GEO DataSets

(Submitter supplied) Transcriptional profiling in Pseudomonas aeruginosa MPAO1 and its glyoxylate shunt gens transposon insertion mutants (aceA and glcB) was perfomed using microarray analysis with or without 1mM PQ treatment. Based on the gene expression, we investigated role of glyoxylate shunt in P. aeruginosa and found out pathway related with glyoxylate shunt under oxidative stress.

Organism:

Pseudomonas aeruginosa PAO1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21507

12 Samples

Download data: GPR

(Submitter supplied) Transcriptional profiling of P. putida KT2440 cells comparing control untreated wild type cells with untreated recG gene mutant cells or PQ treated recG gene mutant cells

Organism:

Pseudomonas putida KT2440; Pseudomonas putida

Type:

Expression profiling by array

Platform:

GPL10799

4 Samples

Download data: GPR

(Submitter supplied) Transcriptional profiling of P. putida KT2440 cells comparing control untreated cells with PQ or CHP treated cells

Organism:

Pseudomonas putida; Pseudomonas putida KT2440

Type:

Expression profiling by array

Platform:

GPL10799

3 Samples

Download data: GPR

(Submitter supplied) We report the trascriptomic information of wild type (WT) and aceA mutant during the growth on 0.1 % NaAc added MSB media

Organism:

Acinetobacter oleivorans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL15630

2 Samples

Download data: TXT

(Submitter supplied) Trascriptome profiles in the cells of A. aceti wild-type strain and its isogenic aceA glcB mutant during growth in medium contaning ethanol and glucose was determined by NimbleGen Eukaryotic Expression array (4x72K).

Organism:

Acetobacter aceti NBRC 14818

Type:

Expression profiling by array

Platform:

GPL10976

4 Samples

Download data: PAIR

(Submitter supplied) We report 6 genes that were found to be regulated by SoxR in stationary phase when the bacteria produce the antibiotic actinorhodin. Five of these genes are previously confirmed SoxR targets; the sixth is a novel SoxR-target.

Organism:

Streptomyces coelicolor

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17012

6 Samples

Download data: BEDGRAPH, TXT

(Submitter supplied) Obesity is becoming increasingly widespread in developed countries, and is often associated with heart diseases and diabetes. Elevated levels of plasma free fatty acids are a biochemical hallmark of obesity. Unlike plants and bacteria, mammals cannot utilize fatty acids to generate glucose because of the lack of glyoxylate shunt enzymes. Instead, fatty acids are used for energy storage, and their utilization is regulated at multiple levels ranging from hormonal to metabolic ensuring that glucose is preferentially oxidized before fatty acids. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL571

4 Samples

Download data

(Submitter supplied) Differential gene expression was analyzed between B. japonicum wild type (Bj110) and aceA mutant (BjΔaceA) exposed to desiccation stress to find AceA regulons under the culture condition.

Organism:

Bradyrhizobium japonicum; Bradyrhizobium diazoefficiens USDA 110

Type:

Expression profiling by array

Platform:

GPL5341

6 Samples

Download data: GPR

(Submitter supplied) In bacteria the defence system to counter oxidative stress is orchestrated by three transcriptional factors – SoxS, SoxR and OxyR. Although the transcriptional regulon of these factors are known in many bacteria, similar data is not available for K. pneumoniae. To address this data gap, oxidative stress was induced in K. pneumoniae MGH 78578 using paraquat and the corresponding regulon was identified using RNA-seq. more...

Organism:

Klebsiella pneumoniae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25164

6 Samples

Download data: TXT

(Submitter supplied) The cold shock proteins belong to a family of RNA binding proteins presenting a highly conserved domain, called cold shock domain (CSD). They are involved in various cellular processes, including adaptation to low temperature, nutritional stress, cell growth and stationary phase. Here we investigate the role of CspC in C. crescentus stationary phase and the molecular mechanisms underlying gene regulation by this protein. more...

