GEO DataSets

(Submitter supplied) The differential gene expressions of rat mucosa colonized with single or multi-species of MRSA or PA were studied using RNA-sequencing of total transcriptome. In multi-species in-vitro biofilms PA partially inhibited SA growth. However, no significant inhibition of MRSA was detected during in-vivo colonization of multi-species in rat bullae. A total of 1797 genes were significantly (p < 0.05) differentially expressed in MRSA or PA or MRSA+PA colonized rat middle ear mucosa with respect to the control. more...

Organism:

Rattus norvegicus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18694

4 Samples

Download data: TXT

(Submitter supplied) The goal of this study was to determine the impact of metal deprivation (such as the metal deprivation induced by calprotectin treatment) on the physiology of Pseudomonas aeruginosa under multiple growth conditions. The RNA-seq analysis was designed to reveal the impact of calprotectin treatment on P. aeruginosa physiology during planktonic growth.

Organism:

Pseudomonas aeruginosa PA14

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21807

6 Samples

Download data: XLSX

(Submitter supplied) Background: Air-pollutants containing toxic particulate matters (PM) deposit in the respiratory tract and increases microbial infections. However, the mechanism underline is not well understood. In this study, we evaluated the effect of urban particles (UP) on S. pneumoniae in-vitro biofilm formation, colonization on Human middle ear epithelium cells (HMEECs) and in mouse nasal cavity and transition to middle ear and lungs. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL16686

4 Samples

Download data: CEL, TXT

(Submitter supplied) Streptococcus pneumoniae is a Gram positive bacterium that causes severe invasive infection such as pneumonia, septicemia, meningitis and otitis media especially in children, the elderly and immune-compromised patients. Pneumococcal colonization and disease is often associated with biofilm formation. Bacteria in biofilms exhibit elevated resistance both to antibiotics and to host defense systems, which often results in persistent and difficult-to-treat infections. more...

Organism:

Streptococcus pneumoniae D39

Type:

Expression profiling by array

Platform:

GPL19709

6 Samples

Download data: GPR

(Submitter supplied) The opportunistic bacterium Pseudomonas aeruginosa is a major nosocomial pathogen causing both devastating acute and chronic persistent infections. During the course of an infection, P. aeruginosa rapidly adapts to the specific conditions within the host. In the present study, we aimed at the identification of genes that are highly expressed during biofilm infections such as in chronically infected lungs of patients with cystic fibrosis (CF), burn wounds and subcutaneous mouse tumours. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Dataset:

GDS4480

Platform:

GPL84

26 Samples

Download data: CEL

Analysis of P. aeruginosa strains isolated from chronically-infected lungs of cystic fibrosis (CF) patients, burn wounds, and a burn wound strain infected-murine tumor model. Results provide insight into the molecular mechanisms underlying chronic biofilm-associated P. aeruginosa infections.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array, transformed count, 4 isolate, 2 other, 5 strain sets

Platform:

GPL84

Series:

GSE25945

26 Samples

Download data: CEL

(Submitter supplied) We analyzed the transcriptome of both S. aureus and P. aeruginosa after 3h of co-culture

Organism:

Pseudomonas aeruginosa; Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL18287 GPL19006 GPL25756

9 Samples

Download data: XLSX

(Submitter supplied) Effect of two different antimicrobial materials, functionalized graphene oxide (GOX), and AGXX® coated on cellulose fibers, on the growth and transcriptome of the clinical MRSA strain S. aureus 04-02981. In addition, we investigated the effect of a third material as a combination of GOX and AGXX® fibers on S. aureus 04-02981

Organism:

Staphylococcus aureus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27158

25 Samples

Download data: TXT

(Submitter supplied) Young adult fer-15;fem-1 Caenorhabditis elegans were infected with Staphylococcus aureus for 8 h to determine the transcriptional host response to Staphylococcus aureus. Analysis of differential gene expression in C. elegans young adults exposed to two different bacteria: E. coli strain OP50 (control), wild-type Staphylococcus aureus RN6390. Samples were analyzed at 8 hours after exposure to the different bacteria. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Platform:

GPL200

6 Samples

Download data: CEL, CHP

(Submitter supplied) Bacterial biofilm infections associated with wounded skin are prevalent, recalcitrant and in urgent need of treatments. Additionally, host responses in the skin to biofilm infections are not well understood. Here we employed a human organoid skin model to explore the transcriptomic changes of thermally-injured epidermis to Methicillin-resistant Staphylococcus aureus (MRSA) biofilm colonization. MRSA biofilm impaired skin barrier function, enhanced extracellular matrix remodelling, elicited inflammatory responses including IL-17, IL-12 family and IL-6 family interleukin signalling and modulated skin metabolism. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20795

