Role of mRNA stability during bacterial adaptation.

Bacterial adaptation involves extensive cellular reorganization. In particular, growth rate adjustments are associated with substantial modifications of gene expression and mRNA abundance. In this work we aimed to assess the role of mRNA degradation during such variations. A genome-wide transcriptom...

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Autores principales:	Clémentine Dressaire, Flora Picard, Emma Redon, Pascal Loubière, Isabelle Queinnec, Laurence Girbal, Muriel Cocaign-Bousquet
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2013
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/fb6a16cfe2504df4b1838cddbb135f6d
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spelling	oai:doaj.org-article:fb6a16cfe2504df4b1838cddbb135f6d2021-11-18T07:53:33ZRole of mRNA stability during bacterial adaptation.1932-620310.1371/journal.pone.0059059https://doaj.org/article/fb6a16cfe2504df4b1838cddbb135f6d2013-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23516597/pdf/?tool=EBIhttps://doaj.org/toc/1932-6203Bacterial adaptation involves extensive cellular reorganization. In particular, growth rate adjustments are associated with substantial modifications of gene expression and mRNA abundance. In this work we aimed to assess the role of mRNA degradation during such variations. A genome-wide transcriptomic-based method was used to determine mRNA half-lives. The model bacterium Lactococcus lactis was used and different growth rates were studied in continuous cultures under isoleucine-limitation and in batch cultures during the adaptation to the isoleucine starvation. During continuous isoleucine-limited growth, the mRNAs of different genes had different half-lives. The stability of most of the transcripts was not constant, and increased as the growth rate decreased. This half-life diversity was analyzed to investigate determinants of mRNA stability. The concentration, length, codon adaptation index and secondary structures of mRNAs were found to contribute to the determination of mRNA stability in these conditions. However, the growth rate was, by far, the most influential determinant. The respective influences of mRNA degradation and transcription on the regulation of intra-cellular transcript concentration were estimated. The role of degradation on mRNA homeostasis was clearly evidenced: for more than 90% of the mRNAs studied during continuous isoleucine-limited growth of L. lactis, degradation was antagonistic to transcription. Although both transcription and degradation had, opposite effects, the mRNA changes in response to growth rate were driven by transcription. Interestingly, degradation control increased during the dynamic adaptation of bacteria as the growth rate reduced due to progressive isoleucine starvation in batch cultures. This work shows that mRNA decay differs between gene transcripts and according to the growth rate. It demonstrates that mRNA degradation is an important regulatory process involved in bacterial adaptation. However, its impact on the regulation of mRNA levels is smaller than that of transcription in the conditions studied.Clémentine DressaireFlora PicardEmma RedonPascal LoubièreIsabelle QueinnecLaurence GirbalMuriel Cocaign-BousquetPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 8, Iss 3, p e59059 (2013)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Clémentine Dressaire Flora Picard Emma Redon Pascal Loubière Isabelle Queinnec Laurence Girbal Muriel Cocaign-Bousquet Role of mRNA stability during bacterial adaptation.
description	Bacterial adaptation involves extensive cellular reorganization. In particular, growth rate adjustments are associated with substantial modifications of gene expression and mRNA abundance. In this work we aimed to assess the role of mRNA degradation during such variations. A genome-wide transcriptomic-based method was used to determine mRNA half-lives. The model bacterium Lactococcus lactis was used and different growth rates were studied in continuous cultures under isoleucine-limitation and in batch cultures during the adaptation to the isoleucine starvation. During continuous isoleucine-limited growth, the mRNAs of different genes had different half-lives. The stability of most of the transcripts was not constant, and increased as the growth rate decreased. This half-life diversity was analyzed to investigate determinants of mRNA stability. The concentration, length, codon adaptation index and secondary structures of mRNAs were found to contribute to the determination of mRNA stability in these conditions. However, the growth rate was, by far, the most influential determinant. The respective influences of mRNA degradation and transcription on the regulation of intra-cellular transcript concentration were estimated. The role of degradation on mRNA homeostasis was clearly evidenced: for more than 90% of the mRNAs studied during continuous isoleucine-limited growth of L. lactis, degradation was antagonistic to transcription. Although both transcription and degradation had, opposite effects, the mRNA changes in response to growth rate were driven by transcription. Interestingly, degradation control increased during the dynamic adaptation of bacteria as the growth rate reduced due to progressive isoleucine starvation in batch cultures. This work shows that mRNA decay differs between gene transcripts and according to the growth rate. It demonstrates that mRNA degradation is an important regulatory process involved in bacterial adaptation. However, its impact on the regulation of mRNA levels is smaller than that of transcription in the conditions studied.
format	article
author	Clémentine Dressaire Flora Picard Emma Redon Pascal Loubière Isabelle Queinnec Laurence Girbal Muriel Cocaign-Bousquet
author_facet	Clémentine Dressaire Flora Picard Emma Redon Pascal Loubière Isabelle Queinnec Laurence Girbal Muriel Cocaign-Bousquet
author_sort	Clémentine Dressaire
title	Role of mRNA stability during bacterial adaptation.
title_short	Role of mRNA stability during bacterial adaptation.
title_full	Role of mRNA stability during bacterial adaptation.
title_fullStr	Role of mRNA stability during bacterial adaptation.
title_full_unstemmed	Role of mRNA stability during bacterial adaptation.
title_sort	role of mrna stability during bacterial adaptation.
publisher	Public Library of Science (PLoS)
publishDate	2013
url	https://doaj.org/article/fb6a16cfe2504df4b1838cddbb135f6d
work_keys_str_mv	AT clementinedressaire roleofmrnastabilityduringbacterialadaptation AT florapicard roleofmrnastabilityduringbacterialadaptation AT emmaredon roleofmrnastabilityduringbacterialadaptation AT pascalloubiere roleofmrnastabilityduringbacterialadaptation AT isabellequeinnec roleofmrnastabilityduringbacterialadaptation AT laurencegirbal roleofmrnastabilityduringbacterialadaptation AT murielcocaignbousquet roleofmrnastabilityduringbacterialadaptation
_version_	1718422829116948480

Role of mRNA stability during bacterial adaptation.

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