GEO DataSets

(Submitter supplied) Anthropogenic pollution has increased the levels of heavy metals in the environment. Bacterial populations continue to thrive in highly polluted environments and bacteria must have mechanisms to counter heavy metal stress. We chose to examine the response of the environmentally-relevant organism Pseudomonas aeruginosa to two different copper treatments. A short, 45 min exposure to copper was done in the Cu shock treatment to examine the immediate transcriptional profile to Cu stress. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Dataset:

GDS2377

Platform:

GPL84

8 Samples

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Analysis of cells subjected to elevated copper (Cu) for 45 minutes (Cu shock) or grown in the presence of elevated Cu for 6 hours (Cu adapted). Industrial activity results in elevated levels of environmental Cu. Results provide insight into the molecular response of P. aeruginosa to Cu stress.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array, count, 2 protocol, 4 stress sets

Platform:

GPL84

Series:

GSE4152

8 Samples

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(Submitter supplied) Through chemical contamination of natural environments, microbial communities are exposed to many different types of chemical stressors; however, research on whole genome responses to this contaminant stress is limited. This study examined the transcriptome response of a common soil bacterium, Pseudomonas aeruginosa, to the common environmental contaminant pentachlorophenol (PCP). Cells were grown in chemostats at a low growth rate to obtain substrate-limited, steady-state, balanced-growth conditions. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

12 Samples

Download data

(Submitter supplied) We investigated fuel specific transcriptomic differences between these strains in order to ascertain the underlying mechanisms utilized by the adapted strain P. aeruginosa ATCC 33988 to jet fuel to Jet-fuel During growth in fuel, the genes related to alkane degradation, heat-shock response, membrane proteins, efflux pumps and several novel genes were upregulated in ATCC 33988

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

8 Samples

Download data: CEL, CHP

(Submitter supplied) The gene PA2384 in Pseudomonas aeruginosa PAO1, annotated originally as unknown function, has been previously shown to be dramatically responsive to iron limitation. In the present study, PA2384 is shown by bioinformatics analysis to have a weak similarity to the N-termini DNA binding domain of fur, a well-known ferric uptake regulator. To experimentally investigate the function of PA2384 P. aeruginosa PAO1 recombinant (pUCP20::PA2384) overexpressing PA2384 and PA2384 knock-out mutant PAO1-23844 are constructed and studied. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Dataset:

GDS1910

Platform:

GPL84

12 Samples

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Analysis of PAO1 strain PA2384 null mutant grown under iron-limiting conditions. PA2384 is responsive to iron limitation and is weakly similar to the ferric uptake regulator fur. RNA extracted from cells at various stages of growth. Results provide insight into the function of PA2384.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array, count, 2 genotype/variation, 3 other sets

Platform:

GPL84

Series:

GSE2885

12 Samples

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(Submitter supplied) Pseudomonas aeruginosa infections can be virtually impossible to eradicate and the evolution of resistance during antibiotic therapy is a significant concern. In this study, we use DNA microarrays to characterize the global transcriptional response of P. aeruginosa to clinical-like doses of the antibiotic ciprofloxacin and also to determine the component that is regulated by LexA cleavage and the SOS response. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Dataset:

GDS2317

Platform:

GPL84

14 Samples

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Analysis of Pseudomonas aeruginosa mutant bearing an uninducible lexA repressor at various time points after treatment with the antibiotic ciprofloxacin. LexA negatively regulates SOS genes. Results provide insight into the role of the SOS pathway in the response to ciprofloxacin.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array, count, 2 strain, 3 time sets

Platform:

GPL84

Series:

GSE5443

14 Samples

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(Submitter supplied) In the present study, we employed Affymetrix Pseudomonas aeruginosa GeneChip arrays to investigate the dynamics of global gene expression profiles during the cellular response of Pseudomonas aeruginosa to ortho-phenylphenol, which involved initial growth inhibition and metabolism. Keywords: Time course

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

12 Samples

Download data: CEL

(Submitter supplied) Virulence factor production and the development of biofilms in Pseudomonas aeruginosa have been shown to be regulated by two hierarchically organised quorum sensing (QS) systems via small acyl-homoserine lactone (AHL) signal molecules. Recently, a third bacterial signal molecule, the Pseudomonas quinolone signal (PQS), has been identified, which positively regulates a subset of genes dependent on the QS systems. more...

