GEO DataSets

(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) Cell-surface signaling is a sophisticated regulatory mechanism used by gram-negative bacteria to sense signals from outside the cell and transmit them into the cytoplasm. This regulatory system consists of an outer membrane-localized TonB-dependent receptor (TonB-dependent transducer), a cytoplasmic membrane-localized anti-sigma factor and an extracytoplasmic function (ECF) sigma factor. By microarray analysis we have identified the regulons of four novel P. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

8 Samples

Download data: CEL, CHP

(Submitter supplied) Bacterial gene expression is controlled by modifying the promoter affinity of the RNA polymerase (RNAP). This control occurs through the substitution of the RNAP σ subunit and by the interaction with transcription factors. The pathogen Pseudomonas aeruginosa contains several σ factors, including σVreI. This protein belongs to the extracytoplasmic function group of the σ70 family. Expression and activity of σECFs are tightly regulated and only occur in response to specific signals. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21297

2 Samples

Download data: DIFF, TXT, XLS

(Submitter supplied) We analyzed a deletion mutant of the ECF σ factor SigX and applied mRNA profiling to define the SigX dependent regulon in P. aeruginosa in response to low osmolarity medium conditions. Furthermore, the combination of transcriptional data with chromatin immunoprecipitation (ChIP) followed by high-throughput sequencing led to the identification of the DNA binding motif of SigX. Genome-wide mapping of SigX-binding regions revealed enrichment of downstream genes involved in fatty acid biosynthesis, type III secretion, swarming and c-di-GMP signaling. more...

Organism:

Pseudomonas aeruginosa UCBPP-PA14

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL17738 GPL17739

12 Samples

Download data: TXT

(Submitter supplied) Pseudomonas aeruginosa is one of the most common pathogens in hospital-acquired infection, which is tightly controlled by a multi-layered regulatory network including quorum sensing system (QS), type VI secretion system (T6SS) and resistance to host immunity. In the present study, we found that a PA3880 gene, which encodes an unknown protein, acted as a regulator of anaerobic metabolism, response to oxidative stress and virulence in P. more...

Organism:

Pseudomonas aeruginosa PAO1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19430

8 Samples

Download data: XLSX

(Submitter supplied) SbrI and SbrR are an extracytoplasmic function sigma factor and its cognate anti-sigma factor, respectively. To identify the SbrIR regulon, we measured gene expression in wild type PAO1 , PAO1 ∆sbrR, and PAO1 ∆sbrIR mutants using microarrays.

Organism:

Pseudomonas aeruginosa PAO1; Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

8 Samples

Download data: CEL

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

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platforms:

GPL84 GPL21085

20 Samples

Download data: CEL, GPR

(Submitter supplied) PAO1 and FRD1 were cultured planktonically and in biofilms with 10 mM calcium and no added calcium. The transcriptional response to calcium addition was determined for PAO1 cultured planktonically, for FRD1 cultured planktonically, for PAO1 cutured in biofilms, and for FRD1 cultured in biofilms. Pseudomonas aeruginosa is an opportunistic human pathogen that causes severe, life threatening infections in patients with cystic fibrosis (CF), endocarditis, wounds, or with artificial implants. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL21085

16 Samples

Download data: GPR

(Submitter supplied) PAO1 was cultured planktonically to stationary phase with 10 mM calcium and no added calcium. The transcriptional response to calcium addition was determined. Pseudomonas aeruginosa is an opportunistic human pathogen that causes severe, life threatening infections in patients with cystic fibrosis (CF), endocarditis, wounds, or with artificial implants. During CF pulmonary infections, P. aeruginosa often encounters environments where the levels of calcium (Ca2+) are elevated. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

4 Samples

Download data: CEL

(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) Extracytoplasmic function (ECF) sigma factors are known to play an important role in the bacterial response to various environmental stresses. Porphyromonas gingivalis, a prominent etiological agent in human periodontitis, possesses six putative ECF sigma factors. So far, information is limited on an ECF sigma factor, PGN_0319. It has been recently reported that the expression of genes encoding some of the ECF sigma factors including PGN_0319 was affected by hemin availability. more...

Organism:

Porphyromonas gingivalis ATCC 33277; Porphyromonas gingivalis

Type:

Expression profiling by array

Platform:

GPL21477

4 Samples

Download data: TXT

(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) Analysis of a SigX knockout mutant of Pseudomonas aeruginosa H103 strain in minimal medium with glucose as carbon source (M9G). SigX, one of the 19 extra-cytoplasmic function sigma factors of P. aeruginosa, was only known to be involved in transcription of the gene encoding the major outer membrane protein OprF in Pseudomonas aeruginosa. Deletion of the ECF sigma factor sigX gene provide insights into the SigX role in several virulence and biofilm- related phenotypes in Pseudomonas aeruginosa.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

6 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) 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) This SuperSeries is composed of the SubSeries listed below.

Organism:

Bacteroides fragilis NCTC 9343; Bacteroides fragilis 638R

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 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