GEO DataSets

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

Organism:

Bacteroides fragilis 638R; Bacteroides fragilis NCTC 9343

Type:

Expression profiling by array

Platforms:

GPL15187 GPL15188

6 Samples

Download data: CALLS, PAIR

(Submitter supplied) Genome expression study of Bacteroides fragilis strain 638R comparing an ecfO null mutant with an empty vector to a reo (anti-ecfO) null mutant containing the ecfO gene on a plasmid under the control of an IPTG inducible promoter.

Organism:

Bacteroides fragilis 638R

Type:

Expression profiling by array

Platform:

GPL15788

7 Samples

Download data: CALLS, PAIR

(Submitter supplied) Genome expression study of Bacteroides fragilis strain 638R comparing a EcfO/anti-EcfO null mutant with an empty vector to a EcfO/anti-EcfO null mutant containing the EcfO gene on a plasmid under the control of a maltose inducible promoter.

Organism:

Bacteroides fragilis 638R

Type:

Expression profiling by array

Platform:

GPL15188

2 Samples

Download data: CALLS, PAIR

(Submitter supplied) Genome expression study of Bacteroides fragilis strain 638R comparing a EcfO null mutant with an empty vector to a anti-EcfO null mutant containing the EcfO gene on a plasmid under the control of an IPTG inducible promoter.

Organism:

Bacteroides fragilis 638R

Type:

Expression profiling by array

Platform:

GPL15188

2 Samples

Download data: CALLS, PAIR

(Submitter supplied) Genome expression study of Bacteroides fragilis ATCC25285 strain containing the EcfO gene constitutively expressed from plasmid pFD340

Organism:

Bacteroides fragilis NCTC 9343

Type:

Expression profiling by array

Platform:

GPL15187

2 Samples

Download data: CALLS, PAIR

(Submitter supplied) The idea was to examine the role of OxyR in control of the oxidative stress response of B. fragilis when exposed to either atmospheric oxygen, 5% oxygen atmosphere, or hydrogen peroxide Keywords: stress response

Organism:

Bacteroides fragilis; Bacteroides fragilis NCTC 9343

Type:

Expression profiling by array

Platform:

GPL3596

27 Samples

Download data

(Submitter supplied) Genome sequence analysis of the bacterium Xylella fastidiosa revealed the presence of two genes, named rpoE and rseA, predicted to encode an ECF sigma factor and an anti-sigma factor, respectively. In this work, an rpoE null mutant was constructed in the citrus strain J1a12 and shown to be sensitive to exposure to heat shock and ethanol. To identify the X. fastidiosa σE regulon, global gene expression profiles were obtained by DNA microarray analysis of bacterial cells under heat shock identifying 23 sigmaE-dependent genes. more...

Organism:

Xylella fastidiosa

Type:

Expression profiling by array

Platform:

GPL2708

18 Samples

Download data

(Submitter supplied) Like other bacterial species, Mycobacterium tuberculosis has multiple sigma (s) factors encoded in its genome. In previously published work, we and others have shown that mutations in some of these transcriptional activators render M. tuberculosis sensitive to various environmental stresses and, in some cases, cause attenuated virulence phenotypes. In this paper, we characterize a M. tuberculosis mutant lacking the ECF s factor sigma-H. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL2787

15 Samples

Download data: TXT

(Submitter supplied) Abstract of associated manuscript: The Bacillus subtilis extracytoplasmic function (ECF) sigma(M) factor is activated by cell envelope stress elicited by antibiotics, and by acid, heat, ethanol and superoxide stresses. Here, we have used several complementary approaches to identify genes controlled by sigma(M). In many cases, expression is only partially dependent on sigma(M) because of both overlapping promoter recognition with other ECF sigma factors and the presence of additional promoter elements. more...

Organism:

Bacillus subtilis

Type:

Expression profiling by array

Platform:

GPL7420

14 Samples

Download data: GPR

(Submitter supplied) Comparing transciptional profile of a M. smegmatis mc2155 ΔsigF strain and wild type (control) in in vitro culture at two time points (exponential phase and stationary phase) for identification of SigF-dependent genes.

