|
| Status |
Public on Dec 01, 2005 |
| Title |
Arabidopsis_leaf_uvr8-1_mutant_in_UV-B_light_rep2 |
| Sample type |
RNA |
| |
|
| Source name |
leaf, uvr8-1 mutant, UV-B light
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
leafs of plants with uvr8-1 mutation exposed to 4hours of UV-B light
|
| Biomaterial provider |
D. Kliebenstein, University of California, Davis
|
| Treatment protocol |
Plants exposed to 3 micromol m-2 s-1 UV-B (UV-B 313 tubes; Q-Panel, USA) for 4 hours
|
| Growth protocol |
Plants were grown in compost for 3 weeks in 25 micromol m-2 s-1 continuous white light (warm white fluorescent tubes) at 21 oC
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated from leaf tissue using the Purescript kit (Flowgen) according to the manufacturer instructions.
|
| Label |
biotin
|
| Label protocol |
RNA was reverse transcribed using the SuperScript II system (Invitrogen). The oligonucleotide used for priming was 5'-ggccagtgaattgtaatacgactcactatagggaggcgg-(t)24-3', as recommended by Affymetrix. dscDNA was in vitro transcribed to produce biotinylated cRNA using the Affymetrix GeneChip labelling kit.
|
| |
|
| Hybridization protocol |
Biotinylated cRNA was hybridised to Affymetrix Arabidopsis ATH1 GeneChips using the standard Affymetrix procedure (45oC, 60 revs min-1, 16 hrs). Washing and staining were performed in a Fluidics Station 400 (Affymetrics) using Affymetrix protocol EukGE-WS2v4; the chips were stained with Streptavidin Phycoerythrin (SAPE) followed by biotinylated antibody followed by SAPE again.
|
| Scan protocol |
scanned on the Gene Array Scanner 2500 using standard Affymetrix procedures
|
| Description |
Arabidopsis (Landsberg erecta) leafs of plants with uvr8-1 mutation grown for 3 weeks in continuous white light and subsequently exposed to to 4hours of UV-B light
|
| Data processing |
Robust Multichip Average (RMA, module Affy 1.4.32 of Bioconductor)
|
| |
|
| Submission date |
Oct 28, 2005 |
| Last update date |
Oct 28, 2005 |
| Contact name |
Gareth Jenkins |
| E-mail(s) |
[email protected]
|
| Phone |
+44 141 330 5906
|
| Fax |
+44 141 330 4447
|
| URL |
http://www.gla.ac.uk:443/ibls/staff/staff.php?who=P|nGnS
|
| Organization name |
University of Glasgow
|
| Department |
Institute of Biomedical and Life Sciences
|
| Lab |
Plant Science Group
|
| Street address |
Bower Building
|
| City |
Glasgow |
| ZIP/Postal code |
G12 8QQ |
| Country |
United Kingdom |
| |
|
| Platform ID |
GPL198 |
| Series (1) |
| GSE3533 |
UV-B induced genes in wild-type Arabidopsis versus mutants uvr8-1 and hy5-1 using Affymetrix ATH1 array |
|
