GEO DataSets

(Submitter supplied) We have used chromatin immunoprecipitation followed by microarray analysis (chIP-chip) to identify DNA regions bound by the ChvI protein in Sinorhizobium meliloti cells. We then used quantitative PCR with chvI mutant strains to test the ChvI-dependent expression of genes downstream of the ChvI-bound DNA regions.

Organism:

Sinorhizobium meliloti; Medicago truncatula

Type:

Genome binding/occupancy profiling by array

Platform:

GPL9757

9 Samples

Download data: CEL

(Submitter supplied) We performed transcriptional profiling with chvI gain-of-function (EC220) and reduced-function (EC69) strains. The chvI gain-of-function strain that we used contains a dominant gain-of-function chvI allele in addition to wild-type chvI. We identified genes that, relative to their expression level in the wild type, are both upregulated in the chvI gain-of-function strain and downregulated in the reduced-function strain or vice versa.

Organism:

Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL9757

9 Samples

Download data: CEL

(Submitter supplied) Sinorhizobium meliloti establishes symbiotic relationship with compatible leguminous plants by inducing root nodule formation, colonizing such nodules, and fixing molecular nitrogen for the host in exchange for carbon compounds. This mutualistic process requires complex communication and tight regulation to allow yet constrain infection to specific tissues. Production of succinoglycan, or exopolysaccharide-I (EPS-I), enables S. more...

Organism:

Sinorhizobium meliloti; Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL9757

9 Samples

Download data: CEL, XLSX

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL9757

24 Samples

Download data: CEL

(Submitter supplied) 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. more...

Organism:

Sinorhizobium meliloti; Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL9757

6 Samples

Download data: CEL

(Submitter supplied) 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. more...

Organism:

Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL9757

6 Samples

Download data: CEL

(Submitter supplied) We characterized transcriptomes of strains containing a K214T mutation in chvI, with and without overexpression of syrA. Our work shows that overexpression of syrA suppresses many of the transcription changes observed in the chvI K214T mutant.

Organism:

Sinorhizobium meliloti; Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL9757

12 Samples

Download data: CEL

(Submitter supplied) We characterized the transcriptome of a Sinorhizobium meliloti emmA insertion mutant strain.

Organism:

Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL9757

6 Samples

Download data: CEL

(Submitter supplied) 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. more...

Organism:

Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL9757

6 Samples

Download data: CEL

(Submitter supplied) We wanted to test the effect on global gene expression of depleting the essential cell cycle regulator CtrA in order to determine the genes both indirectly and directly transcriptionally regulated by CtrA Gene expression changes in S. meliloti 1,2,4 and 6 hours post CtrA depletion

Organism:

Sinorhizobium meliloti; Sinorhizobium meliloti 1021

Type:

Expression profiling by array

Platform:

GPL18182

24 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Sinorhizobium meliloti; Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL9757

65 Samples

Download data: CEL

(Submitter supplied) We characterized transcriptomes for strains overexpressing each of the Sinorhizobium meliloti ECF sigma factors the via a plasmid-borne, melibiose-inducible promoter plasmid (PmelA; pCAP11: Pinedo et al. 2008 J Bacteriol 190:2947-2956) compared to control strains carrying the empty vector.

Organism:

Medicago truncatula; Sinorhizobium meliloti

Type:

Expression profiling by array

Platform:

GPL9757

45 Samples

Download data: CEL

(Submitter supplied) We characterized transcriptomes of Sinorhizobium meliloti root nodule bacteria with mutations in sigma factor genes.

Organism:

Sinorhizobium meliloti; Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL9757

20 Samples

Download data: CEL

(Submitter supplied) For transcript analysis of responses in Medicago truncatula to its symbiont Sinorhizobium meliloti wild type or the succinoglycan-deficient exoY mutant we compared transcripts from line A17 roots inoculated with 25 mL OD = 0.05 S. meliloti wild type or exoY mutant. Keywords: 1 line; 2 S. meliloti samples

Organism:

Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL4799

6 Samples

Download data

(Submitter supplied) In α-proteobacteria, strict regulation of cell cycle progression is necessary for the specific cellular differentiation required for adaptation to diverse environmental niches. The symbiotic lifestyle of Sinorhizobium meliloti requires a drastic cellular differentiation that includes genome amplification. To achieve polyploidy, the S. meliloti cell cycle program must be altered to uncouple DNA replication from cell division. more...

Organism:

Sinorhizobium meliloti; Sinorhizobium meliloti 1021

Type:

Expression profiling by array

Platform:

GPL18182

31 Samples

Download data: TXT

(Submitter supplied) Investigation of whole genome gene expression level changes in a Sinorhizobium meliloti 1021 rpoH1 rpoH2 double mutant, compared to the wild-type strain. The mutations engineered into this strain render it deficient in symbiotic nitrogen fixation. The mutants analyzed in this study are further described in Mitsui, H, T. Sato, Y. Sato, and K. Minamisawa. 2004. Sinorhizobium meliloti RpoH1 is required for effective nitrogen-fixing symbiosis with alfalfa. more...

Organism:

Sinorhizobium meliloti 1021

Type:

Expression profiling by array

Platform:

GPL19375

20 Samples

Download data: CALLS, PAIR

(Submitter supplied) Performed RNASeq analysis comparing A. tumefaciens C58 (fabrum) harboring a plasmid driving ectopic expression of mirA regulator gene (ATU_RS08050) from Plac promoter with the isogenic strain haboring the same plasmid with no mirA (Vector control)

Organism:

Agrobacterium fabrum str. C58

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30075

6 Samples

Download data: TXT

(Submitter supplied) Although diminutive in size, bacteria possess highly diverse and spatially confined cellular structures. Two related alpha-proteobacteria, Sinorhizobium meliloti and Caulobacter crescentus, serve as models for investigating the genetic basis of morphologic variations. S. meliloti, a symbiont of leguminous plants, synthesizes multiple flagella and no prosthecae, whereas C. crescentus, a freshwater bacterium, has a single polar flagellum and stalk. more...

Organism:

Sinorhizobium meliloti; Medicago truncatula

Type:

Expression profiling by array

Platform:

GPL9757

6 Samples

Download data: CEL

(Submitter supplied) AdpA is a global transcriptional activator triggering morphological differentiation and secondary metabolism in Streptomyces griseus. AdpA influences expression of >1,000 genes, but the overall picture of AdpA regulon has been obscure. Here, we took snapshots of distribution of AdpA across the chromosome in living S. griseus cells by ChIP/ChAP-seq analysis. In both liquid and solid cultures, AdpA bound to similar >1,200 sites, which were located on not only putative regulatory regions (65 %) but also regions (35 %) that appeared not to affect transcription. more...

Organism:

Streptomyces griseus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL14940

3 Samples

Download data: SAM

(Submitter supplied) AdpA is a global transcriptional activator triggering morphological differentiation and secondary metabolism in Streptomyces griseus. AdpA influences expression of >1,000 genes, but the overall picture of AdpA regulon has been obscure. Here, we took snapshots of distribution of AdpA across the chromosome in living S. griseus cells by ChIP/ChAP-seq analysis. In both liquid and solid cultures, AdpA bound to similar >1,200 sites, which were located on not only putative regulatory regions (65 %) but also regions (35 %) that appeared not to affect transcription. more...

Organism:

Streptomyces griseus

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL14940

2 Samples

Download data: TXT