Unknown,Transcriptomics,Genomics,Proteomics

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Identification of RpoE2 target genes in Sinorhizobium meliloti


ABSTRACT: 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.

ORGANISM(S): Sinorhizobium meliloti

SUBMITTER: Melanie Barnett 

PROVIDER: E-GEOD-40391 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Global mapping of transcription start sites and promoter motifs in the symbiotic α-proteobacterium Sinorhizobium meliloti 1021.

Schlüter Jan-Philip JP   Reinkensmeier Jan J   Barnett Melanie J MJ   Lang Claus C   Krol Elizaveta E   Giegerich Robert R   Long Sharon R SR   Becker Anke A  

BMC genomics 20130307


<h4>Background</h4>Sinorhizobium meliloti is a soil-dwelling α-proteobacterium that possesses a large, tripartite genome and engages in a nitrogen fixing symbiosis with its plant hosts. Although much is known about this important model organism, global characterization of genetic regulatory circuits has been hampered by a lack of information about transcription and promoters.<h4>Results</h4>Using an RNAseq approach and RNA populations representing 16 different growth and stress conditions, we co  ...[more]

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