|
| Status |
Public on Sep 27, 2021 |
| Title |
flg15-sprayed, experiment 2, biological rep2 |
| Sample type |
RNA |
| |
|
| Source name |
Leaves of Solanum lycopersicum 24 hours after spray treatment
|
| Organism |
Solanum lycopersicum |
| Characteristics |
tissue: leaves
treatment: flg15-sprayed
|
| Treatment protocol |
After two weeks from transplanting, plants were sprayed with aqueous solutions of BP178 BP100 or flg 15 at 125 µM, SA and JA at 2.5 mM, to the run-off point.
|
| Growth protocol |
Seeds of tomato plants cv. Rio Grande were sown in hydroponic seed plugs (rockwool), germinated and grown under controlled greenhouse conditions (25±2 ºC, 16 h light/ 15±2 ºC, 8 h dark, and 60% RH). Two-week old seedlings (two cotyledons) were transplanted into Rockwool plugs (7.5x7.5x6.5 cm).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Trizol extraction of total RNA was performed according to the manufacturer's instructions after homogenization using TissueLyzerII system
|
| Label |
biotin
|
| Label protocol |
Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 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 Tomato Gene 1.0 ST Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
|
| Scan protocol |
GeneChips were scanned using the Affymetrix GeneChip Scanner 3000
|
| Data processing |
The microarray gene expression data was analyzed using GeneChip Expression Consol software (Affimetrix). Raw data (.cel files) were imported and processed, using Robust Multiarray Averaging (RMA) background correction, quantile normalization. Pre-processed data was analyzed by the web-base Babelomics (Medina et al., 2010) for gene expression analysis as the ratio of normalized fluorescence value between two compared treatments. This ration was then scaled using base 2 logarithm to obtain the log2 ratio, which in absolute terms is known as fold-change.
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| |
|
| Submission date |
Sep 08, 2021 |
| Last update date |
Sep 27, 2021 |
| Contact name |
Emilio Montesinos |
| E-mail(s) |
emilio.montesinos@udg.edu
|
| Phone |
(+34) 972418476
|
| Organization name |
Universitat de Girona
|
| Department |
INTEA
|
| Lab |
Plant Pathology - CIDSAV
|
| Street address |
c/Pic de Peguera, 15. PCiT. Edif. Jaume Casademont, porta E, 4t pis
|
| City |
Girona |
| State/province |
Girona |
| ZIP/Postal code |
17003 |
| Country |
Spain |
| |
|
| Platform ID |
GPL21525 |
| Series (1) |
| GSE183707 |
Expression data from Solanum lycopersicum after elicitor molecules treatment |
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