|
| Status |
Public on Mar 19, 2007 |
| Title |
Rice coleoptiles, 4 days old, anoxic, REPLICATE 2 (Sample #12) |
| Sample type |
RNA |
| |
|
| Source name |
Rice coleoptiles, 4 days old, anoxic
|
| Organism |
Oryza sativa |
| Characteristics |
Rice coleoptiles, free of leaf tissue. Rice cultivar: Nipponbare Age: 4 days Germination: anoxic, 28°C, darkness
|
| Treatment protocol |
Rice seeds were germinated under anoxia for four days. An enclosed anaerobic work station (Anaerobic System model 1025; Forma Scientific, Marietta, OH) was used to provide an oxygen-free environment for seed germination or seedling incubation. This chamber uses palladium catalyst wafers and desiccant wafers to maintain strict anaerobiosis to less than 10 µg mL–1 O2 (according to the specifications provided by the manufacturer). High-purity N2 was used for purging the chamber initially and the working anaerobic gas mixture was N2:H2 proportioned at 90:10.
|
| Growth protocol |
Rice (Oryza sativa L. cv Nipponbare) seeds were sterilized with diluted bleach (15-min incubation in 1.7% sodium hypochlorite, rinsing and washing in sterile water 10 times) and germinated for four days in ANOXIA on sterile filter paper at 28°C in the dark. All the air/anoxia treatments were performed in the dark at 28°C.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted from the seedling samples using the Ambion RNAqueous kit (Ambion). RNA quality was assessed by agarose gel electrophoresis and spectrophotometry. RNA was processed for use on Affymetrix Rice Genome GeneChip arrays.
|
| Label |
Biotin
|
| Label protocol |
Affymetrix standard labeling protocol
|
| |
|
| Hybridization protocol |
Affymetrix standard hybridization protocol
|
| Scan protocol |
Affymetrix standard scanning protocol
|
| Description |
no additional description required
|
| Data processing |
GC-RMA algorithm
|
| |
|
| Submission date |
Jan 29, 2007 |
| Last update date |
Mar 19, 2007 |
| Contact name |
Pierdomenico Perata |
| E-mail(s) |
[email protected]
|
| Phone |
+39050881901
|
| Organization name |
Sant'Anna School of Advanced Studies
|
| Department |
Institute of Life Sciences
|
| Lab |
PlantLab
|
| Street address |
Via Guidiccioni 8-10
|
| City |
San Giuliano Terme |
| State/province |
Pisa |
| ZIP/Postal code |
56010 |
| Country |
Italy |
| |
|
| Platform ID |
GPL2025 |
| Series (1) |
| GSE6908 |
Transcript Profiling of the Aerobic and Anoxic Rice Coleoptile |
|
