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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Transcription profiling of Sinorhizobium meliloti genes upon RpoE4 over-expression

ABSTRACT: S. meliloti genes under the control of RpoE4 were identified by determining the whole genome
transcription profile of a strain over-expressing rpoE4 under the control of the arabinose-dependent
PBAD promoter of plasmid pMLBAD-rpoE4. A strain containing the empty vector pMLBAD
was used as a reference.

ORGANISM(S): Sinorhizobium meliloti

SUBMITTER: Claude Bruand

PROVIDER: E-MEXP-3472 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Sinorhizobium meliloti sigma factors RpoE1 and RpoE4 are activated in stationary phase in response to sulfite.

Bastiat Bénédicte B Sauviac Laurent L Picheraux Carole C Rossignol Michel M Bruand Claude C

PloS one 20121130 11

Rhizobia are soil bacteria able to establish a nitrogen-fixing symbiosis with legume plants. Both in soil and in planta, rhizobia spend non-growing periods resembling the stationary phase of in vitro-cultured bacteria. The primary objective of this work was to better characterize gene regulation in this biologically relevant growth stage in Sinorhizobium meliloti. By a tap-tag/mass spectrometry approach, we identified five sigma factors co-purifying with the RNA polymerase in stationary phase: t ...[more]

PMID: 23226379

Similar Datasets

Transcription profiling of Sinorhizobium meliloti genes upon rpoE1 over-expression

Project description:S. meliloti genes under the control of RpoE1 were identified by determining the whole genome transcription profile of a strain over-expressing rpoE1 under the control of the arabinose-dependent PBAD promoter of plasmid pMLBAD-rpoE1. A strain containing the empty vector pMLBAD was used as a reference.

2012-11-01 | E-MEXP-3471 | biostudies-arrayexpress

Transcription profiling of Ralstonia solanacearum prhG mutant strains vs wild type strain

Project description:1. Comparison of transcripts during growth in pure culture of a wild-type strain compared to a mutant deficient in the transcriptional activator encoded by the gene prhG. 2. Transcriptome analysis for identification of the prhG regulon by comparison of a prhG overexpressing mutant to the wild type strain.

2010-01-01 | E-MEXP-2456 | biostudies-arrayexpress

Transcription profiling by array of Sordaria macrospora wild type strain undergoing sexual development and the mutant strains dSmtA-1 and dSmtA-2

Project description:Cross-species hybridizations of Sordaria macrospora targets on Neurospora crassa microarrays were performed with targets derived from the S. macrospora wild type undergoing sexual development (wt.sex) and the mutant strains dSmtA-1 and dSmtA-2. For each strain, two independent experiments were carried out with a dye switch in the second experiment. The following slide/target/dye combinations were done: slide N16-86: Cy3-target: wt.sex (1), Cy5-target: dSmtA-1 (1) slide N16-87: Cy3-target: dSmtA-1 (2), Cy5-target: dSmtA-2(2) slide N16-88: Cy3-target: dSmtA-2 (1), Cy5-target: wt.sex (2)

2010-04-29 | E-MEXP-2600 | biostudies-arrayexpress

Transcription profiling of Sinorhizobium meliloti wild type and mutant strains in the presence or absence of an nitric oxide donor

Project description:Comparative transcriptome analysis of various wild type and mutant strains of Sinorhizobium meliloti in presence or absence of NO donor

2010-02-24 | E-MEXP-2515 | biostudies-arrayexpress

Transcription profiling of Pseudomonas putida wild type and roxS mutants to define the RoxS/RoxR regulon

Project description:Whole-genome transcriptional analysis has been performed to define the P. putida RoxS/RoxR regulon. Transcriptome profiles of P. putida roxS cells harvested in stationary growth phase were compared with those of the wild-type strain.

2009-01-01 | E-MEXP-1684 | biostudies-arrayexpress

Transcription profiling by array of Sinorhizobium meliloti genes regulated by RpoE4 in the presence of thiosulfate

Project description:The Sinorhizobium meliloti rpoE4 regulon was determined by comparing the wildtype and rpoE4 mutant transcriptomes in the presence of 20mM sodium thiosulfate, an RpoE4 activating condition.

