GEO DataSets

(Submitter supplied) Members of the genus Burkholderia are versatile bacteria capable of colonizing highly diverse environmental niches. In this study, we investigated the global response of the opportunistic pathogen Burkholderia cenocepacia H111 to nitrogen limitation at the transcript and protein expression level. In addition to a classical response to nitrogen starvation, including the activation of glutamine synthetase, PII proteins and the two component regulatory system ntrBC, B. more...

Organism:

Burkholderia cenocepacia H111

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16128

5 Samples

Download data: TXT

(Submitter supplied) Burkholderia cenocepacia is a versatile opportunistic pathogen that survives in a wide variety of environments, which can be limited in nutrients such as nitrogen. We previously showed that B. cenocepacia sigma factor s54 played a major role in control of nitrogen assimilation and virulence. In this work, we investigated the role of the s54 enhancer binding protein NtrC in controlling the response to nitrogen limitation and virulence. more...

Organism:

Burkholderia cenocepacia H111

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23128

6 Samples

Download data: TXT

(Submitter supplied) Background: Xylella fastidiosa, a Gram-negative fastidious bacterium, grows exclusively in the xylem of several plants, causing diseases such as citrus variegated chlorosis. As the xylem sap contains low concentrations of amino acids and other compounds, X. fastidiosa needs to cope with nitrogen limitation in its natural habitat. Results: In this work, we performed a whole-genome microarray analysis of the X. more...

Organism:

Xylella fastidiosa

Type:

Expression profiling by array

Platform:

GPL2708

24 Samples

Download data

(Submitter supplied) In this study, we have analysed the transcriptional profile of B. cenocepacia H111 upon artificially altering the global cellular c-di-GMP levels. A total of 111 genes was found to be differentially expressed, of which 96 genes were down-regulated when c-di-GMP concentrations were increased. The BDSF, AHL and c-di-GMP regulons overlap for the regulation of 24 genes. Intriguingly, at a high intracellular c-di-GMP level expression of the AHL synthase cepI was found to be more than 10-fold down-regulated. more...

Organism:

Burkholderia cenocepacia H111

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16128

8 Samples

Download data: TXT

(Submitter supplied) B. cenocepacia is an opportunistic human pathogen that is particularly problematic for patients suffering from cystic fibrosis (CF). In the CF lung, bacteria grow to high densities within the viscous mucus that is limited in oxygen. Pseudomonas aeruginosa, the dominant pathogen in CF patients, is known to grow and survive under oxygen-limited to anaerobic conditions by using micro-oxic respiration, denitrification and fermentative pathways. more...

Organism:

Burkholderia cenocepacia H111

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16128

2 Samples

Download data: TXT

(Submitter supplied) Bacteria generally possess multiple σ factors that, based on structural and functional similarity, divide into two families: σD and σN. Among the seven σ factors in Escherichia coli, six belongs to the σD family. Each σ factor recognizes a group of promoters, providing effective control of differential gene expression. Many studies have shown that σ factors of the σD family compete with each other for function. more...

Organism:

Escherichia coli; Escherichia coli K-12

Type:

Expression profiling by array

Platform:

GPL3154

9 Samples

Download data: CEL, CHP

(Submitter supplied) The Bradyrhizobium japonicum NtrC regulatory protein influences gene expression in response to changes in intracellular nitrogen status. Under conditions of low nitrogen, phosphorylation of NtrC results in up-regulation of a number of genes involved in nitrogen metabolism and nitrogen acquisition. To better define the exact nature of NtrC’s influence on gene expression, a ntrC mutation was created in B. more...

Organism:

Bradyrhizobium diazoefficiens USDA 110; Bradyrhizobium japonicum

Type:

Expression profiling by array

Platform:

GPL5341

24 Samples

Download data: GPR

(Submitter supplied) Analyses of the Wild type and the sigma 54 mutant strain NZ7306 with and without peroxide treatment: A Lactobacillus plantarum strain with a deletion in the alternative sigma factor 54 (?54) encoding gene rpoN, displayed a 100 fold higher sensitivity to peroxide as compared to its parental strain. This feature could be due to ?54-dependent regulation of genes involved in peroxide stress response. However, transcriptome analyses of the wild type and the mutant strain during peroxide exposure did not support such a role for ?54. more...

Organism:

Lactiplantibacillus plantarum; Lactiplantibacillus plantarum WCFS1

Type:

Expression profiling by array

Platform:

GPL6368

10 Samples

Download data

(Submitter supplied) In Burkholderia cenocepacia H111, the large surface protein BapA plays a crucial role in the formation of highly structured communities, known as biofilms. We have recently demonstrated that Quorum sensing (QS) is necessary for the maximal expression of bapA. In this study we identify a protein from the IclR family of transcriptional regulators that, in conjunction with QS, controls biofilm formation by affecting the expression of bapA. more...

Organism:

Burkholderia cenocepacia H111

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16128

2 Samples

Download data: TXT

(Submitter supplied) In this work, high-throughput RNA sequencing was used to assess transcriptomic alteration in Burkholderia cenocepacia K56-2 in the early stages of interaction with host-cell surface. Giant plasma membrane vesicles (GPMVs) from 16HBE14o- bronchial epithelial cell line were produced and used as a cell-like alternative. RNAseq was performed and the expression of the adherent (GPMV-attached) and non-adherent (planktonic control) bacteria were compared. more...

Organism:

Burkholderia cenocepacia

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28995

6 Samples

Download data: TXT

(Submitter supplied) Transcriptional profiling of RNA-seq data from two Burkholderia species grown under conditions mimicking the cystic fibrosis lung and the soil environment

Organism:

Burkholderia cenocepacia

Type:

Expression profiling by high throughput sequencing

Platform:

GPL9702

8 Samples

Download data: TXT, XLS

(Submitter supplied) Members of the diazeniumdiolate class of natural compounds show great potential for drug development. Yet, their biosynthesis has remained elusive to date. Here, we identify a gene cluster directing the biosynthesis of the diazeniumdiolate compound fragin in Burkholderia cenocepacia H111. We provide evidence that fragin is a metallophore and that metal chelation is the molecular basis of its antifungal activity. more...

Organism:

Burkholderia cenocepacia H111

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23128

9 Samples

Download data: TXT