Literature DB >> 26967018

A game of tag: MAPS catches up on RNA interactomes.

Marie-Claude Carrier1, David Lalaouna1, Eric Massé1.   

Abstract

In the last few decades, small regulatory RNA (sRNA) molecules emerged as key regulators in every kingdom of life. Resolving the full targetome of sRNAs has however remained a challenge. To address this, we used an in vivo tagging MS2-affinity purification protocol coupled with RNA sequencing technology, namely MAPS, to assemble full bacterial small RNAs targetomes. The impressive potential of MAPS has been supported by a number of reports. Here, we concisely overview RNA-tagging history that preceded the development of the MAPS assay and expose the range of possible uses of this technology.

Entities:  

Keywords:  Affinity purification; MS2; RNA purification; RNA sponge; RNA tag; RybB; RyhB; antisense; sRNA; tRNA

Mesh:

Substances:

Year:  2016        PMID: 26967018      PMCID: PMC4962807          DOI: 10.1080/15476286.2016.1156830

Source DB:  PubMed          Journal:  RNA Biol        ISSN: 1547-6286            Impact factor:   4.652


  35 in total

1.  Streptavidin aptamers: affinity tags for the study of RNAs and ribonucleoproteins.

Authors:  C Srisawat; D R Engelke
Journal:  RNA       Date:  2001-04       Impact factor: 4.942

Review 2.  Bacterial small RNA regulators: versatile roles and rapidly evolving variations.

Authors:  Susan Gottesman; Gisela Storz
Journal:  Cold Spring Harb Perspect Biol       Date:  2011-12-01       Impact factor: 10.005

3.  Comparative genomics boosts target prediction for bacterial small RNAs.

Authors:  Patrick R Wright; Andreas S Richter; Kai Papenfort; Martin Mann; Jörg Vogel; Wolfgang R Hess; Rolf Backofen; Jens Georg
Journal:  Proc Natl Acad Sci U S A       Date:  2013-08-26       Impact factor: 11.205

4.  DsrA RNA regulates translation of RpoS message by an anti-antisense mechanism, independent of its action as an antisilencer of transcription.

Authors:  N Majdalani; C Cunning; D Sledjeski; T Elliott; S Gottesman
Journal:  Proc Natl Acad Sci U S A       Date:  1998-10-13       Impact factor: 11.205

Review 5.  Target activation by regulatory RNAs in bacteria.

Authors:  Kai Papenfort; Carin K Vanderpool
Journal:  FEMS Microbiol Rev       Date:  2015-04-30       Impact factor: 16.408

Review 6.  Regulatory RNAs and target mRNA decay in prokaryotes.

Authors:  David Lalaouna; Maxime Simoneau-Roy; Daniel Lafontaine; Eric Massé
Journal:  Biochim Biophys Acta       Date:  2013-03-14

7.  Imaging real-time gene expression in living yeast.

Authors:  Daniel Zenklusen; Amber L Wells; John S Condeelis; Robert H Singer
Journal:  CSH Protoc       Date:  2007-11-01

8.  A small RNA acts as an antisilencer of the H-NS-silenced rcsA gene of Escherichia coli.

Authors:  D Sledjeski; S Gottesman
Journal:  Proc Natl Acad Sci U S A       Date:  1995-03-14       Impact factor: 11.205

9.  An optimized streptavidin-binding RNA aptamer for purification of ribonucleoprotein complexes identifies novel ARE-binding proteins.

Authors:  Kathrin Leppek; Georg Stoecklin
Journal:  Nucleic Acids Res       Date:  2013-10-23       Impact factor: 16.971

Review 10.  tRNAs as regulators of biological processes.

Authors:  Medha Raina; Michael Ibba
Journal:  Front Genet       Date:  2014-06-11       Impact factor: 4.599

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  6 in total

1.  The RNA targetome of Staphylococcus aureus non-coding RNA RsaA: impact on cell surface properties and defense mechanisms.

Authors:  Arnaud Tomasini; Karen Moreau; Johana Chicher; Thomas Geissmann; François Vandenesch; Pascale Romby; Stefano Marzi; Isabelle Caldelari
Journal:  Nucleic Acids Res       Date:  2017-06-20       Impact factor: 16.971

Review 2.  Small RNAs of Borrelia burgdorferi: Characterizing Functional Regulators in a Sea of sRNAs
.

Authors:  Meghan C Lybecker; D Scott Samuels
Journal:  Yale J Biol Med       Date:  2017-06-23

3.  A pathogen-specific sRNA influences enterohemorrhagic Escherichia coli fitness and virulence in part by direct interaction with the transcript encoding the ethanolamine utilization regulatory factor EutR.

Authors:  Amber B Sauder; Melissa M Kendall
Journal:  Nucleic Acids Res       Date:  2021-11-08       Impact factor: 16.971

4.  Pervasive RNA Regulation of Metabolism Enhances the Root Colonization Ability of Nitrogen-Fixing Symbiotic α-Rhizobia.

Authors:  Natalia I García-Tomsig; Marta Robledo; George C diCenzo; Alessio Mengoni; Vicenta Millán; Alexandra Peregrina; Alejandro Uceta; José I Jiménez-Zurdo
Journal:  mBio       Date:  2022-02-15       Impact factor: 7.867

5.  Identification of an RNA sponge that controls the RoxS riboregulator of central metabolism in Bacillus subtilis.

Authors:  Sylvain Durand; Adam Callan-Sidat; Josie McKeown; Stephen Li; Gergana Kostova; Juan R Hernandez-Fernaud; Mohammad Tauqeer Alam; Andrew Millard; Delphine Allouche; Chrystala Constantinidou; Ciarán Condon; Emma L Denham
Journal:  Nucleic Acids Res       Date:  2021-06-21       Impact factor: 16.971

6.  Uncovering Transcriptional Regulators and Targets of sRNAs Using an Integrative Data-Mining Approach: H-NS-Regulated RseX as a Case Study.

Authors:  Mia K Mihailovic; Alyssa M Ekdahl; Angela Chen; Abigail N Leistra; Bridget Li; Javier González Martínez; Matthew Law; Cindy Ejindu; Éric Massé; Peter L Freddolino; Lydia M Contreras
Journal:  Front Cell Infect Microbiol       Date:  2021-07-13       Impact factor: 6.073

  6 in total

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