|
| Status |
Public on Jan 05, 2015 |
| Title |
TU_6_3 |
| Sample type |
RNA |
| |
|
| Source name |
6 h spider mite treatment, bio rep 3
|
| Organism |
Solanum lycopersicum |
| Characteristics |
tissue: 3 terminal leaflets of leaf 3
cultivar: Heinz 1706
age: 1 month old
|
| Treatment protocol |
In time course scenario 100 adult female spider mites were applied onto terminal leaflet of leaf 3 per plant and allowed to feed for 1, 3, 6, 12 or 24 h. In feeding site scenario leaflets were covered with hundreds of mites that were allowed to feed for 1 h.
|
| Growth protocol |
Plants were grown under 200-250 µmol m-2 s-1 cool-white fluorescent light at 25 °C with a 16:8 h (light/dark) photoperiod in controlled growth chambers.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA samples were processed in triplicate from pooled samples of two plants per treatment. 3 terminal leaflets of leaf 3 were used. Total RNA was prepared using the RNeasy Plant RNA extraction kit (Qiagen, Venlo, Netherlands).
|
| Label |
biotin
|
| Label protocol |
Biotin end labeled single strand cDNA was prepared according to the Affymetrix GeneChip Whole Transcript (WT) Sense Target Labelling Assay manual (Affymetrix, Santa Clara, CA).
|
| |
|
| Hybridization protocol |
5.5 ug of single stranded cDNA was hybridized for 16 h at 45 °C on GeneChip EUTOM3 arrays. Arrays were washed and stained in the Affymetrix Fluidics Station 450 (Affymetrix, Santa Clara, CA).
|
| Scan protocol |
Scanning was done following Affymetrix guidelines on a GeneChip Scanner 3000 7G (Affymetrix, Santa Clara, CA).
|
| Description |
Gene expression of tomato plants after 6 h of spider mite herbivory.
|
| Data processing |
CEL files were processed in Bioconductor using RMA workflow with standard settings and GPL16358 platform CDF.
|
| |
|
| Submission date |
Sep 03, 2014 |
| Last update date |
Jan 06, 2015 |
| Contact name |
Vladimir Zhurov |
| E-mail(s) |
vzhurov2@uwo.ca
|
| Organization name |
University of Western Ontario
|
| Department |
Biology
|
| Street address |
1151 Richmond Street
|
| City |
London |
| State/province |
ON |
| ZIP/Postal code |
N6A5B7 |
| Country |
Canada |
| |
|
| Platform ID |
GPL16358 |
| Series (2) |
| GSE61074 |
Whole genome tomato transcriptional response to Tetranychus urticae herbivory [Heinz1706] |
| GSE61076 |
Whole genome tomato transcriptional response to Tetranychus urticae herbivory |
|