2012-11-01 | E-MEXP-3475 | biostudies-arrayexpress

Transcription profiling of Ralstonia solanacearum hrpB mutant overexpressing hrpG vs wild type strain

Project description:1. Comparison of transcripts during growth in pure culture of a wild-type strain compared to a mutant deficient in the transcriptional activator encoded by the gene hrpG. 2. Transcriptome analysis for identification of the hrpG regulon by comparison of a rppG mutant to the wild type strain. 3. Transcriptome analysis comparing a hrpB mutant overexpressing hrpG to the wild type strain.

2006-05-01 | E-MEXP-579 | biostudies-arrayexpress

Transcription profiling of wild type, fixJ, fixK and fixK-like mutant strains of Sinorhizobium meliloti cultured at different oxygen levels

Project description:Comparative transcriptome analysis in various oxygen concentrations of wild type and fixJ mutant strains of Sinorhizobium meliloti.

2006-08-10 | E-TABM-121 | biostudies-arrayexpress

Transcription profiling of Brucella abortus using an ORFeome-based Brucella whole-genome DNA microarray

Project description:A direct analysis of the global transcriptional profile of B. abortus cells grown in laboratory conditions was made. Thus, three independent biological replicas were made, and following the RNA isolation, samples were reverse transcribed in aRNA and labelled with Cy3 fluorescent dye. The use of a single dye labelling approach allowed us an estimation of the genes more abundantly expressed in Brucella under laboratory conditions. The evaluation experiment was composed of three slides yielding six measurements per gene (representing three biological replicates, since each gene is present twice on each slide) to confirm the reproducibility of the gene expression data. The complete dataset was sorted by the normalized and corrected fluorescence intensity values.

2008-11-27 | E-MEXP-1887 | biostudies-arrayexpress

Transcription profiling of Populus euphratica leaves and roots in response to salinity

Project description:Rooted plantlets of Populus euphratica were transferred to aerated hydroculture with Long Ashton nutrient solution, grown for 3.5 months at 22°C, 150 µmol m-2 s-1 photosynthetically active radiation with a photoperiod of 16h light. After reaching an average height of 0.83 m, the media was supplemented with 150 mM NaCl (Salt-treated) or maintained under control conditions (control). During the experimental phase, light was continuously supplied to avoid interference of light/dark transitions. Roots and leaves of six plants were harvested separately after 3h, 6h, 12h, and 24h of salt exposure and of controls at the corresponding time points (= 48 plants per experiment). The material of each harvest of 6 plants was pooled, yielding one leaf and one root sample of controls and one leaf and one root sample of salt-treated plants, respectively (=16 samples per experiment). The experiment was performed three times yielding three biological replications (=48 samples in total). After extraction of RNA and cDNA synthesis, each extract was labelled with Cy3 and Cy5, respectively (yielding 96 labelled extracts). Extracts from e.g. 3h-salt-treated leaf exp. 1 (cy3) was hybridized with 3h-control leaf exp.1 (cy5) with microarrays (UHPB-P.euphratica-10K-5; A-MEXP-93)containing unique 7,662 ESTs of P. euphratica from stress-induced cDNA libraries (Brosche et al., Genome Biology 2005, 6:R101). Dye swap was perfomed, thus usually yielding 6 arrays per timepoint and plant tissue (3 biological, 3 technical replicates). In some cases hydridizations were not successfull. Therefore, for roots harvested at timepoints 12h and 24 h only 4 arrays per timepoint were used. For roots harvested after 3h an additional mixed sample of all 3 biological replicates was performed. One leaf array at 6 h was not sucessfull. Therefore, residual labelled extract from salt treated plants of exp1 was hydridized with controls at 6h from exp.2.

2009-08-05 | E-MEXP-2095 | biostudies-arrayexpress

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