|
| Status |
Public on Dec 04, 2007 |
| Title |
Pseudomonas aeruginosa_sodium hypochlorite_replicate2 |
| Sample type |
RNA |
| |
|
| Source name |
Pseudomonas aeruginosa_sodium hypochlorite
|
| Organism |
Pseudomonas aeruginosa |
| Characteristics |
PA01 Wild type
|
| Biomaterial provider |
Dr. E. Peter Greenberg’s laboratory at the University of Iowa
|
| Treatment protocol |
sodium hypochlorite (4.4mM)
|
| Growth protocol |
(i) we initiated P. aeruginosa 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. Then, we added 4.4mM sodium hypochlorite immediately after OD600 reached 0.8.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated after 20 min incubation with sodium hypochlorite using RNeasy Mini kit (Qiagen, Inc., Valencia, CA) 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 150)
|
| Description |
sodium hypochlorite treatment
|
| Data processing |
Affymetrix GeneChip Opererating Software (GCOS) version 1.2
|
| |
|
| Submission date |
Mar 29, 2007 |
| Last update date |
Dec 04, 2007 |
| Contact name |
Matthew Wook Chang |
| E-mail(s) |
matthewchang@ntu.edu.sg
|
| Fax |
+65 6794 7553
|
| URL |
http://www.changlab.com/
|
| Organization name |
Nanyang Technological University
|
| Department |
School of Chemical and Biomedical Engineering
|
| Street address |
62 Nanyang Drive
|
| City |
Singapore |
| ZIP/Postal code |
637459 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL84 |
| Series (1) |
| GSE7402 |
Toxicogenomic analysis of sodium sodium hypochlorite antimicrobial mechanisms in Pseudomonas aeruginosa |
|
