|
| Status |
Public on Jun 01, 2007 |
| Title |
MLN_ST infected pig, 21 dpi, rep1 |
| Sample type |
RNA |
| |
|
| Source name |
mesenteric lymph nodes, 21d post infected pig
|
| Organism |
Sus scrofa |
| Characteristics |
Age: 7 weeks old pigs were used for this experiment
|
| Treatment protocol |
Fifteen piglets from Salmonella spp.-free sows were weaned at 10 days (d) of age, shipped to the National Animal Disease Center, Ames, IA, and raised in isolation facilities. To confirm that all piglets were free of Salmonella spp. prior to challenge, bacteriological cultures were performed twice on rectal swabs before the experiments. At seven weeks of age, 3 pigs were randomly allocated to the non-infected group and 12 to the infected group. The three non-infected control pigs were necropsied 2 days prior to experimental infection. On day0, pigs in the infected groups were intranasally challenged with 1 x 109 CFU of S. Typhimurium ?4232. A randomly chosen group of three infected pigs were necropsied at each time point of 8 hpi, 24 hpi, 48 hpi and 21 dpi, respectively
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated from ~200 mg of porcine MLN tissues by using the RNeasy Midi kit with on-column RNase-free DNase digestion (Qiagen, Valencia, CA) based on the manufacture’s protocol
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared by the GeneChip® One-Cycle target labeling kit according to the standard Affymetrix protocol from 5 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix)
|
| |
|
| Hybridization protocol |
Following fragmentation, 6.5 microg of cRNA were hybridized for 16 hr at 45C on GeneChip® Porcine Genome Array . GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000 (affymetrix).
|
| Description |
Gene expression data from the mesenteric lymph nodes of Salmonella Typhimurium infected pig, 21 dhpi post-infection
|
| Data processing |
The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100
|
| |
|
| Submission date |
Mar 19, 2007 |
| Last update date |
Jun 01, 2007 |
| Contact name |
Christopher K Tuggle |
| E-mail(s) |
cktuggle@iastate.edu
|
| Phone |
515-294-4252
|
| Fax |
515-294-2401
|
| URL |
http://www.public.iastate.edu/~ans/faculty/tuggle.html
|
| Organization name |
Iowa State University
|
| Department |
Animal Science
|
| Lab |
Molecular Genetics
|
| Street address |
2255 Kildee Hall
|
| City |
Ames |
| State/province |
IA |
| ZIP/Postal code |
50011 |
| Country |
USA |
| |
|
| Platform ID |
GPL3533 |
| Series (1) |
| GSE7313 |
Expression data from non-infected and Salmonella Typhimurium infected mesenteric lymph nodes |
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