Literature DB >> 34636323

Quantitative theory for the diffusive dynamics of liquid condensates.

Lars Hubatsch1,2,3, Louise M Jawerth1,2, Celina Love2, Jonathan Bauermann1, Ty Dora Tang2, Stefano Bo1, Anthony A Hyman2,3, Christoph A Weber1,2,3.   

Abstract

Key processes of biological condensates are diffusion and material exchange with their environment. Experimentally, diffusive dynamics are typically probed via fluorescent labels. However, to date, a physics-based, quantitative framework for the dynamics of labeled condensate components is lacking. Here, we derive the corresponding dynamic equations, building on the physics of phase separation, and quantitatively validate the related framework via experiments. We show that by using our framework, we can precisely determine diffusion coefficients inside liquid condensates via a spatio-temporal analysis of fluorescence recovery after photobleaching (FRAP) experiments. We showcase the accuracy and precision of our approach by considering space- and time-resolved data of protein condensates and two different polyelectrolyte-coacervate systems. Interestingly, our theory can also be used to determine a relationship between the diffusion coefficient in the dilute phase and the partition coefficient, without relying on fluorescence measurements in the dilute phase. This enables us to investigate the effect of salt addition on partitioning and bypasses recently described quenching artifacts in the dense phase. Our approach opens new avenues for theoretically describing molecule dynamics in condensates, measuring concentrations based on the dynamics of fluorescence intensities, and quantifying rates of biochemical reactions in liquid condensates.
© 2021, Hubatsch et al.

Entities:  

Keywords:  FRAP; cell biology; none; phase separation; physics of living systems; quantitative modelling

Mesh:

Substances:

Year:  2021        PMID: 34636323      PMCID: PMC8580480          DOI: 10.7554/eLife.68620

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


  42 in total

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Authors:  Jonas Ries; Petra Schwille
Journal:  Bioessays       Date:  2012-03-13       Impact factor: 4.345

2.  Germline P granules are liquid droplets that localize by controlled dissolution/condensation.

Authors:  Clifford P Brangwynne; Christian R Eckmann; David S Courson; Agata Rybarska; Carsten Hoege; Jöbin Gharakhani; Frank Jülicher; Anthony A Hyman
Journal:  Science       Date:  2009-05-21       Impact factor: 47.728

3.  Protein diffusion across the interface in aqueous two-phase systems.

Authors:  Götz Münchow; Friedhelm Schönfeld; Steffen Hardt; Karlheinz Graf
Journal:  Langmuir       Date:  2008-07-17       Impact factor: 3.882

4.  Electrophoretic transport of biomolecules across liquid-liquid interfaces.

Authors:  Thomas Hahn; Götz Münchow; Steffen Hardt
Journal:  J Phys Condens Matter       Date:  2011-04-20       Impact factor: 2.333

Review 5.  Cytoplasmic localization and asymmetric division in the early embryo of Caenorhabditis elegans.

Authors:  Erik E Griffin
Journal:  Wiley Interdiscip Rev Dev Biol       Date:  2015-03-11       Impact factor: 5.814

6.  Protein condensates as aging Maxwell fluids.

Authors:  Louise Jawerth; Elisabeth Fischer-Friedrich; Suropriya Saha; Jie Wang; Titus Franzmann; Xiaojie Zhang; Jenny Sachweh; Martine Ruer; Mahdiye Ijavi; Shambaditya Saha; Julia Mahamid; Anthony A Hyman; Frank Jülicher
Journal:  Science       Date:  2020-12-11       Impact factor: 47.728

7.  Kinetics of Poly-l-lysine Adsorption on Mica and Stability of Formed Monolayers: Theoretical and Experimental Studies.

Authors:  Maria Morga; Zbigniew Adamczyk; Dominik Kosior; Marta Kujda-Kruk
Journal:  Langmuir       Date:  2019-09-09       Impact factor: 3.882

8.  RNA-Induced Conformational Switching and Clustering of G3BP Drive Stress Granule Assembly by Condensation.

Authors:  Jordina Guillén-Boixet; Andrii Kopach; Alex S Holehouse; Sina Wittmann; Marcus Jahnel; Raimund Schlüßler; Kyoohyun Kim; Irmela R E A Trussina; Jie Wang; Daniel Mateju; Ina Poser; Shovamayee Maharana; Martine Ruer-Gruß; Doris Richter; Xiaojie Zhang; Young-Tae Chang; Jochen Guck; Alf Honigmann; Julia Mahamid; Anthony A Hyman; Rohit V Pappu; Simon Alberti; Titus M Franzmann
Journal:  Cell       Date:  2020-04-16       Impact factor: 41.582

9.  Single-molecule analysis of cell surface dynamics in Caenorhabditis elegans embryos.

Authors:  François B Robin; William M McFadden; Baixue Yao; Edwin M Munro
Journal:  Nat Methods       Date:  2014-04-13       Impact factor: 28.547

10.  Tunable multiphase dynamics of arginine and lysine liquid condensates.

Authors:  Rachel S Fisher; Shana Elbaum-Garfinkle
Journal:  Nat Commun       Date:  2020-09-15       Impact factor: 14.919

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  3 in total

1.  Characterizing Properties of Biomolecular Condensates Below the Diffraction Limit In Vivo.

Authors:  Ganesh Pandey; Alisha Budhathoki; Jan-Hendrik Spille
Journal:  Methods Mol Biol       Date:  2023

2.  Determining Thermodynamic and Material Properties of Biomolecular Condensates by Confocal Microscopy and Optical Tweezers.

Authors:  Archishman Ghosh; Divya Kota; Huan-Xiang Zhou
Journal:  Methods Mol Biol       Date:  2023

3.  Protein diffusion in Escherichia coli cytoplasm scales with the mass of the complexes and is location dependent.

Authors:  Wojciech M Śmigiel; Luca Mantovanelli; Dmitrii S Linnik; Michiel Punter; Jakob Silberberg; Limin Xiang; Ke Xu; Bert Poolman
Journal:  Sci Adv       Date:  2022-08-12       Impact factor: 14.957

  3 in total

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