Development and analysis of a 20K SNP array for potato (Solanum tuberosum): an insight into the breeding history.

ABSTRACT:

Key message

A 20K SNP array was developed and a comprehensive set of tetraploid cultivar was genotyped. This allowed us to identify footprints of the breeding history in contemporary breeding material such as identification of introgression segments, selection and founder signatures. A non-redundant subset of 15,138 previously identified SNPs and 4454 SNPs originating from the SolCAP project were combined into a 20k Infinium SNP array for genotyping a total of 569 potato genotypes. In this study we describe how this SNP array (encoded SolSTW array) was designed and analysed with fitTetra, software designed for autotetraploids. Genotypes from different countries and market segments, complemented with historic cultivars and important progenitors, were genotyped. This comprehensive se

SUBMITTER: Vos PG 

PROVIDER: S-EPMC4636999 | biostudies-literature | 2015 Dec

REPOSITORIES: biostudies-literature