|
| Status |
Public on Apr 01, 2013 |
| Title |
Transgenic harboring a CaMsrB2 overexpression and Bar selection system before water withdrawal (replicate 1) |
| Sample type |
RNA |
| |
|
| Source name |
Transgenic Oryza sativa L. cv. ILMI harboring a CaMsrB2 overexpression and Bar selection system before water withdrawal
|
| Organism |
Oryza sativa |
| Characteristics |
genotype: Transgenic harboring a CaMsrB2 overexpression and Bar selection system
phenotype: Drought-resistent
cultivar: ILMI
treatment: before water withdrawal
|
| Growth protocol |
Wild type and transgenic rice (Oryza sativa L. cv. ILMI) plants were grown under the conditions specified. Sterilized seeds were germinated in Murashige-Skoog (MS) solid medium in a growth chamber in the dark at 28°C for three days followed by in the light at 28°C for one day, transplanted into soil, and grown in a glasshouse (16 h light/8 h dark cycle) at 28-30°C. Each plant was grown in a pot (4x4x5 cm3; six plants per pot) filled with rice nursery soil (Bio-media, Kyeongju, Korea) for 6-week-old after germination. For drought stress, water was removed from the pots of 6-week-old plants, which is treated by water withholding for two days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total and polysomal RNA was extracted using the RNeasy Mini kit (Qiagen Inc., Valencia, CA, USA) and the RNAprotect reagent (Qiagen) and DNA was removed by on-column DNase digestion with the RNase-Free DNase set (Qiagen).
|
| Label |
Cy3
|
| Label protocol |
Labeling was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
|
| |
|
| Hybridization protocol |
Hybridization was performed by NimbleGen Systems Inc., Madison, WI, USA following their standard operating protocol. See www.nimblegen.com.
|
| Scan protocol |
Scanning was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
|
| Description |
Transgenic Oryza sativa L. cv. ILMI harboring a CaMsrB2 overexpression and Bar selection system before water withdrawal (replicate 1)
|
| Data processing |
The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package, version 2.4.27 (Roche NimbleGen, Inc.).
|
| |
|
| Submission date |
Sep 27, 2012 |
| Last update date |
Apr 01, 2013 |
| Contact name |
Yeon-Ki Kim |
| E-mail(s) |
kim750a11@gmail.com
|
| Phone |
82-31-321-6351
|
| Organization name |
GreenGene Biotech Inc.
|
| Department |
GreenGene Biotech Inc.
|
| Lab |
Genomics & Genetics Ins.
|
| Street address |
38-2 Namdong
|
| City |
Yongin |
| State/province |
Kyonggido |
| ZIP/Postal code |
449-728 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL14568 |
| Series (1) |
| GSE41204 |
Expression analysis of CaMsrB2-transformed rice (Oryza sativa L. cv. ILMI) without/with Bar selection marker under drought stress conditions |
|
