E-GEOD-40391 - Identification of RpoE2 target genes in Sinorhizobium meliloti

Status
Released on 22 July 2013, last updated on 29 July 2013
Organism
Sinorhizobium meliloti
Samples (6)
Array (1)
Protocols (7)
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.
Experiment type
transcription profiling by array 
Contacts
Claus Lang, Melanie J Barnett, Sharon R Long
Citation
MIAME
PlatformsProtocolsVariablesProcessedRaw
Files
Investigation descriptionE-GEOD-40391.idf.txt
Sample and data relationshipE-GEOD-40391.sdrf.txt
Raw data (1)E-GEOD-40391.raw.1.zip
Processed data (1)E-GEOD-40391.processed.1.zip
Array designA-GEOD-9757.adf.txt
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