|
| Status |
Public on Apr 01, 2008 |
| Title |
Pseudomonas aeruginosa_Ortho-Phenylphenol_20min_replicate1 |
| Sample type |
RNA |
| |
|
| Source name |
Pseudomonas aeruginosa_no treatment
|
| Organism |
Pseudomonas aeruginosa |
| Characteristics |
PAO1 Wild type
|
| Biomaterial provider |
Network on Antimicrobial Resistance in Pseudomonas aeruginosa
|
| Treatment protocol |
Ortho-Phenylphenol (0.82 mM)
|
| Growth protocol |
(i) we initiated S. aureus cultures at 37°C with shaking at 250 rpm using sterilized Luria-Bertani (LB) broth, (ii) after 17 hours, we diluted the overnight cultures 1:100 in pre-warmed LB broth and incubated at 37°C with shaking at 250 rpm until OD600 reached the early logarithmic phase (~ 0.8), and (iii) we re-diluted the cells 1:10 in pre-warmed LB broth and incubated at 37°C with shaking at 250 rpm.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated at 0 min after OD600 reached 0.8 using the RiboPure – Bacteria kit (Ambion, Inc., Austin, TX) according to the manufacturer’s protocol.
|
| Label |
Biotin
|
| Label protocol |
Approximately 12 µg of total RNA was processed to produce biotinylated cDNA targets.
|
| |
|
| Hybridization protocol |
Standard Affymetrix procedures
|
| Scan protocol |
Standard Affymetrix procedures (target signal value was 500)
|
| Description |
No treatment
|
| Data processing |
Affymetrix GeneChip Opererating Software (GCOS) version 1.2
|
| |
|
| Submission date |
Feb 21, 2008 |
| Last update date |
Feb 26, 2008 |
| Contact name |
Hyeung-Jin Jang |
| E-mail(s) |
hyeungjin@gmail.com
|
| Phone |
410-305-2937
|
| Fax |
410-305-3091
|
| Organization name |
USEPA
|
| Department |
OPP/BEAD
|
| Lab |
MARL
|
| Street address |
701 Mapes Road
|
| City |
ft. meade |
| State/province |
MD |
| ZIP/Postal code |
20755 |
| Country |
USA |
| |
|
| Platform ID |
GPL84 |
| Series (1) |
| GSE10604 |
Microarray Analysis of Toxicogenomic Effects of Ortho-Phenylphenol on Pseudomonas aeruginosa |
|
