GEO DataSets

(Submitter supplied) Clostridium difficile is an important nosocomial pathogen and the leading cause of hospital-acquired diarrhea. Antibiotic use is the primary risk factor for the development of C. difficile-associated disease because it disrupts normal protective gut flora and enables C. difficile to colonize the colon. C. difficile damages host tissue by secreting toxins and disseminates by forming spores. The toxin-encoding genes, tcdA and tcdB are part of a pathogenicity locus, which also encodes the gene tcdR that codes for the toxin genes positive regulator. more...

Organism:

Clostridioides difficile

Type:

Expression profiling by high throughput sequencing

Platform:

GPL22304

4 Samples

Download data: XLS

(Submitter supplied) Transcriptionnal profiling of C. difficile 630E strain vs a sigD mutant after 6h of growth in BHI

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL10556

4 Samples

Download data: GPR

(Submitter supplied) This study is based on two microarray datasets, in one hand a phase transition comparison using the expression profiles of 630E strain after 4h and 10h of growth. In other hand a comparison at 10h of growth between a mutant of the sigH gene and the WT strains. This experimental procedure was designed to investigate the effect of sigH in the growth phase transition of Clostridium difficile. This SuperSeries is composed of the SubSeries listed below.

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL10556

8 Samples

Download data: GPR

(Submitter supplied) Transcriptionnal profiling of C. difficile 630E strain vs a sigH mutant after 10h of growth in TY

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL10556

4 Samples

Download data: GPR

(Submitter supplied) Transcriptional profiling of C. difficile 630E strain after 4h vs 10h of growth

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL10556

4 Samples

Download data: GPR

(Submitter supplied) Transcriptionnal profiling of C. difficile R20291 strain vs a R20291 strain after4h 6h 8h 14h 38h of growth in Vivo

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL15218

19 Samples

Download data: GPR, XLS

(Submitter supplied) Transcriptionnal profiling of C. difficile R20291 strain : a wild type strain, a fliC mutant and a fliC mutant complemented after 14h of growth in PY and a wild type strain and a fliC mutant after 14h of mouse infection in Vivo

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL15218

14 Samples

Download data: GPR, XLS

(Submitter supplied) Purpose: A goal of this study was to identify genes induced in the mother cell during Clostridium difficile sporulation (specifically in a σE-, σK-, and SpoIIID-dependent manner). Methods: Whole genome RNA sequencing was performed on wildtype, sigE-, sigK- and spoIIID- C. difficile strains (strain 630 background; JIR8094 = parent strain), and the transcriptional profiles of the different mutants during growth on 70:30 agar plates were determined using an Illumina MiSeq1000. more...

Organism:

Clostridioides difficile 630

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19481

12 Samples

Download data: TXT

(Submitter supplied) Genes encoding the alternative sigma factor SigmaB, involved in the general stress response in firmicutes, as well as its regulators are present in the genome of the enteropathogen Clostridium difficile. We inactivated the sigB gene using the ClosTron technology in order to identify the role of this sigma factor in the physiology of this bacterium. Transcriptomic experiments showed that SigB positively and negatively controlls several genes involved in different cellular processes such as metabolism, sporulation and stress response.

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL18319

4 Samples

Download data: GPR, TXT, XLS

(Submitter supplied) RNAseq and LC/MS metabolomics analysis of C. difficile strain 630 grown in BHIS media with 50% (vol/vol) faecal water added, compared with control BHIS containing only the additional PBS used for prep of Faecal water. Cells grown in biological triplicates to late log phase (T=6h) prior to harvest. Goal was to determine changes in gene expression caused by exposure to Faecal water, and changes in the metabolite profile of faecal water containing medium when incubated with actively growing C. more...

Organism:

Clostridioides difficile 630

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24774

6 Samples

Download data: TXT

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

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL10556

16 Samples

Download data: GPR

(Submitter supplied) transcriptionnal profiling of a ccpA mutant of C. difficile strain JIR8094 comparing growth 10h in 0.5% TY medium with growth 10h in TY medium

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL10556

8 Samples

Download data: GPR

(Submitter supplied) transcriptionnal profiling of a C. difficile strain JIR8094 comparing growth 10h in 0.5% TY medium with growth 10h in TY medium

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL10556

8 Samples

Download data: GPR

(Submitter supplied) Transcriptionnal profiling of C. difficile 630E JIR8094 strain vs a ccpA mutant after 10h of growth in TY

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL10556

8 Samples

Download data: GPR

(Submitter supplied) Transcriptionnal profiling of C. difficile 630E JIR8094 strain vs a ccpA mutant after 10h of growth in TY with 0.5% glucose

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL10556

16 Samples

Download data: GPR

(Submitter supplied) Comparison of ccpA Chromatine immunoprecipitation on chip using 2 strains : JIR8094 (CD630E) wild type strain and a ccpA mutant after 6h of growth in TYG. This experimental procedure was designed to investigate the consensus binding site, CRE, of pleiotropic regulator ccpA.

Organism:

Clostridioides difficile 630; Clostridioides difficile

Type:

Genome binding/occupancy profiling by array

Platform:

GPL15104

3 Samples

Download data: GPR

(Submitter supplied) The S-layer of C. difficile is a paracrystalline array that covers the bacterial cell but its contribution to overall disease remains unclear. A previously described spontaneous slpA-null mutant, FM2.5, with a point mutation in slpA offers the opportunity to study the role of the S-layer in vivo. Here, we confirm our previous observation that this strain is less virulent in vivo despite effectively colonising the host and producing toxin. more...

Organism:

Clostridioides difficile

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25258

28 Samples

Download data: CSV, VCF

(Submitter supplied) Transcriptional profiling of C. difficile 630E strain vs. a sig54 mutant after 6h of growth in TY.

Organism:

Clostridioides difficile

Type:

Expression profiling by array

Platform:

GPL10556

4 Samples

Download data: GPR, TXT, XLS

(Submitter supplied) Systems biology approach of Clostridioides difficile to analyze the temporal changes in the intracellular and extracellular metabolme, transcriptome and proteome along the growth curve in casamino acids medium and the connection to toxin production.

Organism:

Clostridioides difficile 630

Type:

Expression profiling by array

Platform:

GPL25054

16 Samples

Download data: CSV, TXT

(Submitter supplied) Clostridioides difficile, the leading cause of antibiotic-associated diarrhoea worldwide, is a genetically diverse species which can metabolise a number of nutrient sources upon colonising a dysbiotic gut environment. Trehalose, a disaccharide sugar consisting of two glucose molecules bonded by an α 1,1-glycosidic bond, has been hypothesised to be involved in the emergence of C. difficile hypervirulence due to its increased utilisation by the RT027 and RT078 strains. more...

Organism:

Clostridioides difficile R20291

Type:

Expression profiling by high throughput sequencing

Platform:

GPL33395

6 Samples

Download data: XLSX