16 Samples

Download data: TXT

(Submitter supplied) Interactions between human keratinocytes and secreted factors from Staphylococcus aureus biofilm were investigated using microarray analysis. Relative to control cells, biofilm-secreted factors upregulated cytokine and chemokine genes in keratinocytes. Genes associated with DNA damage and oxidative stress were also induced in keratinocytes treated with secreted factors from S. aureus. Here we show that secreted factors from S. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL4133

14 Samples

Download data: GPR

(Submitter supplied) Interactions between human keratinocytes and secreted factors from Staphylococcus aureus biofilm and planktonic cultures were investigated using microarray analysis. Relative to planktonic secreted factors, biofilm secreted factors up regulated cytokine and chemokine genes in keratinocytes. Genes associated with DNA damage and oxidative stress were also induced in keratinocytes treated with secreted factors from S. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL571

9 Samples

Download data: CEL, CHP

(Submitter supplied) We present the set of pseudomonas responsive genes activated in the WT mice in comparison with Sphk2-/- thereby revealing the genes that could contribute to the protection seen in Sphk2-/- mice. Methods: Lung mRNA profiles of 8 week old male wild-type (WT) and Sphingosine kinase 2 knock out (Sphk2−/−) mice were generated by deep sequencing, in triplicate, using Illumina GAIIx. The sequence reads that passed quality filters were analyzed at the transcript isoform level with two way ANOVA (ANOVA). more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

12 Samples

Download data: TXT

(Submitter supplied) Pseudomonas aeruginosa is a threatening, opportunistic pathogen causing disease in immunocompromised individuals. The hallmark of P. aeruginosa virulence is its multi-factorial and combinatorial nature. It renders such bacteria infectious for many organisms and it is often resistant to antibiotics. To gain insights into the physiology of P. aeruginosa during infection, we assessed the transcriptional programs of three different P. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Dataset:

GDS4479

Platform:

GPL84

30 Samples

Download data: CEL

Analysis of three different P. aeruginosa strains isolated from burn wound patients and the same strains using two infection models (a plant model and a murine tumor model). Results provide insight into the molecular mechanisms underlying P. aeruginosa infections.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array, transformed count, 5 isolate, 3 strain sets

Platform:

GPL84

Series:

GSE23007

30 Samples

Download data: CEL

(Submitter supplied) When comparing dNtrB and dNtrC to WT, we identified 790 and 1184 dysregulated genes, respectively. Genes were considered dysregulated if the absolute log2 fold change was greater than 1.5 and an adjusted p value of < 0.05. The large number of commonly DE genes indicated NtrB and C act as a cognate pair. Most notably, there were several dysregulated genes involved in nitrogen and carbon metabolic processes.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18287

9 Samples

Download data: CSV

(Submitter supplied) The goals of this dual-seq experiment were to 1) identify transcriptional changes between mono-species and dual-species biofilms of Candida albicans and Pseudomonas aeruginosa and 2) identify transcriptional changes within mono- or dual-species P. aeruginosa biofilm cells in response to meropenem treatment.

Organism:

Pseudomonas aeruginosa; Candida albicans

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL29746 GPL24583 GPL24129

24 Samples

Download data: XLSX

(Submitter supplied) P. aeruginosa bacteremia in cancer and bone marrow transplant patients transpires when P. aeruginosa colonizes the GI tract and translocates when the host undergoes immunosuppression. We used microarrays to analyze gene expression when P. aeruginosa transitions from being in the drinking water to when it colonizes the murine GI tract. to analyze gene expression changes in P. aeruginosa as it transitions from living in the drinking water to when it colonizes the murine GI tract.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

6 Samples

Download data: CEL, CHP

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

Organism:

Pseudomonas aeruginosa; Pseudomonas aeruginosa PAO1

Type:

Expression profiling by array

Platform:

GPL84

4 Samples

Download data: CEL

(Submitter supplied) Biofilms have been implicated in delayed wound healing, although the mechanisms by which biofilms impair wound healing are poorly understood. Many species of bacteria produce exotoxins and exoenzymes that may inhibit healing. In addition, oxygen consumption by biofilms, as well as responding leukocytes, may impede wound healing. In this study, we used oxygen microsensors to measure oxygen transects through in vitro-cultured biofilms, biofilms formed in vivo within scabs from a diabetic (db/db) mouse model, and ex vivo human chronic wound specimens. more...

Organism:

Pseudomonas aeruginosa; Pseudomonas aeruginosa PAO1

Type:

Expression profiling by array

Platform:

GPL84

2 Samples

Download data: CEL