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Advantages and Limitations of UV Cross-linking Analysis of Protein-RNA Interactomes in Microbes
  • Sofia Esteban-Serna,
  • Hugh McCaughan,
  • Sander Granneman
Sofia Esteban-Serna
The University of Edinburgh School of Biological Sciences
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Hugh McCaughan
The University of Edinburgh School of Biological Sciences
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Sander Granneman
The University of Edinburgh School of Biological Sciences

Corresponding Author:sander.granneman@ed.ac.uk

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Abstract

RNA-binding proteins (RBPs) govern the lifespan of nearly all transcripts and play key roles in adaptive responses in microbes. A robust approach to examine protein-RNA interactions involves irradiating cells with UV light to form covalent adducts between RBPs and their cognate RNAs. Combined with RNA or protein purification, these procedures can provide global RBP censuses or transcriptomic maps for all target sequences of a single protein in living cells. Recent development of novel methods has quickly populated the RBP landscape in microorganisms. Here, we provide an overview of prominent UV cross-linking techniques which have been applied to investigate RNA interactomes in microbes. By assessing their advantages and caveats, this technical evaluation intends to guide the selection of appropriate methods and experimental design as well as to encourage the use of complementary UV-dependent techniques to inspect RNA-binding activity.
30 Jan 2023Submitted to Molecular Microbiology
31 Jan 2023Submission Checks Completed
31 Jan 2023Assigned to Editor
01 Feb 2023Reviewer(s) Assigned
25 Feb 2023Review(s) Completed, Editorial Evaluation Pending
26 Feb 2023Editorial Decision: Revise Minor
25 Apr 20231st Revision Received
29 Apr 2023Submission Checks Completed
29 Apr 2023Assigned to Editor
30 Apr 2023Review(s) Completed, Editorial Evaluation Pending
30 Apr 2023Editorial Decision: Accept