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| Status |
Public on Jul 22, 2013 |
| Title |
Identification of RpoE2 target genes in Sinorhizobium meliloti |
| Platform organisms |
Sinorhizobium meliloti; Medicago truncatula |
| Sample organism |
Sinorhizobium meliloti |
| Experiment type |
Expression profiling by array
|
| Summary |
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.
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| Overall design |
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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| Contributor(s) |
Barnett MJ, Lang C, Long SR |
| Citation(s) |
23497287 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| R01 GM093628 |
Control of Symbiotic Gene Expression in Sinorhizobium meliloti |
STANFORD UNIVERSITY |
SHARON R LONG |
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| Submission date |
Aug 27, 2012 |
| Last update date |
Feb 17, 2015 |
| Contact name |
Melanie J Barnett |
| Organization name |
Stanford University
|
| Department |
Biology
|
| Lab |
Sharon R. Long
|
| Street address |
371 Jane Stanford Way
|
| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
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| Platforms (1) |
| GPL9757 |
[stSmel_Mtra] SRL_SU Sinorhizobium meliloti/Medicago truncatula dual-genome SymbiosisChip, Affymetrix part number 510699 |
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| Samples (6)
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| GSM992687 |
Sinorhizobium meliloti CL150 pCAP11, biological replicate 1 |
| GSM992688 |
Sinorhizobium meliloti CL150 pCAP11, biological replicate 2 |
| GSM992689 |
Sinorhizobium meliloti CL150 pCAP11, biological replicate 3 |
| GSM992690 |
Sinorhizobium meliloti CL150 pF1084, biological replicate 1 |
| GSM992691 |
Sinorhizobium meliloti CL150 pF1084, biological replicate 2 |
| GSM992692 |
Sinorhizobium meliloti CL150 pF1084, biological replicate 3 |
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| Relations |
| BioProject |
PRJNA173849 |
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