E-GEOD-5198 - Transcription profiling of mouse ileum in response to colonization with a zebrafish or mouse gut microbiota

Status
Submitted on 29 June 2006, released on 13 June 2008, last updated on 27 March 2012
Organism
Mus musculus
Samples (18)
Array (1)
Protocols (2)
Description
We compared gene expression in the small intestine (ileum) of mice that were either (i) germ-free, (ii) colonized with a conventional mouse cecal microbiota, (iii) colonized with a conventional zebrafish gut microbiota, or (iv) colonized with Pseudomonas aeruginosa PAO1. Experiment Overall Design: Adult germ-free NMRI mice were colonized with either (i) a conventional mouse cecal microbiota harvested from adult Swiss-Webster mice (5 biological replicates), (ii) a conventional zebrafish intestinal microbiota harvested from adult C32 zebrafish (3 biological replicates), or (iii) a culture of Pseudomonas aeruginosa PAO1 (5 biological replicates). 14 days after colonization, total RNA was prepared from the ileum of each animal, with total RNA prepared from adult germ-free NMRI mouse ileum serving as negative controls (5 biological replicates). RNA was used as template to generate cRNA for hybridization to Affymetrix 430 v2 Mouse GeneChips.
Experiment types
transcription profiling by array, unknown experiment type
Contact
Citation
Reciprocal gut microbiota transplants from zebrafish and mice to germ-free recipients reveal host habitat selection. John F Rawls, Michael A Mahowald, Ruth E Ley, Jeffrey I Gordon. Cell 127(2):423-33 (2006)
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-5198.idf.txt
Sample and data relationshipE-GEOD-5198.sdrf.txt
Raw data (1)E-GEOD-5198.raw.1.zip
Processed data (1)E-GEOD-5198.processed.1.zip
Array designA-AFFY-45.adf.txt
R ExpressionSetE-GEOD-5198.eSet.r
Links