GEO DataSets

(Submitter supplied) Clonal bacterial populations rely on transcriptional variation across individual cells to commit to specialized states that increase the population’s fitness. Such heterogeneous gene expression is implicated in fundamental microbial processes including sporulation, cell communication, detoxification, substrate utilization, competence, biofilm formation, and motility1. To identify specialized cell states and determine the processes by which they develop, isogenic bacterial populations need to be studied at the single cell level2,3. more...

Organism:

Bacillus subtilis; Escherichia coli; Clostridium perfringens

Type:

Expression profiling by high throughput sequencing

4 related Platforms

8 Samples

Download data: H5

(Submitter supplied) Clostridium perfringens is a Gram-positive anaerobic pathogen that causes multiple diseases in humans and animals. C. perfringens lack flagella but have type IV pili (TFP) and can glide on agar surfaces by forming filaments of cells aligned end to end. When cells are placed on agar surfaces, they become elongated, flexible and have TFP on their surface. To understand the basis of these phenotypes, cells were grown in three types of liquid media and on agar plates with the same medium to compare gene expression using RNA-seq. more...

Organism:

Clostridium perfringens

Type:

Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:

GPL20676

12 Samples

Download data: XLSX

(Submitter supplied) RNA-seq was employed for comparative analysis of the transcriptomes of both the pathogen and the host in C. perfringens-infected murine muscle lesions. The aim was to identify C. perfringens genes that were induced in the host environment and host signaling cascades that were activated in response to a C. perfringens infection.

Organism:

Clostridium perfringens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL23210 GPL20676

9 Samples

Download data: CSV

(Submitter supplied) Clostridium perfringens encodes at least two different quorum sensing (QS) systems, the Agr-like and LuxS, and recent studies have highlighted their importance in the regulation of toxin production and virulence. The role of QS in the pathogenesis of necrotic enteritis (NE) in poultry and the regulation of NetB, the key toxin involved, has not yet been investigated. We have generated isogenic agrB-null and complemented strains from parent CP1, and demonstrated that the virulence of the agrB-null mutant was strongly attenuated in a chicken NE model system, and restored by complementation. more...

Organism:

Clostridium perfringens

Type:

Expression profiling by array

Platform:

GPL23309

3 Samples

Download data: CSV

(Submitter supplied) Purpose: Analyze gene expression of necrotic enteritis C. perfringens in intestinal chicken loops comparing with in vitro conditions

Organism:

Clostridium perfringens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20676

4 Samples

Download data: TXT

(Submitter supplied) We further characterize the VirSR and RevR regulatory networks by profiling the C. perfringens strain JIR325 and its isogenic virR and revR regulatory mutants using strand-specific RNA-seq. Two independent biological replicates were sequenced for each strain, generating more than 90 million sequence reads for each RNA-seq library (wild type, 97,289,148 reads; virR mutant, 116,505,992 reads and revR mutant, 131,811,486 reads). more...

Organism:

Clostridium perfringens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20813

6 Samples

Download data: CSV

(Submitter supplied) Clostridium perfringens type A is a common source of food poisoning in humans. Vegetative cells sporulate in the small intestinal tract and produce a major pathogenic factor, C. perfringens enterotoxin (CPE) during sporulation. Although sporulation plays a critical role in the pathogenesis of food poisoning, the mechanisms to induce in vivo sporulation remain unclear. Bile salts had been identified to mediate sporulation, and we have confirmed deoxycholate (DCA)-induced sporulation in C. more...

Organism:

Clostridium perfringens NCTC 8239; Clostridium perfringens

Type:

Expression profiling by array

Platform:

GPL20295

48 Samples

Download data: TXT

(Submitter supplied) Purpose: Analyze gene expression during C. perfringens colonization in the chicken Transcriptomic profile of mRNA from C. perfrinegns from in vivo and in vitro conditions were determined in biological duplicates by RNA-Seq using Illumina HiSeq 2500

Organism:

Clostridium perfringens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20676

4 Samples

Download data: TXT

(Submitter supplied) In this study we focus on the identification of new genes tentatively involved in sporulation and those that influence properties of spores and their ability to germinate. To this end, the sporulation stages of C. perfringens enterotoxic strain SM101 were characterized based on morphological characteristics and biological indicators. Subsequently, whole genome expression profiling during key stages of the sporulation process was performed using DNA microarrays, and genes were clustered based on their time-course expression profiles during sporulation. more...

