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Series GSE69649 Query DataSets for GSE69649
Status Public on Mar 13, 2016
Title The transcriptional profile of deoxycholate-induced sporulation in Clostridium perfringens food poisoning isolate
Platform organism Clostridium perfringens NCTC 8239
Sample organism Clostridium perfringens
Experiment type Expression profiling by array
Summary 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. perfringens strain NCTC8239 co-cultured with human intestinal epithelial Caco-2 cells. In this study, we performed global transcriptome analysis of strain NCTC8239 to elucidate the mechanism to induce sporulation by DCA.
 
Overall design From the 55 contigs of C. perfringens strain NCTC8239, 2778 coding sequences were extracted. We designed a DNA probe by utilizing eArray provided by Agilent Technologies. The custom 8×15K oligonucleotide array, containing 60 mer oligonucleotide probes for 2,778 genes in strain NCTC8239, 2 bacterial control genes: 16S rRNA and 23S rRNA, and 3 human control genes: beta-2-microglobulin, glucuronidase beta and 18S rRNA, were ordered to Agilent Technologies. Each probe was spotted in five-fold on each microarray. Each strain was run in triplicate or quadruplicate.
 
Contributor(s) Yasugi M, Okuzaki D, Sarker MR, Miyake M
Citation(s) 26969700
Submission date Jun 08, 2015
Last update date Mar 15, 2016
Contact name Daisuke Okuzaki
E-mail(s) [email protected]
Phone +81-6-6879-4935
Organization name Osaka univ.
Department Immunology Frontier Research Center
Lab Human Immunology (Single Cell Genomics)
Street address Yamadaoka 3-1
City Suita
State/province Osaka
ZIP/Postal code 565-0871
Country Japan
 
Platforms (1)
GPL20295 Agilent-045370 C. perfringens strain NCTC8239 8*15K array [Probe Name Version]
Samples (48)
GSM1705287 A-0S C. perfringens Caco-2 in S/DMEM(-) 0 h
GSM1705288 D-0S (2) C. perfringens Caco-2 in S/DMEM(-) 0 h
GSM1705289 G-0S C. perfringens Caco-2 in S/DMEM(-) 0 h
Relations
BioProject PRJNA286112

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE69649_RAW.tar 83.9 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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