In the frame of the PLANT-KBBE2008 " GrapeReSeq " project, an high throughput genotyping Illumina Infinium chip (20K) has been developed.

GrapeReSeq Consortium FAQ (Illumina)

A dataset obtained from the genotyping of a Vitis vinifera cultivated pool (using the SNPs of the 20k chip): see here

Development of a cluster file

A cluster file has been developed from the genotyping of 2278 individuals, 1450 from the Vitis vinifera species and 828 from different Vitis species or interspecific hybrids.

• The summary of the results obtained for each SNP with this set of individuals
  
  GrapeReSeq_SNP Table_all_180413.xlsx 5.86 MB

• The current cluster file with all the SNP. The SNP that we found failed are flagged "AUX=2" in the SNP table provided above (GrapeReSeq_SNP_Table_all_180413.xlsx). The SNP with problematic clusters may give acceptable results in specific populations. They are flagged "AUX=3 to 9" in the SNP table.
  GrapeReSeq_CF-EPGV-v2b.egt 3.03 MB

Development of the 20K loci submitted to Illumina

• GrapeReSeq_Illumina_20K_SNP_chip ( IGA and URGI) : 15K SNPs from Vitis vinifera genotypes and 5K SNPs from Vitis species.

• GrapeReSeq_Illumina_20K_SNP_chip_readme

• Statistics on Vitis vinifera sequences (IGA and URGI)

• Equidistant selected SNPs for Vitis genotypes (URGI)

• Quality control process and cleaning (EPGV INRA; CEA/ IG-CNG)

• Technical Note to designing and ordering iSelect Genotyping Assays (Illumina)