Literature DB >> 32553117

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

Wenmin Xing1, Denise Muhlrad2, Roy Parker2, Michael K Rosen1.   

Abstract

P bodies are archetypal biomolecular condensates that concentrate proteins and RNA without a surrounding membrane. While dozens of P body proteins are known, the concentrations of components in the compartment have not been measured. We used live cell imaging to generate a quantitative inventory of the major proteins in yeast P bodies. Only seven proteins are highly concentrated in P bodies (5.1-15µM); the 24 others examined are appreciably lower (most ≤ 2.6µM). P body concentration correlates inversely with cytoplasmic exchange rate. Sequence elements driving Dcp2 concentration into P bodies are distributed across the protein and act synergistically. Our data indicate that P bodies, and probably other condensates, are compositionally simpler than suggested by proteomic analyses, with implications for specificity, reconstitution and evolution.
© 2020, Xing et al.

Entities:  

Keywords:  P body; S. cerevisiae; biomolecular condensate; cell biology; composition; quantitative microscopy

Mesh:

Substances:

Year:  2020        PMID: 32553117      PMCID: PMC7373430          DOI: 10.7554/eLife.56525

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


  76 in total

1.  Phase separation drives heterochromatin domain formation.

Authors:  Amy R Strom; Alexander V Emelyanov; Mustafa Mir; Dmitry V Fyodorov; Xavier Darzacq; Gary H Karpen
Journal:  Nature       Date:  2017-06-21       Impact factor: 49.962

2.  Architecture of the Lsm1-7-Pat1 complex: a conserved assembly in eukaryotic mRNA turnover.

Authors:  Humayun Sharif; Elena Conti
Journal:  Cell Rep       Date:  2013-10-17       Impact factor: 9.423

3.  Structure of the active form of Dcp1-Dcp2 decapping enzyme bound to m7GDP and its Edc3 activator.

Authors:  Clément Charenton; Valerio Taverniti; Claudine Gaudon-Plesse; Régis Back; Bertrand Séraphin; Marc Graille
Journal:  Nat Struct Mol Biol       Date:  2016-10-03       Impact factor: 15.369

4.  Quantifying mRNA targeting to P-bodies in living human cells reveals their dual role in mRNA decay and storage.

Authors:  Adva Aizer; Alon Kalo; Pinhas Kafri; Amit Shraga; Rakefet Ben-Yishay; Avi Jacob; Noa Kinor; Yaron Shav-Tal
Journal:  J Cell Sci       Date:  2014-08-15       Impact factor: 5.285

5.  The Centrosome Is a Selective Condensate that Nucleates Microtubules by Concentrating Tubulin.

Authors:  Jeffrey B Woodruff; Beatriz Ferreira Gomes; Per O Widlund; Julia Mahamid; Alf Honigmann; Anthony A Hyman
Journal:  Cell       Date:  2017-06-01       Impact factor: 41.582

6.  High-Density Proximity Mapping Reveals the Subcellular Organization of mRNA-Associated Granules and Bodies.

Authors:  Ji-Young Youn; Wade H Dunham; Seo Jung Hong; James D R Knight; Mikhail Bashkurov; Ginny I Chen; Halil Bagci; Bhavisha Rathod; Graham MacLeod; Simon W M Eng; Stéphane Angers; Quaid Morris; Marc Fabian; Jean-François Côté; Anne-Claude Gingras
Journal:  Mol Cell       Date:  2018-01-25       Impact factor: 17.970

7.  Identification and analysis of the interaction between Edc3 and Dcp2 in Saccharomyces cerevisiae.

Authors:  Yuriko Harigaya; Brittnee N Jones; Denise Muhlrad; John D Gross; Roy Parker
Journal:  Mol Cell Biol       Date:  2010-01-19       Impact factor: 4.272

8.  The human LSm1-7 proteins colocalize with the mRNA-degrading enzymes Dcp1/2 and Xrnl in distinct cytoplasmic foci.

Authors:  Dierk Ingelfinger; Donna J Arndt-Jovin; Reinhard Lührmann; Tilmann Achsel
Journal:  RNA       Date:  2002-12       Impact factor: 4.942

9.  The Stress Granule Transcriptome Reveals Principles of mRNA Accumulation in Stress Granules.

Authors:  Anthony Khong; Tyler Matheny; Saumya Jain; Sarah F Mitchell; Joshua R Wheeler; Roy Parker
Journal:  Mol Cell       Date:  2017-11-09       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

View more
  25 in total

1.  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

2.  A distinct P-body-like granule is induced in response to the disruption of microtubule integrity in Saccharomyces cerevisiae.

Authors:  Zachary Hurst; Wenfang Liu; Qian Shi; Paul K Herman
Journal:  Genetics       Date:  2022-08-30       Impact factor: 4.402

3.  Dynamic metastable long-living droplets formed by sticker-spacer proteins.

Authors:  Srivastav Ranganathan; Eugene I Shakhnovich
Journal:  Elife       Date:  2020-06-02       Impact factor: 8.140

Review 4.  A framework for understanding the functions of biomolecular condensates across scales.

Authors:  Andrew S Lyon; William B Peeples; Michael K Rosen
Journal:  Nat Rev Mol Cell Biol       Date:  2020-11-09       Impact factor: 94.444

5.  Synergistic phase separation of two pathways promotes integrin clustering and nascent adhesion formation.

Authors:  Lindsay B Case; Milagros De Pasquale; Lisa Henry; Michael K Rosen
Journal:  Elife       Date:  2022-01-20       Impact factor: 8.140

6.  The role of stress-activated RNA-protein granules in surviving adversity.

Authors:  Leah E Escalante; Audrey P Gasch
Journal:  RNA       Date:  2021-04-30       Impact factor: 4.942

7.  Effect of RNA on Morphology and Dynamics of Membraneless Organelles.

Authors:  Srivastav Ranganathan; Eugene Shakhnovich
Journal:  J Phys Chem B       Date:  2021-05-10       Impact factor: 3.466

Review 8.  Roles of liquid-liquid phase separation in bacterial RNA metabolism.

Authors:  Vidhyadhar Nandana; Jared M Schrader
Journal:  Curr Opin Microbiol       Date:  2021-04-18       Impact factor: 7.584

9.  Structure-Function Properties in Disordered Condensates.

Authors:  Kamal Bhandari; Michael A Cotten; Jonggul Kim; Michael K Rosen; Jeremy D Schmit
Journal:  J Phys Chem B       Date:  2021-01-04       Impact factor: 2.991

Review 10.  Polyphasic linkage and the impact of ligand binding on the regulation of biomolecular condensates.

Authors:  Kiersten M Ruff; Furqan Dar; Rohit V Pappu
Journal:  Biophys Rev       Date:  2021-06-15
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.