GEO DataSets

(Submitter supplied) Two outbreak strains of E. coli O157:H7 differ phylogenetically, in gene content, and in epidemiological characteristics. The working hypothesis in this experiment was that these strains will also differ in the transcription of shared virulence genes. Indeed, following a 30 minute exposure to epithelial cells, strain TW14359 overexpressed major and ancillary virulence genes, relative to strain Sakai.

Organism:

Escherichia coli

Type:

Expression profiling by array

Platform:

GPL7445

1 Sample

Download data: GPR

(Submitter supplied) Transcriptomes of 24 clinical strains of E. coli O157:H7 that differ phylogenetically and by Shiga toxin profiles were compared after 30 min co-incubation with epithelial cells.

Organism:

Escherichia coli

Type:

Expression profiling by array

Platform:

GPL7445

36 Samples

Download data: GPR

(Submitter supplied) The existence of two separate lineages of Escherichia coli O157:H7 has previously been reported, and research indicates that one of these lineages (lineage I) might be more pathogenic towards human hosts. We have previously shown that the more pathogenic lineage expresses higher levels of Shiga toxin 2 (Stx2) than the non-pathogenic lineage II. To evaluate why lineage 2 isolates do not express appreciable levels of toxin, two lineage 2 isolates (FRIK966 and FRIK2000) were chosen as representatives of lineage 2 and whole genome microarrays were performed using Agilent microarrays using the E. more...

Organism:

Escherichia coli

Type:

Expression profiling by array

Platform:

GPL8845

8 Samples

Download data: GPR

(Submitter supplied) Effect of human macrophages phagocytosis on the global transcriptome of EDL933 at different time. Infection of THP-1 with EDL933. Application of SCOTS technique to have cDNA. Hybridation on microarray. Reference: EDL933 in RPMI medium Keywords: stres response, host-bacteria response, time-course

Organism:

Escherichia coli

Type:

Expression profiling by array

Platform:

GPL6178

16 Samples

Download data

(Submitter supplied) Integrating laterally acquired virulence genes into the backbone regulatory network is important for the pathogenesis of Escherichia coli O157:H7, which has captured many virulence genes through horizontal transfer during evolution. GadE is an essential transcriptional activator of glutamate decarboxylase (GAD) system, the most efficient acid resistance mechanism in E. coli. The full contribution of GadE to the acid resistance and virulence of pathogenic E. more...

Organism:

Escherichia coli

Type:

Expression profiling by array

Platform:

GPL7445

20 Samples

Download data: GPR

(Submitter supplied) Escherichia coli O157:H7 strains have been classified into different genotypes based on the presence of specific shiga toxin-encoding bacteriophage insertion sites. Genotypes that are predominant in clinical isolates are named clinical genotypes and those that are isolated mostly from bovine sources are bovine-biased genotypes. To determine whether inherent differences in gene expression could possibly explain the variation in infectivity of these genotypes, we compared the expression patterns of O157:H7 strains isolated from cattle, which belonged to either clinical genotype 1 or bovine-biased genotype 5. more...

Organism:

Escherichia coli

Type:

Expression profiling by array

Platform:

GPL7445

16 Samples

Download data: GPR

(Submitter supplied) Adherence of pathogenic Escherichia coli strains to intestinal epithelia is essential for infection. For enterohemorrhagic E. coli (EHEC) serotype O157:H7, we have previously demonstrated that multiple factors govern this pathogen’s adherence to HeLa cells (39). One of these factors is CadA, a lysine decarboxylase, and this protein has been proposed to negatively regulate virulence in several enteric pathogens. more...

Organism:

Escherichia coli

Type:

Expression profiling by array

Platform:

GPL3154

2 Samples

Download data: CEL, CHP

(Submitter supplied) There is increasing evidence to support a role for sigma factor 54 (RpoN) in the regulation of stress resistance factors and protein secretion systems important to bacterial transmission and pathogenesis. In enterohemorrhagic E. coli O157:H7, acid resistance and type III secretion are essential determinants of gastric passage and colonization. This study thus described the transcriptome of an rpoN null strain of E. more...

Organism:

Escherichia coli; Escherichia coli O157:H7 str. Sakai

Type:

Expression profiling by array

Platform:

GPL7445

8 Samples

Download data: GPR

(Submitter supplied) While significant advances have been made in EHEC pathogenesis, we still do not fully understand the impact of environmental stress on EHEC virulence. During the course of infection, EHEC must evade or overcome several biological barriers, the first of which is the gastric acidity encountered during passage through the stomach. EHEC is remarkable in its ability to tolerate this acidity. There are four different acid resistance systems that provide E. more...

Organism:

Escherichia coli

Type:

Expression profiling by array

Platform:

GPL7001

3 Samples

Download data: TXT

(Submitter supplied) E. coli O157:H7 global gene expression profile is altered during growth in the presence of Hep-2 cells, relative to the absence of cells We used Affymetrix E. coli 2.0 genechips to determine gene expression changes

Organism:

Escherichia coli; Escherichia coli O157:H7

Type:

Expression profiling by array

Platform:

GPL3154

18 Samples

Download data: CEL

(Submitter supplied) RpoS is a conserved stress regulator that plays a critical role in survival under stress conditions in Escherichia coli and other γ-proteobacteria. RpoS is also involved in virulence of many pathogens including Salmonella and Vibrio species. Though well characterized in non-pathogenic E. coli K12 strains, the effect of RpoS on transcriptome expression has not been examined in pathogenic isolates. E. more...

