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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

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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

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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

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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.

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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

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

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

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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.

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