Definition of the σ(W) regulon of Bacillus subtilis in the absence of stress.

Bacteria employ extracytoplasmic function (ECF) sigma factors for their responses to environmental stresses. Despite intensive research, the molecular dissection of ECF sigma factor regulons has remained a major challenge due to overlaps in the ECF sigma factor-regulated genes and the stimuli that a...

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Autores principales:	Jessica C Zweers, Pierre Nicolas, Thomas Wiegert, Jan Maarten van Dijl, Emma L Denham
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/f2993f4834a0451394b46fd7377a7ce1
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spelling	oai:doaj.org-article:f2993f4834a0451394b46fd7377a7ce12021-11-18T08:08:55ZDefinition of the σ(W) regulon of Bacillus subtilis in the absence of stress.1932-620310.1371/journal.pone.0048471https://doaj.org/article/f2993f4834a0451394b46fd7377a7ce12012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/23155385/?tool=EBIhttps://doaj.org/toc/1932-6203Bacteria employ extracytoplasmic function (ECF) sigma factors for their responses to environmental stresses. Despite intensive research, the molecular dissection of ECF sigma factor regulons has remained a major challenge due to overlaps in the ECF sigma factor-regulated genes and the stimuli that activate the different ECF sigma factors. Here we have employed tiling arrays to single out the ECF σ(W) regulon of the Gram-positive bacterium Bacillus subtilis from the overlapping ECF σ(X), σ(Y), and σ(M) regulons. For this purpose, we profiled the transcriptome of a B. subtilis sigW mutant under non-stress conditions to select candidate genes that are strictly σ(W)-regulated. Under these conditions, σ(W) exhibits a basal level of activity. Subsequently, we verified the σ(W)-dependency of candidate genes by comparing their transcript profiles to transcriptome data obtained with the parental B. subtilis strain 168 grown under 104 different conditions, including relevant stress conditions, such as salt shock. In addition, we investigated the transcriptomes of rasP or prsW mutant strains that lack the proteases involved in the degradation of the σ(W) anti-sigma factor RsiW and subsequent activation of the σ(W)-regulon. Taken together, our studies identify 89 genes as being strictly σ(W)-regulated, including several genes for non-coding RNAs. The effects of rasP or prsW mutations on the expression of σ(W)-dependent genes were relatively mild, which implies that σ(W)-dependent transcription under non-stress conditions is not strictly related to RasP and PrsW. Lastly, we show that the pleiotropic phenotype of rasP mutant cells, which have defects in competence development, protein secretion and membrane protein production, is not mirrored in the transcript profile of these cells. This implies that RasP is not only important for transcriptional regulation via σ(W), but that this membrane protease also exerts other important post-transcriptional regulatory functions.Jessica C ZweersPierre NicolasThomas WiegertJan Maarten van DijlEmma L DenhamPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 11, p e48471 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Jessica C Zweers Pierre Nicolas Thomas Wiegert Jan Maarten van Dijl Emma L Denham Definition of the σ(W) regulon of Bacillus subtilis in the absence of stress.
description	Bacteria employ extracytoplasmic function (ECF) sigma factors for their responses to environmental stresses. Despite intensive research, the molecular dissection of ECF sigma factor regulons has remained a major challenge due to overlaps in the ECF sigma factor-regulated genes and the stimuli that activate the different ECF sigma factors. Here we have employed tiling arrays to single out the ECF σ(W) regulon of the Gram-positive bacterium Bacillus subtilis from the overlapping ECF σ(X), σ(Y), and σ(M) regulons. For this purpose, we profiled the transcriptome of a B. subtilis sigW mutant under non-stress conditions to select candidate genes that are strictly σ(W)-regulated. Under these conditions, σ(W) exhibits a basal level of activity. Subsequently, we verified the σ(W)-dependency of candidate genes by comparing their transcript profiles to transcriptome data obtained with the parental B. subtilis strain 168 grown under 104 different conditions, including relevant stress conditions, such as salt shock. In addition, we investigated the transcriptomes of rasP or prsW mutant strains that lack the proteases involved in the degradation of the σ(W) anti-sigma factor RsiW and subsequent activation of the σ(W)-regulon. Taken together, our studies identify 89 genes as being strictly σ(W)-regulated, including several genes for non-coding RNAs. The effects of rasP or prsW mutations on the expression of σ(W)-dependent genes were relatively mild, which implies that σ(W)-dependent transcription under non-stress conditions is not strictly related to RasP and PrsW. Lastly, we show that the pleiotropic phenotype of rasP mutant cells, which have defects in competence development, protein secretion and membrane protein production, is not mirrored in the transcript profile of these cells. This implies that RasP is not only important for transcriptional regulation via σ(W), but that this membrane protease also exerts other important post-transcriptional regulatory functions.
format	article
author	Jessica C Zweers Pierre Nicolas Thomas Wiegert Jan Maarten van Dijl Emma L Denham
author_facet	Jessica C Zweers Pierre Nicolas Thomas Wiegert Jan Maarten van Dijl Emma L Denham
author_sort	Jessica C Zweers
title	Definition of the σ(W) regulon of Bacillus subtilis in the absence of stress.
title_short	Definition of the σ(W) regulon of Bacillus subtilis in the absence of stress.
title_full	Definition of the σ(W) regulon of Bacillus subtilis in the absence of stress.
title_fullStr	Definition of the σ(W) regulon of Bacillus subtilis in the absence of stress.
title_full_unstemmed	Definition of the σ(W) regulon of Bacillus subtilis in the absence of stress.
title_sort	definition of the σ(w) regulon of bacillus subtilis in the absence of stress.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/f2993f4834a0451394b46fd7377a7ce1
work_keys_str_mv	AT jessicaczweers definitionoftheswregulonofbacillussubtilisintheabsenceofstress AT pierrenicolas definitionoftheswregulonofbacillussubtilisintheabsenceofstress AT thomaswiegert definitionoftheswregulonofbacillussubtilisintheabsenceofstress AT janmaartenvandijl definitionoftheswregulonofbacillussubtilisintheabsenceofstress AT emmaldenham definitionoftheswregulonofbacillussubtilisintheabsenceofstress
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Definition of the σ(W) regulon of Bacillus subtilis in the absence of stress.

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