|
| Status |
Public on Aug 02, 2011 |
| Title |
Tobacco psbA deletion mutant, biological rep 1 |
| Sample type |
RNA |
| |
|
| Source name |
Tobacco psbA deletion mutant plant
|
| Organism |
Nicotiana tabacum |
| Characteristics |
tissue: leaf
genotype/variation: psbA mutant
cultivar: Petit Havanna
|
| Treatment protocol |
Leaf samples were collected from the wild, psaA and psbA mutant tobacco plants and immediately frozen in liquid nitrozen.
|
| Growth protocol |
Plants were grown in tissue culture bottles in the selection medium containing spectinomycin (500 mg/L), kept in dim light (25-30 mmol photons m-2 sec-1) 16h (light/8h (dark). Leaves harvested from the plants subcultred for 2-3 weeks were used in transcriptomic studies.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using Spectrum Plant Total RNA Kit (Sigma, USA) from tobacco leaf samples of wild type, psaA and psbA mutants according to the manufacturer’s protocol
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5.0 µg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 µg of cRNA were hybridized for 16 hr at 45°C on tomato GeneChip Genome Array. The arrays were washed and stained using streptavidin phycoerythrin on an Affymetrix fluidics station 450.
|
| Scan protocol |
The tomato GeneChip Genome arrays were scanned on a GeneChip scanner 3000.
|
| Description |
Gene expression data from psbA mutant tobacco plant
|
| Data processing |
After scanning, CEL files were analyzed using GeneSpring GX 11.0 sotware. The GeneChip-Robust Multiarray Average (GC-RMA) algorithm was used for the back ground correction, quantile normalization and median polished probe set summarization to generate single expression value for each probe set. Normalized expression values were log2-transformed.
|
| |
|
| Submission date |
Aug 13, 2010 |
| Last update date |
Aug 02, 2011 |
| Contact name |
Padmalatha K.V. |
| E-mail(s) |
kv.padmalatha@gmail.com
|
| Phone |
09953789208
|
| Organization name |
NRCPB
|
| Department |
Plant Biotechnology
|
| Lab |
Bt.lab
|
| Street address |
Pusa campus
|
| City |
New delhi |
| State/province |
Delhi |
| ZIP/Postal code |
110012 |
| Country |
India |
| |
|
| Platform ID |
GPL4741 |
| Series (1) |
| GSE23626 |
Genome wide expression analysis of psaA and psbA tobacco mutant plants. |
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