Organism:

Mycolicibacterium smegmatis

Type:

Expression profiling by array

Platform:

GPL5862

8 Samples

Download data: TXT

(Submitter supplied) Comparison of transcriptional profiles of the wild-type (WT) and the phoB-mutant strain in B. fragilis strain YCH46 during phosphate (Pi) starvation.

Organism:

Bacteroides fragilis YCH46; Bacteroides fragilis

Type:

Expression profiling by array

Platform:

GPL13213

4 Samples

Download data: CALLS, PAIR

(Submitter supplied) In previously published work, we identified three Mycobacterium tuberculosis sigma (s) factor genes responding to heat shock (sigB, sigE and sigH ). Two of them (sigB and sigE ) also responded to SDS exposure. As these responses to stress suggested that the s factors encoded by these genes could be involved in pathogenicity, we are studying their role in physiology and virulence. In this work, we characterize a sigE mutant of M. more...

Organism:

Mycobacterium tuberculosis

Type:

Expression profiling by array

Platform:

GPL2787

15 Samples

Download data: TXT

(Submitter supplied) Next to the two-component and quorum sensing systems, cell-surface signaling (CSS) has been recently identified as an important regulatory system in Pseudomonas aeruginosa. CSS senses signals from outside the cell and transmits them into the cytoplasm. It consists of a TonB-dependent outer membrane receptor, a cytoplasmic membrane-localized sigma factor regulator (or anti-sigma factor), and an extracytoplasmic function (ECF) sigma factor. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

4 Samples

Download data: CEL, CHP

(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) Expression data from B. japonicum strains 110spc4 (wild type), 0202 (Dbll1028), 9688 (Dblr3038-39) grown micro-oxically unstressed or stressed with 2 mM H2O2 for 10 min and strain 9692 (Dblr3039) grown micro-oxically

Organism:

Bradyrhizobium diazoefficiens USDA 110; Bradyrhizobium japonicum

Type:

Expression profiling by array

Platform:

GPL3401

21 Samples

Download data: CEL, CHP

(Submitter supplied) In Rhodobacter sphaeroides a transcriptional response to the reactive oxygen species singlet oxygen is controlled by the group IV sigma factor RpoE and the anti-sigma factor ChrR. In this study, we integrated various large datasets to identify genes within the singlet oxygen stress response that contain RpoE-dependent promoters within R. sphaeroides. Transcript pattern clustering and a RpoE-binding sequence model were used to predict candidate promoters that respond to singlet oxygen stress in R. more...

Organism:

Cereibacter sphaeroides 2.4.1

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL10463

6 Samples

Download data: GFF, TXT

(Submitter supplied) Oligo probes are 45bp in average, tiling the genome sequences with about 35-bp overlap between consecutive probes. Every other probe hybridizes to the reverse strand. Native array description file: 2007-06-20_R_sphaeroides_long85_v2.ndf Native array description file: 2007-06-20_R_sphaeroides_long85_v2.pos Protocol: See manufacturer's web site (www.nimblegen.com)

Organism:

Cereibacter sphaeroides 2.4.1

4 Series

21 Samples

Download data: NDF, POS

(Submitter supplied) Bacillus subtilis encodes seven extracytoplasmic function (ECF) sigma factors. Three (sigma M, sigma W and simga X) mediate responses to cell envelope active antibiotics. The functions of sigma Y, sigma Z, sigma V, and YlaC remain largely unknown, and strong inducers of these sigma factors and their regulons have yet to be defined. Here, we define transcriptomic and phenotypic differences under non-stress conditions between strains carrying deletions in all seven ECF sigma factor genes (Δ7ECF), a sigMWX triple mutant (∆MWX), and the parental 168 strain. more...

Organism:

Bacillus subtilis subsp. subtilis str. 168; Bacillus subtilis

Type:

Expression profiling by array

Platform:

GPL188

12 Samples

Download data: GPR, TXT