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The Sinorhizobium meliloti SyrM regulon: effects on global gene expression are mediated by syrA and nodD3 (SyrA)

ABSTRACT: We characterized transcriptomes of a strain overexpressing syrA. Our work shows that the syrA transcriptome shares similar gene expression changes to the syrM and nodD3 transcriptomes and that nodD3 and syrA may be the only targets directly activated by SyrM. We propose that most of the gene expression changes observed when nodD3 is overexpressed are due to NodD3 activation of syrM expression, which in turn stimulates SyrM activation of syrA expression. The subsequent increase in SyrA abundance alters activity of the ChvI-ExoS-ExoR circuit, resulting in broad changes in gene expression. Gene expression profiling of Sinorhizobium meliloti overexpressing syrA was performed using custom Affymetrix GeneChips

ORGANISM(S): Sinorhizobium meliloti

SUBMITTER: Melanie Barnett

PROVIDER: E-GEOD-61524 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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The Sinorhizobium meliloti SyrM regulon: effects on global gene expression are mediated by syrA and nodD3 (SyrM)

Project description:We characterized transcriptomes of a strain overexpressing syrM. Our work shows that the syrM transcriptome shares similar gene expression changes to the syrA and nodD3 transcriptomes and that nodD3 and syrA may be the only targets directly activated by SyrM. We propose that most of the gene expression changes observed when nodD3 is overexpressed are due to NodD3 activation of syrM expression, which in turn stimulates SyrM activation of syrA expression. The subsequent increase in SyrA abundance alters activity of the ChvI-ExoS-ExoR circuit, resulting in broad changes in gene expression. Gene expression profiling of a Sinorhizobium meliloti nodD1, nodD2, nodD3 mutant overexpressing syrM was performed using custom Affymetrix GeneChips

2015-03-31 | E-GEOD-61525 | biostudies-arrayexpress

The Sinorhizobium meliloti SyrM regulon: effects on global gene expression are mediated by syrA and nodD3 (ChvI-SyrA)

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The Sinorhizobium meliloti SyrM regulon: effects on global gene expression are mediated by syrA and nodD3

Project description:This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

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Identification of RpoE2 target genes in Sinorhizobium meliloti

Project description:Sinorhizobium meliloti lives as a soil saprophyte, and engages in a nitrogen fixing symbiosis with plant roots. To succeed in such diverse environments, the bacteria must continually adjust gene expression. Transcriptional plasticity in eubacteria is often mediated by alternative sigma factors interacting with core RNA polymerase. The S. meliloti genome encodes 14 of these alternative sigmas, including 11 extracytoplasmic function (ECF) sigmas. We used custom Affymetrix Symbiosis Chips to characterize the global transcriptional response of S. meliloti overexpressing the ECF sigma factor, RpoE2. Our work identifies over 200 genes whose expression is dependent on RpoE2. The gene expression profile of Sinorhizobium meliloti strain CL150 carrying the rpoE2 gene on a plasmid, where it was expressed from a melibiose-inducible promoter (the S. meliloti PmelA promoter), was compared to the gene expression profile of CL150 carrying the corresponding empty vector (pCAP11). CL150 is an Rm1021 strain that has been corrected for two point mutations: it is wild type for ecfR1 and pstC.

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The Conserved Polarity Factor PodJ1 Impacts Multiple Cell Envelope-Associated Functions in Sinorhizobium meliloti

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Dual RpoH sigma factors in Sinorhizobium meliloti

Project description:Sinorhizobium meliloti can live as a soil saprophyte, and can engage in a nitrogen fixing symbiosis with plant roots. To succeed in such diverse environments, the bacteria must continually adjust gene expression. Transcriptional plasticity in eubacteria is often mediated by alternative sigma factors interacting with core RNA polymerase. The S. meliloti genome encodes 14 of these alternative sigmas, including two putative RpoH (heat shock) sigmas. We used custom Affymetrix Symbiosis Chips to characterize the global transcriptional response of S. meliloti rpoH1, rpoH2 and rpoH1 rpoH2 mutants during heat shock and stationary phase growth. Under these conditions, expression of over 300 genes is dependent on rpoH1 and rpoH2. Gene expression profiling of Sinorhizobium meliloti Rm1021 and its isogenic rpoH1, rpoH2, and rpoH1rpoH2 mutants, subjected to heat shock or stationary phase growth, was performed using custom Affymetrix GeneChips

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The Sinorhizobium meliloti SyrM regulon: effects on global gene expression are mediated by syrA and nodD3 (SyrM)

2015-03-31 | GSE61525 | GEO

The Sinorhizobium meliloti SyrM regulon: effects on global gene expression are mediated by syrA and nodD3 (SyrA)

Project description:We characterized transcriptomes of a strain overexpressing syrA. Our work shows that the syrA transcriptome shares similar gene expression changes to the syrM and nodD3 transcriptomes and that nodD3 and syrA may be the only targets directly activated by SyrM. We propose that most of the gene expression changes observed when nodD3 is overexpressed are due to NodD3 activation of syrM expression, which in turn stimulates SyrM activation of syrA expression. The subsequent increase in SyrA abundance alters activity of the ChvI-ExoS-ExoR circuit, resulting in broad changes in gene expression.

2015-03-31 | GSE61524 | GEO

Defining the transcriptional regulon of ChvI in Caulobacter crescentus

Project description:We sought to define the transcriptional regulon of the ChvI response regulator in Caulobacter crescentus. This study compares gene expression between ∆chvI cells and cells overexpressing the constitutively-active chvI(D52E) mutant. Our work provides a global view of the genes directly and indirectly regulated by the ChvGI two-component system in C. crescentus.

2021-04-01 | GSE168965 | GEO

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