GEO DataSets

(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) 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) MucR is one of the few transcriptional regulatory proteins that has been linked to Brucella pathogenesis. We used custom-made Affymetrix B. abortus strain 2308 derived GeneChips to copare the gene expression properties of wild type and isogenic mucR mutant cells.

Organism:

Brucella abortus

Type:

Expression profiling by array

Platform:

GPL15577

4 Samples

Download data: CEL, CHP

(Submitter supplied) Expression of virulence genes in pathogenic E. coli is controlled in part by the transcription silencer H-NS and its paralogs (e.g., StpA), which sequester DNA in multi-kb nucleoprotein filaments to inhibit transcription initiation, elongation, or both. Some activators counter-silence initiation by displacing H-NS from promoters. How H-NS inhibition of elongation is overcome is not understood. In uropathogenic E. more...

Organism:

Escherichia coli CFT073; Escherichia coli

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL16085 GPL32598

97 Samples

Download data: BW

(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) Purpose:To uncover the related mechanisms underlie virulence attenuation of Brucella canis MucR mutant strain. Methods:Three Brucella canis RM6/66 strains and three Brucella canis ΔmucR strains were grown in TSB at 37℃ until the log phase was reached, total RNA was isolated using the TRIzol according to the manufacturer’s instructions.The sequencing library of each RNA sample was prepared by using NEB Next Ultra Directional RNA Library Prep Kit for Illumina as recommended by the manufacturer. more...

Organism:

Brucella canis

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28970

6 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) Bacteria coordinate cellular behaviors using a cell-cell communication system termed quorum sensing. In Vibrio harveyi, the master quorum sensing transcriptional factor LuxR directly regulates >100 genes in response to changes in population density. Here, we show that LuxR derepresses quorum sensing loci by competing with H-NS, a global transcriptional repressor that oligomerizes on DNA to form filaments and bridges. more...

Organism:

Vibrio campbellii

Type:

Expression profiling by high throughput sequencing

Platform:

GPL27117

12 Samples

Download data: TXT

(Submitter supplied) Bacteria coordinate cellular behaviors using a cell-cell communication system termed quorum sensing. In Vibrio harveyi, the master quorum sensing transcriptional factor LuxR directly regulates >100 genes in response to changes in population density. Here, we show that LuxR derepresses quorum sensing loci by competing with H-NS, a global transcriptional repressor that oligomerizes on DNA to form filaments and bridges. more...

Organism:

Vibrio campbellii

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL27117

5 Samples

Download data: TXT

(Submitter supplied) Many pathogenic bacteria use a regulatory process termed Quorum Sensing (QS) to produce and detect small diffusible molecules to synchronize gene expression within a population. In Gram-negative bacteria, the detection and response to these molecules depend on transcriptional regulators belonging to the LuxR family. Such a system have been discovered in the intracellular pathogen Brucella melitensis, a Gram-negative bacteria responsible for brucellosis, a word-wide zoonosis remaining a serious public health concern in endemic countries. more...

Organism:

Brucella melitensis bv. 1 str. 16M

Type:

Expression profiling by array

Platform:

GPL5730

3 Samples

Download data: FTR

(Submitter supplied) The design (.ndf) file and description (.ngd) file are available as Supplementary files (at the foot of this record). Protocol: Microarray design and experimentation were made by NimbleGen Systems, INC from catalogue design for B. melitensis 16M chromosomes I (NC_003317) and II (NC_003318) with 20 probes per gene (10 perfect matches and 10 mismatches). Each probe (24 mer) was replicated three times on chip (design includes random GC probes). more...

Organism:

Brucella melitensis bv. 1 str. 16M

2 Series

9 Samples

Download data: NDF, NGD

(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) We report ChIP-seq and RNA-seq analyses of the Brucella abortus LuxR-type transcription factor VjbR

Organism:

Brucella abortus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL23154

12 Samples

Download data: BW, NARROWPEAK, TSV

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

Organism:

Brucella melitensis bv. 1 str. 16M; Brucella melitensis

Type:

Expression profiling by array

Platform:

GPL7612

30 Samples

Download data: GPR

(Submitter supplied) A mini-microarray containing spotted oligos corresponding to 289 B. melitensis genes was used to identify candidate genes whose transcription is influenced by BlxR. This microarray contains genes encoding the type IV secretion system, flagella, transcriptional regulators, transporters, and proteins involved in outer membrane biogenesis, iron acquisition, and denitrification. RNA was prepared from both B. more...

Organism:

Brucella melitensis

Type:

Expression profiling by array

Platform:

GPL6170

14 Samples

Download data

(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 Pseudomonas aeruginosa quorum-sensing (QS) systems contribute to bacterial homeostasis and pathogenicity. Although many regulators have been characterized to control the production of virulence factors and QS signaling molecules, its detailed regulatory mechanisms still remain elusive. Here, we performed chromatin immunoprecipitation followed by high-throughput DNA sequencing (ChIP-seq) on 10 key QS regulators. more...

Organism:

Pseudomonas aeruginosa

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18644

20 Samples

Download data: TXT