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Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in Pseudomonas putida
Post-transcriptional regulation is an important step in the control of bacterial gene expression in response to environmental and cellular signals. Pseudomonas putida KT2440 harbors three known members of the CsrA/RsmA family of post-transcriptional regulators: RsmA, RsmE and RsmI. We have carried o...
Autores principales: | , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
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Frontiers Media S.A.
2021
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7937890/ https://www.ncbi.nlm.nih.gov/pubmed/33693029 http://dx.doi.org/10.3389/fmolb.2021.624061 |
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author | Huertas-Rosales, Óscar Romero, Manuel Chan, Kok-Gan Hong, Kar-Wai Cámara, Miguel Heeb, Stephan Barrientos-Moreno, Laura Molina-Henares, María Antonia Travieso, María L. Ramos-González, María Isabel Espinosa-Urgel, Manuel |
author_facet | Huertas-Rosales, Óscar Romero, Manuel Chan, Kok-Gan Hong, Kar-Wai Cámara, Miguel Heeb, Stephan Barrientos-Moreno, Laura Molina-Henares, María Antonia Travieso, María L. Ramos-González, María Isabel Espinosa-Urgel, Manuel |
author_sort | Huertas-Rosales, Óscar |
collection | PubMed |
description | Post-transcriptional regulation is an important step in the control of bacterial gene expression in response to environmental and cellular signals. Pseudomonas putida KT2440 harbors three known members of the CsrA/RsmA family of post-transcriptional regulators: RsmA, RsmE and RsmI. We have carried out a global analysis to identify RNA sequences bound in vivo by each of these proteins. Affinity purification and sequencing of RNA molecules associated with Rsm proteins were used to discover direct binding targets, corresponding to 437 unique RNA molecules, 75 of them being common to the three proteins. Relevant targets include genes encoding proteins involved in signal transduction and regulation, metabolism, transport and secretion, stress responses, and the turnover of the intracellular second messenger c-di-GMP. To our knowledge, this is the first combined global analysis in a bacterium harboring three Rsm homologs. It offers a broad overview of the network of processes subjected to this type of regulation and opens the way to define what are the sequence and structure determinants that define common or differential recognition of specific RNA molecules by these proteins. |
format | Online Article Text |
id | pubmed-7937890 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-79378902021-03-09 Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in Pseudomonas putida Huertas-Rosales, Óscar Romero, Manuel Chan, Kok-Gan Hong, Kar-Wai Cámara, Miguel Heeb, Stephan Barrientos-Moreno, Laura Molina-Henares, María Antonia Travieso, María L. Ramos-González, María Isabel Espinosa-Urgel, Manuel Front Mol Biosci Molecular Biosciences Post-transcriptional regulation is an important step in the control of bacterial gene expression in response to environmental and cellular signals. Pseudomonas putida KT2440 harbors three known members of the CsrA/RsmA family of post-transcriptional regulators: RsmA, RsmE and RsmI. We have carried out a global analysis to identify RNA sequences bound in vivo by each of these proteins. Affinity purification and sequencing of RNA molecules associated with Rsm proteins were used to discover direct binding targets, corresponding to 437 unique RNA molecules, 75 of them being common to the three proteins. Relevant targets include genes encoding proteins involved in signal transduction and regulation, metabolism, transport and secretion, stress responses, and the turnover of the intracellular second messenger c-di-GMP. To our knowledge, this is the first combined global analysis in a bacterium harboring three Rsm homologs. It offers a broad overview of the network of processes subjected to this type of regulation and opens the way to define what are the sequence and structure determinants that define common or differential recognition of specific RNA molecules by these proteins. Frontiers Media S.A. 2021-02-22 /pmc/articles/PMC7937890/ /pubmed/33693029 http://dx.doi.org/10.3389/fmolb.2021.624061 Text en Copyright © 2021 Huertas-Rosales, Romero, Chan, Hong, Cámara, Heeb, Barrientos-Moreno, Molina-Henares, Travieso, Ramos-González and Espinosa-Urgel. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Molecular Biosciences Huertas-Rosales, Óscar Romero, Manuel Chan, Kok-Gan Hong, Kar-Wai Cámara, Miguel Heeb, Stephan Barrientos-Moreno, Laura Molina-Henares, María Antonia Travieso, María L. Ramos-González, María Isabel Espinosa-Urgel, Manuel Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in Pseudomonas putida |
title | Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in Pseudomonas putida
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title_full | Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in Pseudomonas putida
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title_fullStr | Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in Pseudomonas putida
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title_full_unstemmed | Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in Pseudomonas putida
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title_short | Genome-Wide Analysis of Targets for Post-Transcriptional Regulation by Rsm Proteins in Pseudomonas putida
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title_sort | genome-wide analysis of targets for post-transcriptional regulation by rsm proteins in pseudomonas putida |
topic | Molecular Biosciences |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7937890/ https://www.ncbi.nlm.nih.gov/pubmed/33693029 http://dx.doi.org/10.3389/fmolb.2021.624061 |
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