Organism:

Escherichia coli; Escherichia coli O157:H7 str. EDL933

Type:

Expression profiling by array

Platform:

GPL3154

12 Samples

Download data: CEL

(Submitter supplied) Escherichia coli O157:H7 is an important food-borne pathogen that can cause hemorrhagic colitis (HC) and hemolytic-uremic syndrome (HUS) in humans. pO157_Sal, a novel conjugative plasmid is present in a Chinese O157:H7 outbreak strain Xuzhou21. Here we investigated the phenotypic and transcriptional differences between the wild type strain Xuzhou21 and the pO157_Sal cured mutant strain Xuzhou21m. RNA-seq analysis found that all 52 ORFs encoded on pO157_Sal were transcribed. more...

Organism:

Escherichia coli O157:H7

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16748

4 Samples

Download data: XLS, XLSX

(Submitter supplied) Analysis of effect of deletion of the two transcriptional factors KdpE and Cra on gene expression of EHEC 8624

Organism:

Escherichia coli; Escherichia coli 8624

Type:

Expression profiling by array

Platform:

GPL3154

3 Samples

Download data: CEL, CHP

(Submitter supplied) Curli are adhesive fimbriae of Enterobactericaeae and are involved in surface attachment, cell aggregation and biofilm formation. We previously reported that natural curli variants of E. coli O157:H7 (EcO157) displayed distinct acid resistance; however, this difference was not linked to the curli fimbriae per se. Here, we investigated the underlying molecular basis of this phenotypic divergence between the curli variants. more...

Organism:

Escherichia coli; Escherichia coli O157:H7

Type:

Expression profiling by array

Platform:

GPL14768

30 Samples

Download data: TXT

(Submitter supplied) Enterohemorrhagic E. coli (EHEC) colonizes the large intestine and causes attaching and effacing lesions (AE). Most of the genes involved in the formation of AE lesions are encoded within a chromosomal pathogenicity island termed the Locus of Enterocyte Effacement (LEE). The LysR-like transcriptional factor QseA regulates the LEE by binding directly to the regulatory region of ler. Here, we performed transcriptome analyses comparing WT EHEC and the isogenic qseA mutant in order to elucidate the extent of QseA’s role in gene regulation in EHEC. more...

Organism:

Escherichia coli

Type:

Expression profiling by array

Platform:

GPL3154

2 Samples

Download data: CEL, CHP

(Submitter supplied) The study aimed at investigating FlhC mediated gene regulation in E. coli O157:H7 on surface of meat. It also aimed at investigating the phenotypic effect of such a regulation.

Organism:

Escherichia coli O157:H7

Type:

Expression profiling by array

Platform:

GPL13448

5 Samples

Download data: TXT

(Submitter supplied) Minimal processing using chlorinated water washes is a common practice in the fresh produce industry to reduce the microbial load and bacterial pathogens attached on produce surfaces. To evaluate if E. coli O157:H7 strains with different phyllogenetic backgrounds are equally sensitive or display variable resistance to chlorine treatment, we studied the expression profile of Sakai and one 2006 spinach outbreak strain (TW 14359) in response to chlorine and hydrogen peroxide treatment.

Organism:

Escherichia coli; Escherichia coli O157:H7

Type:

Expression profiling by array

Platform:

GPL3154

12 Samples

Download data: CEL, CHP

(Submitter supplied) Bacterial pathogens must be able to both recognize suitable niches within the host for colonization and successfully compete with commensal flora for nutrients in order to establish infection. Ethanolamine (EA) is a major component of mammalian and bacterial membranes and may be used by pathogens as a carbon and/or nitrogen source in the gastrointestinal tract. We examined how EA influences gene expression in the human pathogen enterohemorrhagic Escherichia coli O157:H7 (EHEC). more...

Organism:

Escherichia coli

Type:

Expression profiling by array

Platform:

GPL3154

2 Samples

Download data: CEL, CHP

(Submitter supplied) In E. coli the phosphate homeostasis is regulated by the Pst system and the two-component system PhoB/R. Pathogens like E. coli O157:H7 are responsible for many outbreaks and can be found and survive in poor inorganic phosphate (Pi) environments. To understand global EHEC O157:H7 EDL933 strain responses to Pi-starvation, we compared the transcriptomes of EDL933 the WT strain grown in MOPS Pi rich medium and that grown in MOPS Pi poor medium, using the Affymetrix GeneChip® E. more...

Organism:

Escherichia coli

Type:

Expression profiling by array

Platform:

GPL3154

9 Samples

Download data: CEL

(Submitter supplied) This study characterises large chromosomal rearrangements (LCRs) and their associated phenotypes in E. coli O157 strains. RNA-seq was performed on wildtype strain 9000 and three derivative strains in which LCRs had occurred following experimental bovine colonisation. Gene expression differences between these strains was analysed when each was grown in either LB or M9 media.

Organism:

Escherichia coli O157

Type:

Expression profiling by high throughput sequencing

Platform:

GPL29209

24 Samples

Download data: GTF, TAB