|
| Status |
Public on Oct 01, 2008 |
| Title |
Crown tissue of Paragon at 9 weeks post germination, biological rep 2 |
| Sample type |
RNA |
| |
|
| Source name |
Paragon crown 9 weeks post-germination (6 weeks vernalisation)
|
| Organism |
Triticum aestivum |
| Characteristics |
variety: Paragon
Grown for three weeks with 14 hour photoperiod; 16°C day 14°C night; PAR = 280 then an additional 6 weeks with declining temp, day-length and light intensity.
|
| Growth protocol |
Seeds were planted in 50:50 potting compost:perlite in 10 cm pots and maintained in growth cabinets with a 14 h photoperiod (PAR 280) and 16°C day/14°C night. After three weeks of these conditions, plants were gradually exposed to a decline in temperature, day-length and light intensity: week 3-4 = 14 h photoperiod (PAR 280), 14°C day/12°C night; week 4-5 = 12 h photoperiod (PAR 185), 14°C day/10°C night;week 5--6 = 11 h photoperiod (PAR 185), 12°C day/10°C night;week 6-7 = 11 h photoperiod (PAR 185), 12°C day/8°C night;week 7-8 = 10 h photoperiod (PAR 95), 10°C day/6°C night;week 8-9 = 9 h photoperiod (PAR 95), 8°C day/4°C night;week 9-10 = 8 h photoperiod (PAR 95), 6°C day/2°C night;week 10-11 = 8 h photoperiod (PAR 95), 4°C day/2°C night;week 11-12 = 8 h photoperiod (PAR 48), 2°C day/2°C night.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions.
|
| Label |
Biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
|
| |
|
| Hybridization protocol |
Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Wheat Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
|
| Scan protocol |
GeneChip Wheat Genome Arrays wee scanned with the GeneChip 3000.
|
| Description |
Plants 9 weeks post-germination; after 3 weeks' growth under standard conditions plants temperature, day-length and light intensity were reduced.
|
| Data processing |
The data were analysed using GeneSpring GX 7.3: raw data was imported from .CEL files and normalised using RMA. Within GeneSpring GX, per gene normalisation to the median was perfored.
|
| |
|
| Submission date |
Jun 12, 2008 |
| Last update date |
Jul 02, 2008 |
| Contact name |
Mark Owen Winfield |
| E-mail(s) |
Mark.Winfield@bristol.ac.uk
|
| Phone |
07753191981
|
| Organization name |
Bristol University
|
| Department |
Biological Sciences
|
| Lab |
OB120
|
| Street address |
Woodland Road
|
| City |
Bristol |
| ZIP/Postal code |
BS8 1UG |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL3802 |
| Series (1) |
| GSE11774 |
Expression data from cold treated wheat cultivars |
|
