|
| Status |
Public on Oct 07, 2010 |
| Title |
necrotic synthetic wheat-seedling leaf with low temperature-rep2 |
| Sample type |
RNA |
| |
|
| Source name |
synthetic hexaploid wheat
|
| Organism |
Triticum aestivum |
| Characteristics |
tissue: leaf
phenotype: cold-induced hybrid necrosis
|
| Treatment protocol |
Plants were grown at 23°C for 3 weeks, and then incubated at 4°C for 12 weeks.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted, using an RNeasy Plant Mini kit (Qiagen). RNA quality was checked using an Agilent 2100 BioAnalyzer.
|
| Label |
Cy3
|
| Label protocol |
Cyanine-3 (Cy3) labeled cRNA was prepared from 0.5 ug RNA using the Quick Amp Labeling kit (Agilent) according to the manufacturer's instructions. Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.
|
| |
|
| Hybridization protocol |
Hybridization of the Cy3-labeled cRNA to the microarrays and washing were performed using a Gene Expression Hybridization kit and Gene Expression Wash Pack (Agilent Technologies) according to the manufacturer's instructions.
|
| Scan protocol |
Signal intensities were detected by Feature Extraction software (Agilent Technologies). Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner (G2505B) using one color scan setting for 1x44k array slides (Scan Area 61x21.6 mm, Scan resolution 10um, Dye channel is set to Green and Green PMT is set to 100%).
|
| Description |
Gene expression in 3-week-old seedling leaves under low temperature
|
| Data processing |
The scanned images were analyzed with Feature Extraction Software 9.5 (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities. Features flagged in Feature Extraction as Feature Non-uniform outliers were excluded.
|
| |
|
| Submission date |
Oct 06, 2010 |
| Last update date |
Oct 06, 2010 |
| Contact name |
Shigeo Takumi |
| Organization name |
Kobe University
|
| Department |
Graduate School of Agricultural Science
|
| Lab |
Plant Genetics
|
| Street address |
Rokkodai 1-1, Nada
|
| City |
Kobe |
| State/province |
Hyogo |
| ZIP/Postal code |
657-8501 |
| Country |
Japan |
| |
|
| Platform ID |
GPL9805 |
| Series (1) |
| GSE24566 |
Expression profiling of cold-induced hybrid necrosis in triploid hybrids crossed between tetraploid wheat and Aegilops tauschii. |
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