Organism:

Caulobacter vibrioides CB15; Caulobacter vibrioides NA1000

Type:

Expression profiling by array

Platform:

GPL10469

8 Samples

Download data: TXT

(Submitter supplied) Purpose: We aimed to gain more aspects about Stua-regulated processes in T. rubrum by assessing the global gene expression after its growth on keratin or glucose sources. Methods: T. rubrum strain CBS118892 and the null mutant strain ΔstuA were inoculated into 100 mL Sabouraud dextrose broth, and incubated under agitation at 28 °C for 96 h. Mycelia were aseptically transferred into 100 mL minimal medium (MM) at pH 5.0 containing 70 mM nitrate and 50 mM glucose (control) or 0.5% (w/v) bovine keratin (test condition) as an alternative carbon source. more...

Organism:

Trichophyton rubrum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23937

18 Samples

Download data: CSV, TXT

(Submitter supplied) Purpose: We evaluated T. rubrum transcriptome using high-throughput RNA-sequencing (RNA-seq) technology aiming to identify metabolic pathways modulated the development in keratin. Methods: T. rubrum strain CBS118892 was inoculated into 100 mL Sabouraud dextrose broth, and incubated under agitation at 28 °C for 96 h. Mycelia were aseptically transferred into 100 mL minimal medium (MM) at pH 5.0 containing 70 mM nitrate and 50 mM glucose (control) or 0.5% (w/v) bovine keratin (treatment) as the carbon source. more...

Organism:

Trichophyton rubrum

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23937

18 Samples

Download data: CSV, TXT

(Submitter supplied) Investigation of whole genome gene expression level changes in a B. suis 1330 regA mutant, compared to the wild-type strain. The two-component system RegBA of Brucella suis plays a central role in the control of respiratory systems adapted to oxygen deficiency. The mutant strain is affected in long-term persistence in vitro (this study) and in chronic infection in vivo (Abdou, E et al. 2013, Infect.Immun. more...

Organism:

Brucella suis; Brucella suis 1330

Type:

Expression profiling by array

Platform:

GPL22261

6 Samples

Download data: CALLS, PAIR

(Submitter supplied) Pseudomonas aeruginosa harbors sophisticated transcription factor (TF) networks to coordinately regulate cellular metabolic states for rapidly adapting to changing environments. The superior capacity in fine-tuning the metabolic states enables its success in tolerance to antibiotics and evading host immune defenses. However, the linkage among transcriptional regulation, metabolic states, and antibiotic tolerance in P. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26913

8 Samples

Download data: XLSX

(Submitter supplied) Transcriptome analysis was performed in order to better understand the metabolic activity of non-growing cells of Rhodopseudomonas palustris for improve biofuel production.

Organism:

Rhodopseudomonas palustris CGA009

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17852

14 Samples

Download data: TXT

(Submitter supplied) Photosynthetic microbes can produce the clean-burning fuel hydrogen using one of nature’s most plentiful resources, sunlight 1,2. Anoxygenic photosynthetic bacteria generate hydrogen and ammonia during a process known as biological nitrogen fixation. This reaction is catalyzed by the enzyme nitrogenase and consumes nitrogen gas, ATP and electrons 3. One bacterium, Rhodopseudomonas palustris, has a remarkable ability to obtain electrons from green plant-derived material 4,5 and to efficiently absorb both high and low intensity light energy to form ATP 6. more...

Organism:

Rhodopseudomonas palustris

Type:

Expression profiling by array

Platform:

GPL3954

14 Samples

Download data: CEL, EXP

(Submitter supplied) The goals of this project were: to use transcriptomics as a starting point for reverse engineering the NO response network of E. coli, and to identify the targets responsible for NO-induced bacteriostasis. The data is associated with Hyduke DR*, Jarboe LR*, Tran LM, Chou KJY, Liao JC 2007 "Integrated network analysis identifies nitric oxide response networks and dihydroxyacid dehydratase as a crucial target in Escherichia coli. more...

Organism:

Escherichia coli

Type:

Expression profiling by array

Platforms:

GPL5146 GPL5113

43 Samples

Download data: TXT

(Submitter supplied) In order to explore the differentially expressed genes of E. coli O157: H7 after citric acid induced antibiotic tolerance, we artificially induced the antibiotic tolerance of E. coli O157: H7 and verified its phenotype.

Organism:

Escherichia coli

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25368

6 Samples

Download data: TXT

(Submitter supplied) A. baumannii response to arcA disruption

Organism:

Acinetobacter baumannii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19442

2 Samples

Download data: XLSX