a function of the molecular composition. The results suggest a more general principle for phase separation that is based primarily on electrostatic complementarity without invoking polymer properties as in most previous studies. Simulation results furthermore suggest that such phase separation may occur widely in heterogenous cellular environment between nucleic acid and protein components.
© 2021, Dutagaci et al.

Entities:  

Keywords:  FRET spectroscopy; NMR spectroscopy; coarse-grained modeling; confocal microscopy; electrostatics; liquid-liquid phase separation; none; physics of living systems

Mesh:

Substances:

Year:  2021        PMID: 33496264      PMCID: PMC7877912          DOI: 10.7554/eLife.64004

Source DB:  PubMed          Journal:  Elife        ISSN: 2050-084X            Impact factor:   8.140


  110 in total

1.  The disordered P granule protein LAF-1 drives phase separation into droplets with tunable viscosity and dynamics.

Authors:  Shana Elbaum-Garfinkle; Younghoon Kim; Krzysztof Szczepaniak; Carlos Chih-Hsiung Chen; Christian R Eckmann; Sua Myong; Clifford P Brangwynne
Journal:  Proc Natl Acad Sci U S A       Date:  2015-05-26       Impact factor: 11.205

2.  Quantitative analysis of multilayer organization of proteins and RNA in nuclear speckles at super resolution.

Authors:  Jingyi Fei; Mahdieh Jadaliha; Tyler S Harmon; Isaac T S Li; Boyang Hua; Qinyu Hao; Alex S Holehouse; Matthew Reyer; Qinyu Sun; Susan M Freier; Rohit V Pappu; Kannanganattu V Prasanth; Taekjip Ha
Journal:  J Cell Sci       Date:  2017-11-13       Impact factor: 5.285

3.  Diffusion, crowding & protein stability in a dynamic molecular model of the bacterial cytoplasm.

Authors:  Sean R McGuffee; Adrian H Elcock
Journal:  PLoS Comput Biol       Date:  2010-03-05       Impact factor: 4.475

4.  Nucleophosmin integrates within the nucleolus via multi-modal interactions with proteins displaying R-rich linear motifs and rRNA.

Authors:  Diana M Mitrea; Jaclyn A Cika; Clifford S Guy; David Ban; Priya R Banerjee; Christopher B Stanley; Amanda Nourse; Ashok A Deniz; Richard W Kriwacki
Journal:  Elife       Date:  2016-02-02       Impact factor: 8.140

5.  Phase separation by low complexity domains promotes stress granule assembly and drives pathological fibrillization.

Authors:  Amandine Molliex; Jamshid Temirov; Jihun Lee; Maura Coughlin; Anderson P Kanagaraj; Hong Joo Kim; Tanja Mittag; J Paul Taylor
Journal:  Cell       Date:  2015-09-24       Impact factor: 41.582

6.  Phase transitions in the assembly of multivalent signalling proteins.

Authors:  Pilong Li; Sudeep Banjade; Hui-Chun Cheng; Soyeon Kim; Baoyu Chen; Liang Guo; Marc Llaguno; Javoris V Hollingsworth; David S King; Salman F Banani; Paul S Russo; Qiu-Xing Jiang; B Tracy Nixon; Michael K Rosen
Journal:  Nature       Date:  2012-03-07       Impact factor: 49.962

7.  RNA self-assembly contributes to stress granule formation and defining the stress granule transcriptome.

Authors:  Briana Van Treeck; David S W Protter; Tyler Matheny; Anthony Khong; Christopher D Link; Roy Parker
Journal:  Proc Natl Acad Sci U S A       Date:  2018-02-26       Impact factor: 11.205

8.  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

Review 9.  P-Bodies: Composition, Properties, and Functions.

Authors:  Yang Luo; Zhenkun Na; Sarah A Slavoff
Journal:  Biochemistry       Date:  2018-01-30       Impact factor: 3.162

10.  Multiphase Complex Coacervate Droplets.

Authors:  Tiemei Lu; Evan Spruijt
Journal:  J Am Chem Soc       Date:  2020-01-30       Impact factor: 15.419

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  3 in total

1.  Mapping the per-residue surface electrostatic potential of CAPRIN1 along its phase-separation trajectory.

Authors:  Yuki Toyama; Atul Kaushik Rangadurai; Julie D Forman-Kay; Lewis E Kay
Journal:  Proc Natl Acad Sci U S A       Date:  2022-08-30       Impact factor: 12.779

Review 2.  Compartmentalization and metabolic regulation of glycolysis.

Authors:  Gregory G Fuller; John K Kim
Journal:  J Cell Sci       Date:  2021-10-20       Impact factor: 5.235

Review 3.  The Role of Intrinsically Disordered Proteins in Liquid-Liquid Phase Separation during Calcium Carbonate Biomineralization.

Authors:  Aneta Tarczewska; Klaudia Bielak; Anna Zoglowek; Katarzyna Sołtys; Piotr Dobryszycki; Andrzej Ożyhar; Mirosława Różycka
Journal:  Biomolecules       Date:  2022-09-09
  3 in total

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