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Series GSE3272 Query DataSets for GSE3272
Status Public on Sep 09, 2005
Title Mouse response to H. pylory
Organism Helicobacter pylori
Experiment type Genome variation profiling by array
Summary Helicobacter pylori infects the stomachs of half of all humans. It has a relatively benign relationship with most hosts, but produces severe pathology, including gastric cancer, in others. Identifying the relative contributions of host, microbial and environmental factors to the outcome of infection has been challenging. Here, we describe one approach for identifying microbial genes that affect the magnitude of host responses to infection. Single colony purified H. pylori isolates were obtained from 25 cases and 71 controls in a Swedish case-control study of gastric cancer. Strains were first phenotyped based on their ability to produce adhesins that recognize two classes of human gastric epithelial receptors. Thirteen binding strains and two non-binding controls were then subjected to whole genome genotyping using H. pylori DNA microarrays. A cohort of 'variable' genes was identified based on a microarray-determined call of 'absent' in at least one member of the strain panel. Each strain was subsequently introduced into two types of germ-free transgenic mice, each programmed to express a different host factor postulated to pose increased risk for development of severe pathology. Expression of biomarkers of host defense was quantitated 4 weeks after inoculation and magnitude of the response correlated with bacterial genotype. The proportion of genes encoding HsdS homologs (specificity subunit of hetero-oligomeric type I restriction-modification systems) was significantly higher in the pool of 18 variable genes whose presence directly correlated with a robust host response than their proportion in the remaining 352 members of the variable gene pool. This suggests that the functions of these HsdS homologs may include control of expression of microbial determinants that affect the extent of gastric responses to this potentially virulent pathogen.
Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc.
Keywords: Logical Set
 
Overall design Computed
 
Contributor(s) Salama N
Citation(s) 12105196
Submission date Sep 08, 2005
Last update date Mar 16, 2012
Organization Stanford Microarray Database (SMD)
E-mail(s) array@genome.stanford.edu
Phone 650-498-6012
URL http://genome-www5.stanford.edu/
Department Stanford University, School of Medicine
Street address 300 Pasteur Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
 
Platforms (1)
GPL15 HP_002
Samples (33)
GSM73593 CA52 vs Tigr/Astra Reference 2
GSM73594 CA8 vs Tigr/Astra Reference 2
GSM73595 control 61:4 genomic DNA vs. Tigr/Astra ref
Relations
BioProject PRJNA92931

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Supplementary data files not provided
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