cultivar: Garganega clone: 4 tissue: Berries vineyard (soil type, location): Volcanic, Hill - Vineyard 1 sampling time points: Stage 2, 14 days after Veraison
Growth protocol
Grapevine (Vitis vinifera cv Garganega, clone 4) samples were collected from four vineyards during the 2013 growing season at the same time of day (~10:30 AM). The parral training system rows were north-south oriented, and SO4 was used as the rootstock. The chosen vineyards were located in different areas of the Soave production region (Verona, Italy) featuring diverse growing conditions, such as altitude and soil composition.
Extracted molecule
total RNA
Extraction protocol
Total RNA was extracted from ~200 mg of pericarp (berry without seeds) using the Spectrum™ Plant Total RNA kit (Sigma-Aldrich, St. Louis, MO) with some modifications as reported in Fasoli, et al. (2012). RNA quality and quantity were assessed using a Nanodrop 2000 spectrophotometer (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 a Axon GenePix 4400 A at 532 nm (Cy-3 absorption peak) and GenePix Pro7 software (Molecular Devices, Sunnyvale, CA, USA) according to the manufacturers' instructions.
Description
Vitis vinifera cv Garganega, clone 4
Data processing
Images were analyzed using NimbleScan v2.5 software (Roche), background correction and standard RMA normalization were selected.
