cultivar: Corvina tissue: berry pericarp developmental stage: harvest year: 2008 vineyard name: CS vineyard location: Sona macro-area of verdona region: Bardolino vineyard site: 45° 25' 51N ; 10° 49' 11E replica: B
Growth protocol
Vitis vinifera cultivar Corvina clone 48 berries were harvested from 11 different vineyards, each located in one of the three most important wine production macro-areas of the Verona region: Bardolino, Valpolicella and Soave, on the basis of the site geographical coordinates. For each of the selected vineyards, specific environmental conditions (altitude and type of soil) and farming and agricultural practices used (training system, rows facing direction, planting layout, vineyard age and rootstock type) were recorded. Vineyards were selected in order to maximize differences in locations and in microenvironmental and farming conditions.
Extracted molecule
total RNA
Extraction protocol
Total RNA was extracted from ~400 mg of liquid-nitrogen-ground berry pericarp tissue (entire berries without seeds) using the Spectrum™ Plant Total RNA kit (Sigma-Aldrich, St. Louis, MO), with some modifications, as reported in Fasoli et al., 2012 (PMID 22948079). RNA quality and quantity were determined using a NanoDrop 2000 instrument (Thermo Scientific, Wilmington, DE) and a Bioanalyzer Chip RNA 7500 series II (Agilent, Santa Clara, CA).
Label
Cy3
Label protocol
cDNA synthesis and labeling reactions were performed according to the NimbleGen Arrays User's Guide (V 3.2).
Hybridization protocol
Hybridization and washing procedures were performed according to the NimbleGen Arrays User's Guide (V 3.2).
Scan protocol
Each microarray was scanned using an Axon GenePix 4400A at 532 nm (Cy-3 absorption peak) and GenePix Pro7 software (Molecular Devices, Sunnyvale, CA, USA) according to the manufacturers' instructions.
Description
#62_425605_A06_CS083B
Data processing
Images were analyzed using NimbleScan v2.5 software (Roche). Background correction and standard RMA normalization were selected.
