|
| Status |
Public on Nov 08, 2008 |
| Title |
NaCit_4h_rep3 |
| Sample type |
RNA |
| |
|
| Source name |
Pseudomonas syringae DC3000 subjected to NaCit for 4h
|
| Organism |
Pseudomonas syringae pv. tomato str. DC3000 |
| Characteristics |
DC3000 4h
|
| Treatment protocol |
Addition of iron citrate or sodium citrate to increase final concentration by 50 uM
|
| Growth protocol |
Pseudomonas syringae DC3000 was grown in iron limiting medium overnight in bioreactors at a temperature of 25C, supplements were added at OD600 ~0.3
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Samples pelleted and RNA was isolated using Rneasy kit (Qiagen, Carlsbad, CA) following manufacture’s instructions; with the exception that lyzozyme was used at a concentration of 5 mg/ml. RNA was treated with DNase I (Ambion, Austin, TX) to remove residual DNA and then cleaned and concentrated using the MinElute kit (Qiagen)
|
| Label |
Biotin
|
| Label protocol |
Using standard Affymetrix protocols
|
| |
|
| Hybridization protocol |
Using Flexmidi_Euk2v3 fluidics protocol from Affymetrix with a modifcation in wash temperature B on a Fluidic station FS450
|
| Scan protocol |
Scanned on a GeneChip scanner 3000-7G with 4-color upgrade and array autoloader
|
| Description |
none
|
| Data processing |
microarray data was processed using gcrma v2.10 in R
|
| |
|
| Submission date |
Nov 06, 2008 |
| Last update date |
Nov 07, 2008 |
| Contact name |
Philip Alan Bronstein |
| E-mail(s) |
[email protected]
|
| Phone |
607 255-7876
|
| Organization name |
USDA-ARS
|
| Department |
Plant Microbe Interaction Research Unit
|
| Street address |
Cornell University Plant Science Building RM334
|
| City |
Ithaca |
| State/province |
NY |
| ZIP/Postal code |
14853 |
| Country |
USA |
| |
|
| Platform ID |
GPL7590 |
| Series (1) |
| GSE13500 |
Iron regulation in P. syringae DC3000 |
|
