GEO DataSets

(Submitter supplied) Burkholderia thailandensis is a soil-dwelling bacterium that shares many metabolic pathways with the ecologically similar, but evolutionarily distant, Pseudomonas aeruginosa. Among the diverse nutrients it can utilize is choline, which can be converted into the osmoprotectant glycine betaine and further catabolized as a source of carbon and nitrogen, similar to P. aeruginosa. Orthologs of genes in the choline catabolic pathway in these two bacteria showed distinct differences in gene arrangement as well as an additional orthologous transcriptional regulator in B. more...

Organism:

Burkholderia thailandensis E264

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21888

16 Samples

Download data: XLSX

(Submitter supplied) The sarcosine oxidase locus is controlled by GbdR and SouR independently induced by glycine betaine and sarcosine, respectively. The goal of this study was to identify the members of the SouR regulon. Therefore, the comparison strains were a gbdR mutant and a gbdRsouR double mutant. The conditions for inclusion in the souR regulon were: (i) called present in the array, (ii) changed more than 2.5-fold in signal in a statistically significant manner, (iii) altered in the presence of sarcosine and dependent on souR.

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

8 Samples

Download data: CEL, CHP

(Submitter supplied) Pseudomonas aeruginosa displays tremendous metabolic diversity, controlled in part by the abundance of transcription regulators in the genome. We have been investigating P. aeruginosa’s response to the host, particularly changes regulated by the host-derived quaternary amines choline and glycine betaine (GB). We previously identified GbdR as an AraC-family transcription factor that directly regulates choline acquisition from host phospholipids (via binding to plcH and pchP promoters), is required for catabolism of the choline metabolite GB, and is an activator that induces transcription in response to GB or dimethylglycine. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by array

Platform:

GPL84

12 Samples

Download data: CEL

(Submitter supplied) Pseudomonas aeruginosa encodes a large set of transcriptional regulators which allow to modulate and manage cellular metabolism to survive in variable environmental conditions, including the human body. The AraC family regulators are an abundant group of transcriptional regulators in bacteria, mostly acting as gene expression activators controlling diverse cellular functions e.g. carbon metabolism, stress response and virulence. more...

Organism:

Pseudomonas aeruginosa

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20881

6 Samples

Download data: CSV

(Submitter supplied) Pseudomonas aeruginosa encodes a large set of transcriptional regulators which allow to modulate and manage cellular metabolism to survive in variable environmental conditions, including the human body. The AraC family regulators are an abundant group of transcriptional regulators in bacteria, mostly acting as gene expression activators controlling diverse cellular functions e.g. carbon metabolism, stress response and virulence. more...

Organism:

Pseudomonas aeruginosa

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20881

5 Samples

Download data: BIGWIG

(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:

GPL20881 GPL26913 GPL21297

55 Samples

Download data: BIGWIG

(Submitter supplied) Bacterial small RNAs (sRNAs) regulate gene expression by base-pairing with downstream target mRNAs to attenuate translation of mRNA into protein at the post-transcriptional level. In response to specific environmental changes, sRNAs can modulate the expression levels of target genes, thus enabling adaptation of cellular physiology. We profiled sRNA expression in the Gram-negative bacteria Burkholderia thailandensis cultured under 54 distinct growth conditions using a Burkholderia-specific microarray that contains probe sets to all intergenic regions (IGRs) greater than 90 bases. more...

Organism:

Burkholderia thailandensis E264

Type:

Expression profiling by array

Platform:

GPL18529

162 Samples

Download data: CEL

(Submitter supplied) An important, but rarely performed, test of Koch’s molecular postulates involves evaluating the capacity of candidate virulence genes to confer pathogenicity in otherwise non-virulent species. Unbiased genomic surveys of avirulent natural isolates might reveal rare variants possessing specific virulence features, which might prove useful in testing their functional sufficiency. Using a custom pan-genome array, we analyzed a panel of avirulent Burkholderia thailandensis (Bt) isolates related to Burkholderia pseudomallei (Bp), the causative agent of the often fatal human and animal disease melioidosis. more...

Organism:

Burkholderia thailandensis; Burkholderiales

Type:

Genome variation profiling by genome tiling array

Platform:

GPL9490

49 Samples

Download data: PAIR

(Submitter supplied) creatine regulon is small and electrophoretic mobility shift demonstrates specific CahR binding only at the creA promoter suggesting much of the regulon is due to induction by downstream products. This study identifies ligand specificity and provides biological function to a previously uncharacterized GATR, contributing to our understanding of bacterial organic nitrogen compound metabolism.

Organism:

Pseudomonas putida

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28851

12 Samples

Download data: CSV

(Submitter supplied) Comparison of transcriptomes of wild-type cells and cells deleted for MftR as well as both strain grown in absence and presence of 5 mM urate

Organism:

Burkholderia thailandensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23641

12 Samples

Download data: XLSX

(Submitter supplied) Introduction. Burkholderia thailandensis is a clinically rare opportunistic pathogen in the genus Burkholderia, and the genomic features and virulence characteristics of B. thailandensis strains that cause human infection remain unclear.Gap Statement. B. thailandensis strains with different virulence induce different host innate immune responses in vitro.Aim. This work aimed to understand the sequence diversity, phylogenetic relationship, and virulence of B. more...

Organism:

Burkholderia thailandensis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23641

6 Samples

Download data: TXT

(Submitter supplied) Burkholderia cepacia complex bacteria comprise opportunistic pathogens causing chronic respiratory infections in cystic fibrosis (CF) patients. These microorganisms produce exopolysaccharides which are considered virulence determinants. Here, we report the isolation of an evolved nonmucoid variant (17616nmv) after the ancestor, Burkholderia multivorans ATCC 17616, was subjected to prolonged stationary phase. more...

Organism:

Burkholderia multivorans; Burkholderia cenocepacia J2315; Burkholderia multivorans ATCC 17616

Type:

Expression profiling by array

Platform:

GPL13356

6 Samples

Download data: CEL