GEO DataSets

(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

(Submitter supplied) Burkholderia multivorans comprises opportunistic bacteria infecting hosts such as cystic fibrosis (CF) patients. Bcc long-term infection of CF patient airways has been associated with emergence of phenotypic variation including the mucoid-to-nonmucoid colony morphotype. Here we studied three Burkholderia multivorans clonal isolates (mucoid D2095 (BM11L), and nonmucoid D2214G and D2214P) and a laboratory nonmucoid variant (BM11L-nmv1) obtained under prolonged stationary phase. more...

Organism:

Burkholderia cenocepacia J2315; Burkholderia multivorans; Burkholderia multivorans ATCC 17616

Type:

Expression profiling by array

Platform:

GPL13356

12 Samples

Download data: CEL

(Submitter supplied) Within this work we identified and characterized gene Bmul_2557 (ldhR) of B. multivorans ATCC 17616, a bacterial species associated with chronic respiratory infections in cystic fibrosis patients. LdhR belongs to the LysR-type family of transcriptional regulators and its deletion from the B. multivorans genome affected considerably the formation of planktonic cellular aggregates and surface-attached biofilms.

Organism:

Burkholderia cenocepacia J2315; Burkholderia multivorans; Burkholderia multivorans ATCC 17616

Type:

Expression profiling by array

Platform:

GPL13356

9 Samples

Download data: CEL

(Submitter supplied) In this study the transcriptomes of Acinetobacter baumannii strains ATCC 17978 and 17978hm were compared. Strain 17978hm is a hns knockout derivative of strain ATCC 17978. Strain 17978hm displays a hyper-motile phenotype on semi-solid Mueller-Hinton (MH) media (0.25% agar). ATCC 17978 and 17978hm from an 37C overnight culture were transferred to the centre of the semi-solid MH plate and incubated at 37C for 8 hours. more...

Organism:

Acinetobacter baumannii

Type:

Expression profiling by array

Platform:

GPL11113

4 Samples

Download data: TXT

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

Organism:

Burkholderia cenocepacia J2315; Burkholderia multivorans; Burkholderia multivorans ATCC 17616

Type:

Expression profiling by array; Other

Platform:

GPL13356

10 Samples

Download data: CEL

(Submitter supplied) Burkholderia cepacia complex (Bcc) comprises opportunistic bacteria infecting hosts such as cystic fibrosis (CF) patients. Bcc long-term infection of CF patient airways has been associated with emergence of phenotypic variation. Here we studied two Burkholderia multivorans clonal isolates (D2095 and D2214) displaying different morphotypes from a chronically infected CF patient in order to evaluate traits development during lung infection. more...

Organism:

Burkholderia multivorans; Burkholderia multivorans ATCC 17616; Burkholderia cenocepacia J2315

Type:

Other

Platform:

GPL13356

4 Samples

Download data: CEL, TXT

(Submitter supplied) Burkholderia cepacia complex (Bcc) comprises opportunistic bacteria infecting hosts such as cystic fibrosis (CF) patients. Bcc long-term infection of CF patient airways has been associated with emergence of phenotypic variation. Here we studied two Burkholderia multivorans clonal isolates (D2095 and D2214) displaying different morphotypes from a chronically infected CF patient in order to evaluate traits development during lung infection.

Organism:

Burkholderia multivorans; Burkholderia multivorans ATCC 17616; Burkholderia cenocepacia J2315

Type:

Expression profiling by array

Platform:

GPL13356

6 Samples

Download data: CEL

(Submitter supplied) Cholera is a diarrheal disease caused by Vibrio cholerae of serogroups O1 and O139 that affects impoverished populations worldwide. The histone-like nucleoid structuring protein (H-NS) is a global regulator of environmentally-regulated gene expression that plays a fundamental role in V. cholerae adaptation to disparate ecological niches. We used RNA-seq to characterize the hns transcriptome of El Tor biotype V. more...

Organism:

Vibrio cholerae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19265

8 Samples

Download data: TXT, XLS

(Submitter supplied) Histone-like nucleoid structuring (H-NS) and H-NS-like proteins serve as global gene silencers and work with antagonistic transcriptional activators (counter- silencers) to properly coordinate the expression of virulence genes in pathogenic bacteria. In Brucella, MucR has been proposed as a novel H-NS-like gene silencer, but direct experimental evidence is lacking. Here, we show that MucR serves as an H-NS-like silencer of the Brucella abortus genes encoding the polar autotransporter adhesins BtaE and BmaC, the c-di-GMP-specific phosphodiesterase BpdB, and the quorum-sensing regulator BabR. more...

