GEO DataSets

(Submitter supplied) Dna microarray technology was used to survey changes in gene expression in R. etli CFN42 in biofilm formation In these organisms, two main phases, biofilm and planktonic, have been identified. In this work, using microarray assays, we evaluated global gene expression in biofilm and planktonic growth phases in rich medium, in the bacterium Rhizobium etli CFN42.

Organism:

Rhizobium etli CFN 42

Type:

Expression profiling by array

Platform:

GPL10081

12 Samples

Download data: TXT

(Submitter supplied) Rhizobium etli is a bacteria that fix nitrogen in symbiotic activity with Phaseolus vulgaris, the common bean plant. In order to accomplish this nitrogen reduction a especial environment is induced in nodules such that gene expression of bacteroid suffer a significant change with respect to its wild type life style. With the purpose to identify genetic alterations between these physiological states, replicates of microarray data were accomplished in similar conditions between bacteria cultivated in free-life (succinate-ammonia) and those carrying on nitrogen fixation inside nodule.

Organism:

Rhizobium etli CFN 42

Type:

Expression profiling by array

Platform:

GPL10081

3 Samples

Download data: TXT

(Submitter supplied) A core component of the α-proteobacterial general stress response is the extracytoplasmic function (ECF) sigma factor EcfG, exclusively present in this taxonomic class. Half of the completed α-proteobacterial genome sequences contain two or more copies of genes encoding σEcfG-like sigma factors, with the primary copy typically located adjacent to genes coding for a cognate anti-sigma factor (NepR) and two-component response regulator (PhyR). more...

Organism:

Rhizobium etli CFN 42

Type:

Expression profiling by array

Platform:

GPL18097

4 Samples

Download data: PAIR

(Submitter supplied) Growth inhibition of Rhizobium etli and other organisms by exogenous OA has not been previously reported. We conducted genome-wide transcriptomic analysis to determine the possible mechanism by which OA exerts its growth-inhibitory effect on R. etli CE3. The observed changes fall into several broad categories. First, the decreased expression of genes involved in protein synthesis (including ribosomal genes), replication and energy production indicates that the cells arrest or at least slow their growth, which agrees with the observed growth arrest induced by OA. The upregulation of a key enzyme (PrsAch) for 5'-phosphoribosyl-1'-pyrophosphate (PRPP) synthesis suggests that cells exposed to OA suffer PRPP deprivation. more...

Organism:

Rhizobium etli CFN 42

Type:

Expression profiling by array

Platform:

GPL10081

3 Samples

Download data: TXT

(Submitter supplied) Gene expression during stationary phase and symbiosis of R. etli CFN42 was compared to that of exponentially growing cells. This allowed us to better understand how R. etli adapts to a non-growing lifestyle, both the free-living and symbiotic state, as well as to determine to what extent this adaptation is similar in both states.

Organism:

Rhizobium etli CFN 42

Type:

Expression profiling by array

Platform:

GPL9409

3 Samples

Download data: GFF, TXT

(Submitter supplied) The impact on gene expression by the alarmone (p)ppGpp during growth and non-growth was determined by comparing the transcriptome of R. etli CFN42 wild type and rel mutant. This allowed us to better understand the pleiotropic stress phenotype of the rel mutant as well as identifying specific (p)ppGpp-dependent stress regulators.

Organism:

Rhizobium etli CFN 42

Type:

Expression profiling by genome tiling array

Platform:

GPL9409

6 Samples

Download data: GFF, TXT

(Submitter supplied) The NifA-RpoN complex is a master regulator of the nitrogen fixation genes in alpha-proteobacteria. Based on the complete Rhizobium etli genome sequence, we constructed the R. etli CFN42 oligonucleotide (70 mer) microarray, and utilized this tool to survey changes in gene expression in R. etli CFN42 wild type compared with NifA CFNX247 mutant strain in symbiosis with Phaseolus vulgaris. As expected, the genes associated with a NifA and RpoN binding sites were downregulated in the NifA mutant strain.

Organism:

Rhizobium etli CFN 42

Type:

Expression profiling by array

Platform:

GPL10081

3 Samples

Download data: TXT

(Submitter supplied) DNA microarray technology was used to survey changes in gene expression in R. etli CFN42 wild type compared with NifA CFNX247 mutant strain under microaerobic (free living) conditions. As expected, several genes associated with a NifA binding site were downregulated in the NifA mutant strain.

Organism:

Rhizobium etli CFN 42

Type:

Expression profiling by array

Platform:

GPL10081

3 Samples

Download data

(Submitter supplied) 89 small non-coding RNAs (ncRNAs) were identified in the soil-dwelling alpha-proteobacterium Rhizobium etli by comparing an extensive compilation of ncRNA predictions to intergenic expression data of a whole-genome tiling array. The differential expression levels of some of these ncRNAs during free-living growth and during interaction with the eukaryotic host plant may indicate a role in adaptation to changing environmental conditions.

Organism:

Rhizobium etli CFN 42

Type:

Non-coding RNA profiling by genome tiling array; Expression profiling by genome tiling array

Platform:

GPL9409

5 Samples

Download data: GFF, TXT

(Submitter supplied) see manufacturer's website

Organism:

Rhizobium etli CFN 42

1 Series

1 Related Platform

4 Samples

Download data: TXT

(Submitter supplied) Whole genome expression microarray for Rhizobium etli CFN42, representing the all open reading frames (ORF) of the chromosome and all 6 plasmids (NC_007761, NC007762, NC_007763, NC_007764, NC_004041, NC_007765, NC_007766), included repeat regions, 70mers, Ctrl probes replicated 8 times, negative control probes replicated 16 times. Protocol: The oligonucleotide Rhizobium etli CFN42 70-mers, were designed by using several ad hoc programs written in PERL and other software as follows: A first program read the DNA sequences corresponding to each of the annotated genes of the R. more...

Organism:

Rhizobium etli CFN 42

5 Series

24 Samples

Download data

(Submitter supplied) Whole genome expression tiling array for Rhizobium etli CFN42, representing the forward strand of the chromosome and all 6 plasmids (NC_007761, NC007762, NC_007763, NC_007764, NC_004041, NC_007765, NC_007766), included repeat regions, 60mers, Ctrl (RNA) probes replicated 50 times, ERCC probes replicated 6 times, probe interval 13bp Protocol: Design ID 6790

Organism:

Rhizobium etli CFN 42

3 Series

1 Related Platform

8 Samples

Download data: NDF, POS, TXT