Organism:

Clostridium perfringens SM101; Clostridium perfringens

Type:

Expression profiling by array

Platform:

GPL18980

13 Samples

Download data: TXT

(Submitter supplied) Enterotoxin-producing C. perfringens type A is a common cause of food poisonings. The cpe encoding the enterotoxin can be chromosomal (genotype IS1470) or plasmid-borne (genotypes IS1470-like-cpe or IS1151-cpe). The chromosomal cpe-carrying C. perfringens are a more common cause of food poisonings than plasmid-borne cpe-genotypes. The chromosomal cpe-carrying C. perfringens type A strains are generally more resistant to most food-processing conditions than plasmid-borne cpe-carrying strains. more...

Organism:

Clostridium perfringens

Type:

Genome variation profiling by array

Platform:

GPL13971

163 Samples

Download data: GPR

(Submitter supplied) Transcriptional profiling of C. perfringens 13 strain compared with strain 13∆cpe1786 erm after growth in minimal medium with 0.5 mM cystine.

Organism:

Clostridium perfringens

Type:

Expression profiling by array

Platform:

GPL9765

8 Samples

Download data: GPR, XLS

(Submitter supplied) Transcriptionnal profiling of C. perfringens 13 strain comparing growth in minimal medium with 1 mM homocysteine with growth in minimal medium with 0.5 mM cystine.

Organism:

Clostridium perfringens

Type:

Expression profiling by array

Platform:

GPL9765

8 Samples

Download data: GPR, XLS

(Submitter supplied) Strains were differentiated on the basis of hybridization to probes representing strain variable regions in C. botulinum strain ATCC 3502. Probes for selected genes (eg. toxin genes) were also featured on the microarray to allow detection of other serotypes/subtypes.

Organism:

Clostridium argentinense; Clostridium butyricum; Clostridium perfringens; Clostridium botulinum; Clostridium sporogenes; Clostridium baratii; Clostridium botulinum A str. ATCC 3502

Type:

Genome variation profiling by array

Platform:

GPL8538

44 Samples

Download data: TXT

(Submitter supplied) A total of 3,312 67-73mer oligonucleotide probes were designed using OligoWiz software v.2.1.3, representing 3,091 (90.4%) and 2,806 (80.3%) CDSs from the draft genomes of NE-producing strains CP4 and JGS4143, respectively. An additional 23 probes were designed representing various plasmid CDSs and the C. perfringens major and minor toxin genes. Optimal melting temperature, potential cross-hybridization, probe position, secondary structure and low sequence complexity were taken into account in the probe design. more...

Organism:

Clostridium perfringens

1 Series

3 Samples

Download data

(Submitter supplied) TIFN C1056 project. Contains probes for ATCC13124, SM101, strain 13; incomplete: ATCC3626, F4969, JGS1495, JGS1721, JGS1987, NCTC8239; plasmids: pBCNF5603, pCP13, pCP8533etx, pCPF4969, pCPF5603, pCW3, pSM101A, pSM101B Arrays of this design have barcodes that begin with 16031243 or 2531243. Orientation: Features are numbered numbered Left-to-Right, Top-to-Bottom as scanned by an Agilent scanner (barcode on the left, DNA on the back surface, scanned through the glass), matching the FeatureNum output from Agilent's Feature Extraction software. more...

Organism:

Clostridium perfringens

1 Series

13 Samples

Download data: TXT

(Submitter supplied) The DNA microarray contains two probes for all protein-coding sequences in the three genome-sequenced C. perfringens strains (type A strains 13, ATCC13124, and SM101). Protocol: Agilent 60mers. 8x15K.

Organism:

Clostridium perfringens

1 Series

163 Samples

Download data: GAL