Publication Overview
Abstract The apple (Malus × domestica) cultivar Honeycrisp has become important economically and as a breeding parent. An earlier study
with SSR markers indicated the original recorded pedigree of ‘Honeycrisp’ was incorrect and ‘Keepsake’ was identified as one
putative parent, the other being unknown. The objective of this study was to verify ‘Keepsake’ as a parent and identify and
genetically describe the unknown parent and its grandparents. A multi-family based dense and high-quality integrated SNP map
was created using the apple 8 K Illumina Infinium SNP array. This map was used alongside a large pedigree-connected data set from
the RosBREED project to build extended SNP haplotypes and to identify pedigree relationships. ‘Keepsake’ was verified as one
parent of ‘Honeycrisp’ and ‘Duchess of Oldenburg’ and ‘Golden Delicious’ were identified as grandparents through the unknown
parent. Following this finding, siblings of ‘Honeycrisp’ were identified using the SNP data. Breeding records from several of these
siblings suggested that the previously unreported parent is a University of Minnesota selection, MN1627. This selection is no longer
available, but now is genetically described through imputed SNP haplotypes. We also present the mosaic grandparental
composition of ‘Honeycrisp’ for each of its 17 chromosome pairs. This new pedigree and genetic information will be useful in future
pedigree-based genetic studies to connect ‘Honeycrisp’ with other cultivars used widely in apple breeding programs. The created
SNP linkage map will benefit future research using the data from the Illumina apple 8 and 20 K and Affymetrix 480 K SNP arrays.
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