Literature DB >> 32131038

Organic phase separation opens up new opportunities to interrogate the RNA-binding proteome.

Tom Smith1, Eneko Villanueva2, Rayner M L Queiroz2, Charlotte S Dawson2, Mohamed Elzek2, Erika C Urdaneta3, Anne E Willis4, Benedikt M Beckmann3, Jeroen Krijgsveld5, Kathryn S Lilley1.   

Abstract

Protein-RNA interactions regulate all aspects of RNA metabolism and are crucial to the function of catalytic ribonucleoproteins. Until recently, the available technologies to capture RNA-bound proteins have been biased toward poly(A) RNA-binding proteins (RBPs) or involve molecular labeling, limiting their application. With the advent of organic-aqueous phase separation-based methods, we now have technologies that efficiently enrich the complete suite of RBPs and enable quantification of RBP dynamics. These flexible approaches to study RBPs and their bound RNA open up new research avenues for systems-level interrogation of protein-RNA interactions.
Copyright © 2020 The Authors. Published by Elsevier Ltd.. All rights reserved.

Entities:  

Keywords:  Mass spectrometry; Organic phase separation; RNA-binding proteins; RNA-sequencing; Transcriptome

Mesh:

Substances:

Year:  2020        PMID: 32131038     DOI: 10.1016/j.cbpa.2020.01.009

Source DB:  PubMed          Journal:  Curr Opin Chem Biol        ISSN: 1367-5931            Impact factor:   8.972


  7 in total

Review 1.  Ribonomics Approaches to Identify RBPome in Plants and Other Eukaryotes: Current Progress and Future Prospects.

Authors:  Muhammad Haroon; Rabail Afzal; Muhammad Mubashar Zafar; Hongwei Zhang; Lin Li
Journal:  Int J Mol Sci       Date:  2022-05-25       Impact factor: 6.208

2.  Opportunities and Challenges in Global Quantification of RNA-Protein Interaction via UV Cross-Linking.

Authors:  Carlos H Vieira-Vieira; Matthias Selbach
Journal:  Front Mol Biosci       Date:  2021-05-13

Review 3.  The search for RNA-binding proteins: a technical and interdisciplinary challenge.

Authors:  Jeffrey M Smith; Jarrod J Sandow; Andrew I Webb
Journal:  Biochem Soc Trans       Date:  2021-02-26       Impact factor: 5.407

4.  Efficient recovery of the RNA-bound proteome and protein-bound transcriptome using phase separation (OOPS).

Authors:  Eneko Villanueva; Tom Smith; Rayner M L Queiroz; Mie Monti; Mariavittoria Pizzinga; Mohamed Elzek; Veronica Dezi; Robert F Harvey; Manasa Ramakrishna; Anne E Willis; Kathryn S Lilley
Journal:  Nat Protoc       Date:  2020-07-10       Impact factor: 17.021

5.  Transcriptome-Wide Identification of Coding and Noncoding RNA-Binding Proteins Defines the Comprehensive RNA Interactome of Leishmania mexicana.

Authors:  Karunakaran Kalesh; Wenbin Wei; Brian S Mantilla; Theodoros I Roumeliotis; Jyoti Choudhary; Paul W Denny
Journal:  Microbiol Spectr       Date:  2022-02-09

6.  An RNA tagging approach for system-wide RNA-binding proteome profiling and dynamics investigation upon transcription inhibition.

Authors:  Zheng Zhang; Tong Liu; Hangyan Dong; Jian Li; Haofan Sun; Xiaohong Qian; Weijie Qin
Journal:  Nucleic Acids Res       Date:  2021-06-21       Impact factor: 16.971

Review 7.  [Advances in technologies for large-scale enrichment and identification of ribonucleic acid-protein complexes].

Authors:  Zhiya Fan; Weijie Qin
Journal:  Se Pu       Date:  2021-02
  7 in total

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