Newly Identified Nucleoid-Associated-Like Protein YlxR Regulates Metabolic Gene Expression in <named-content content-type="genus-species">Bacillus subtilis</named-content>

ABSTRACT Glucose is the most favorable carbon source for the majority of bacteria, which have several glucose-responsive gene networks. Recently, we found that in Bacillus subtilis, glucose induces expression of the extracellular sigma factor genes sigX/M. To explore the factors affecting this pheno...

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Auteurs principaux:	Mitsuo Ogura, Yu Kanesaki
Format:	article
Langue:	EN
Publié:	American Society for Microbiology 2018
Sujets:	RNA-Seq metabolic genes nucleoid transcription regulation Microbiology QR1-502
Accès en ligne:	https://doaj.org/article/f6ba38507fd6407eb6344b806d29bc22
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spelling	oai:doaj.org-article:f6ba38507fd6407eb6344b806d29bc222021-11-15T15:22:26ZNewly Identified Nucleoid-Associated-Like Protein YlxR Regulates Metabolic Gene Expression in <named-content content-type="genus-species">Bacillus subtilis</named-content>10.1128/mSphere.00501-182379-5042https://doaj.org/article/f6ba38507fd6407eb6344b806d29bc222018-10-01T00:00:00Zhttps://journals.asm.org/doi/10.1128/mSphere.00501-18https://doaj.org/toc/2379-5042ABSTRACT Glucose is the most favorable carbon source for the majority of bacteria, which have several glucose-responsive gene networks. Recently, we found that in Bacillus subtilis, glucose induces expression of the extracellular sigma factor genes sigX/M. To explore the factors affecting this phenomenon, we performed a transposon mutagenesis screen for mutants with no glucose induction (GI) of sigX-lacZ and identified ylxR. YlxR is widely conserved in eubacteria. Further analysis revealed that ylxR is induced by glucose addition. In vitro DNA-binding and cytological studies suggested that YlxR is a nucleoid-associated protein (NAP) in B. subtilis. In many cases, NAPs influence transcription, recombination, and genome stability. Thus, we performed transcriptome sequencing (RNA-Seq) analysis to evaluate the impact of ylxR disruption on the transcriptome in the presence of glucose and observed that YlxR has a profound impact on metabolic gene expression in addition to that of four sigma factor genes. The wide fluctuations of gene expression may result in abolition of GI of sigX/M in the ylxR disruptant. IMPORTANCE Expression of genes encoding NAPs is often temporally regulated. According to results from single-cell analysis, the ylxR gene is induced by glucose and expressed in a bistable mode. These characteristics have not previously been reported for NAP gene expression. Transcriptional profiling of the ylxR disruptant revealed a change in the expression levels of approximately 400 genes, including genes for synthesis of 12 amino acids and 4 nucleotides, in addition to the SigX/M regulons. Thus, YlxR is a critical regulator of glucose response in B. subtilis.Mitsuo OguraYu KanesakiAmerican Society for MicrobiologyarticleRNA-Seqmetabolic genesnucleoidtranscription regulationMicrobiologyQR1-502ENmSphere, Vol 3, Iss 5 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	RNA-Seq metabolic genes nucleoid transcription regulation Microbiology QR1-502
spellingShingle	RNA-Seq metabolic genes nucleoid transcription regulation Microbiology QR1-502 Mitsuo Ogura Yu Kanesaki Newly Identified Nucleoid-Associated-Like Protein YlxR Regulates Metabolic Gene Expression in <named-content content-type="genus-species">Bacillus subtilis</named-content>
description	ABSTRACT Glucose is the most favorable carbon source for the majority of bacteria, which have several glucose-responsive gene networks. Recently, we found that in Bacillus subtilis, glucose induces expression of the extracellular sigma factor genes sigX/M. To explore the factors affecting this phenomenon, we performed a transposon mutagenesis screen for mutants with no glucose induction (GI) of sigX-lacZ and identified ylxR. YlxR is widely conserved in eubacteria. Further analysis revealed that ylxR is induced by glucose addition. In vitro DNA-binding and cytological studies suggested that YlxR is a nucleoid-associated protein (NAP) in B. subtilis. In many cases, NAPs influence transcription, recombination, and genome stability. Thus, we performed transcriptome sequencing (RNA-Seq) analysis to evaluate the impact of ylxR disruption on the transcriptome in the presence of glucose and observed that YlxR has a profound impact on metabolic gene expression in addition to that of four sigma factor genes. The wide fluctuations of gene expression may result in abolition of GI of sigX/M in the ylxR disruptant. IMPORTANCE Expression of genes encoding NAPs is often temporally regulated. According to results from single-cell analysis, the ylxR gene is induced by glucose and expressed in a bistable mode. These characteristics have not previously been reported for NAP gene expression. Transcriptional profiling of the ylxR disruptant revealed a change in the expression levels of approximately 400 genes, including genes for synthesis of 12 amino acids and 4 nucleotides, in addition to the SigX/M regulons. Thus, YlxR is a critical regulator of glucose response in B. subtilis.
format	article
author	Mitsuo Ogura Yu Kanesaki
author_facet	Mitsuo Ogura Yu Kanesaki
author_sort	Mitsuo Ogura
title	Newly Identified Nucleoid-Associated-Like Protein YlxR Regulates Metabolic Gene Expression in <named-content content-type="genus-species">Bacillus subtilis</named-content>
title_short	Newly Identified Nucleoid-Associated-Like Protein YlxR Regulates Metabolic Gene Expression in <named-content content-type="genus-species">Bacillus subtilis</named-content>
title_full	Newly Identified Nucleoid-Associated-Like Protein YlxR Regulates Metabolic Gene Expression in <named-content content-type="genus-species">Bacillus subtilis</named-content>
title_fullStr	Newly Identified Nucleoid-Associated-Like Protein YlxR Regulates Metabolic Gene Expression in <named-content content-type="genus-species">Bacillus subtilis</named-content>
title_full_unstemmed	Newly Identified Nucleoid-Associated-Like Protein YlxR Regulates Metabolic Gene Expression in <named-content content-type="genus-species">Bacillus subtilis</named-content>
title_sort	newly identified nucleoid-associated-like protein ylxr regulates metabolic gene expression in <named-content content-type="genus-species">bacillus subtilis</named-content>
publisher	American Society for Microbiology
publishDate	2018
url	https://doaj.org/article/f6ba38507fd6407eb6344b806d29bc22
work_keys_str_mv	AT mitsuoogura newlyidentifiednucleoidassociatedlikeproteinylxrregulatesmetabolicgeneexpressioninnamedcontentcontenttypegenusspeciesbacillussubtilisnamedcontent AT yukanesaki newlyidentifiednucleoidassociatedlikeproteinylxrregulatesmetabolicgeneexpressioninnamedcontentcontenttypegenusspeciesbacillussubtilisnamedcontent
_version_	1718428046176813056

Newly Identified Nucleoid-Associated-Like Protein YlxR Regulates Metabolic Gene Expression in <named-content content-type="genus-species">Bacillus subtilis</named-content>

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