Genotyping and genetic map construction for these families have been previously described (Hyma et al. 2015). Briefly, DNA was extracted from one young leaf per vine using the DNeasy® 96 Plant Kit (Qiagen). Genotyping-by-sequencing (GBS) libraries (Elshire et al. 2011) were constructed at 384-plex and sequenced with an Illumina HiSeq 2000 DNA sequencer (single-end, 100 bp read length). SNP calling was performed according to the TASSEL 3.0 GBS pipeline (Glaubitz et al. 2014) using the V. vinifera PN40024 reference genome version 12X.0 (Adam-Blondon et al. 2011; Jaillon et al. 2007). SNP names indicate SNP position on the reference genome coded as S(chromosome)_(position in bp). GBS genotype information was used to identify vines derived from self-pollination or cross-contamination, which were removed from the family dataset. SNP filtering and parental genetic map construction (Table 1) utilized the de novo HetMappS pipeline, using pseudo-testcross markers only (Hyma et al. 2015).Table 1Total genetic map distance and number of SNPs for female and male maps of three Vitis F1 familiesFamily (# individuals)Genetic distance (cM)Number of SNPsFemale mapMale mapFemale mapMale map‘Horizon’ × Illinois 547-1 (366)1286131443165560‘Horizon’ × V. cinerea B9 (162)1347112531181956‘Chardonnay’ × V. cinerea B9 (148)1275129323942177Genetic maps were created using the HetMappS de novo pipeline and curated with R/qtl