Organism:

Brucella abortus 2308

Type:

Genome binding/occupancy profiling by high throughput sequencing; Other

Platform:

GPL33491

12 Samples

Download data: CSV, TXT

(Submitter supplied) A handful of nucleoid-associated proteins (NAPs) regulate the vast majority of genes in a bacterial cell. H-NS, the Histone-like Nucleoid-Structuring protein, is one of these NAPs and protects Escherichia coli from foreign gene expression. Though lacking any sequence similarity with E. coli H-NS, Rv3852 was annotated as the H-NS ortholog in Mycobacterium tuberculosis, as it resembles human histone H1. more...

Organism:

Mycobacterium tuberculosis H37Rv

Type:

Expression profiling by high throughput sequencing

Platform:

GPL17280

4 Samples

Download data: TXT

(Submitter supplied) [1] Transcription profiling of one Burkholderia cenocepacia clinical isolate, J2315, versus a soil isolate, HI2424, in conditions mimicking CF sputum [2] Transcription profiling of Burkholderia cenocepacia isolates J2315 and HI2424 in media mimicking CF sputum or the soil environment

Organism:

Burkholderia cenocepacia

Type:

Expression profiling by array

Platform:

GPL8475

8 Samples

Download data: TXT

(Submitter supplied) The bacterial tyrosine (BY) kinase family comprises the major group of bacterial enzymes endowed with tyrosine kinase activity. We have previously shown that the BceF protein from Burkholderia cepacia IST408 belongs to this BY kinase family and is involved in the biosynthesis of the exopolysaccharide cepacian. However, little is known about the extent of regulation in the cell by this kinase protein. more...

Organism:

Burkholderia cepacia; Burkholderia multivorans ATCC 17616; Burkholderia cenocepacia J2315

Type:

Expression profiling by array

Platform:

GPL15600

10 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:

Burkholderiales; Burkholderia thailandensis

Type:

Genome variation profiling by genome tiling array

Platform:

GPL9490

49 Samples

Download data: PAIR

(Submitter supplied) We used NGS to find that the PilS-PilR two component system of P. aeruginosa controls the expression of many non-pilus related genes and has a role in regulating swimming motility

Organism:

Pseudomonas aeruginosa PAK

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24806

9 Samples

Download data: TXT

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

Organism:

Vibrio cholerae

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL34020 GPL28681 GPL31913

76 Samples

Download data: BEDGRAPH, H5, TSV

(Submitter supplied) Vibrio cholerae, the causative agent of the diarrheal disease cholera, poses an ongoing health threat due to its wide repertoire of horizontally acquired elements (HAEs) and virulence factors. New clinical isolates of the bacterium with improved fitness abilities, often associated with HAEs, frequently emerge. The appropriate control and expression of such genetic elements is critical for the bacteria to thrive in different environments. more...

Organism:

Vibrio cholerae

Type:

Expression profiling by high throughput sequencing

Platform:

GPL34020

19 Samples

Download data: H5, R, TSV

(Submitter supplied) Vibrio cholerae, the causative agent of the diarrheal disease cholera, poses an ongoing health threat due to its wide repertoire of horizontally acquired elements (HAEs) and virulence factors. New clinical isolates of the bacterium with improved fitness abilities, often associated with HAEs, frequently emerge. The appropriate control and expression of such genetic elements is critical for the bacteria to thrive in different environments. more...

Organism:

Vibrio cholerae

Type:

Other

Platforms:

GPL28681 GPL31913 GPL34020

57 Samples

Download data: BEDGRAPH, NARROWPEAK

(Submitter supplied) In order to define the role of H-NS in regulating gene transcription and further find out the biological significance of this protein in EHEC, we conducted RNA-seq and then analyzed the transcriptome data, using EHEC O157:H7 strain EDL933 and Δhns. A total of 983 genes were found to be regulated by H-NS. 213 and 770 genes exhibited lower and higher transcript levels in Δhns than in WT, respectively. more...

Organism:

Escherichia coli O157:H7 str. EDL933

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21021

4 Samples

Download data: XLSX

(Submitter supplied) The cholera disease bacterium V. cholerae, can adopt planktonic or biofilm lifestyles depending on the intracellular concentration of the second messenger cyclic diguanylic acid (c-di-GMP). Biofilm formation protects Vibrios from stressful conditions and facilitates disease transmission by enhancing infectivity. The histone-like nucleoid structuring protein (H-NS) is a global regulator of genes associated with pathogenicity and responses to environmental stresses. more...

Organism:

Vibrio cholerae

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL19265

2 Samples

Download data: BED, WIG, XLS

(Submitter supplied) Purpose: Pseudomonas aeruginosa is a Gram-negative opportunistic pathogen that undergoes swarming motility in response to semisolid conditions with amino acids as a nitrogen source. With a genome encoding hundreds of potential intergenic small RNAs (sRNAs), P. aeruginosa can easily adapt to different conditions and stresses. We previously identified 20 sRNAs dysregulated under swarming conditions and here provide phenotypic characterization for these sRNAs. more...

Organism:

Pseudomonas aeruginosa PAO1

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18782

10 Samples

Download data: TXT