Organism:

Pseudomonas aeruginosa PAO1; Pseudomonas aeruginosa

Type:

Expression profiling by array

Dataset:

GDS2764

Platform:

GPL84

12 Samples

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Analysis of Pseudomonas aeruginosa cells treated for up to 20 hours with 3,4-(di)hydroxy-heptyl-quinoline (PQS), a bacterial intercellular signaling molecule. Results provide insight into the role of PQS in the bacterial communication system termed quorum sensing.

Organism:

Pseudomonas aeruginosa; Pseudomonas aeruginosa PAO1

Type:

Expression profiling by array, count, 2 agent, 3 time sets

Platform:

GPL84

Series:

GSE3836

12 Samples

Download data

(Submitter supplied) This study addresses the impact of zinc limitation on the opportunistic human pathogen, Pseudomonas aeruginosa. Zinc limitation was assessed in the P. aeruginosa PAO1 strain using an isogenic deletion mutant lacking the periplasmic, zinc solute-binding protein, znuA (PA5498). ZnuA delivers bound zinc to its cognate ABC transporter, ZnuBC, for import into the cytoplasm. Our transcriptional analyses revealed P. more...

Organism:

Pseudomonas aeruginosa PAO1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18782

2 Samples

Download data: TXT

(Submitter supplied) We analyzed the transcriptional profile of P.aeruginosa PA14 grown under 14 different environmental conditions. These included conditions of growth within biofilms, at various temperatures, osmolarities and phosphate concentrations, under anaerobic conditions, attached to a surface and conditions encountered within the eukaryotic host. We found that >30% of the PA14 genome was differentially regulated at least under one of the 14 environmental conditions (referred to as the adaptive transcriptome). more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18286

47 Samples

Download data: TXT

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

Organism:

Pseudomonas aeruginosa

Type:

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

Platforms:

GPL18286 GPL18287

104 Samples

Download data: TXT

(Submitter supplied) Sigma factors are master regulators of bacterial transcription which direct gene expression of specific subsets of genes. In particular, alternative sigma factors are well-known to be key players of bacterial adaptation to changing environments. To elucidate the regulatory network of sigma factors in P. aeruginosa, an integrative approach including sigma factor-dependent mRNA profiling was performed to define the primary regulon of each sigma factor.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL18287 GPL18286

70 Samples

Download data: CSV, PDF, TXT, XLS

(Submitter supplied) Sigma factors are master regulators of bacterial transcription which direct gene expression of specific subsets of genes. In particular, alternative sigma factors are well-known to be key players of bacterial adaptation to changing environments. To elucidate the regulatory network of sigma factors in P. aeruginosa, an integrative approach including ChIP-seq of 11 polyhistidine-tag sigma factors was performed to define the primary regulon of each sigma factor.

Organism:

Pseudomonas aeruginosa

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL18286 GPL18287

34 Samples

Download data: TXT, XLS

(Submitter supplied) To investigate the gene expression profile of pellicle cells of Pseudomonas aeruginosa, microarray analysis was performed. Transcriptome profiles of pellicle cells and planktonic cells grown in LB medium were determined by Affymetrix GeneChip. Gene expression pattern that is specific to pellicle cells was evaluated by comparing the data set with that of planktonic cells.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

4 Samples

Download data: CEL

(Submitter supplied) Transcriptional profiling of Bacillus subtilis to lethal heat stress by systematic sampling of bacterial cell suspensions exposed to gradually increasing temperatures. Keywords: Stress response

Organism:

Bacillus subtilis

Type:

Expression profiling by array

Platform:

GPL7146

19 Samples

Download data: TXT

(Submitter supplied) Pseudomonas aeruginosa is a common bacterium in the terminal plumbing system of buildings and it is from this niche that a substantial fraction of infections are acquired. To better understand P. aeruginosa biology in this environment, we examined the transcriptomes in tap water and pond water.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

9 Samples

Download data: CEL, CHP