Marker Development and and Linkage Map for Y₂, the Gene That Conditions β-Carotene Accumulation in Carrot

The F₄ population 74,146 was derived from a cross between USDA carrot inbred line B493, an orange-rooted line, and QAL (Queen Anne’s Lace), a wild-type white-rooted carrot from the United States.

The TASSEL-GBS pipeline version 4.3.7 was used to call SNPs. The carrot genome assembly v2.0 was used as a reference to identify marker locations. SNPs were filtered for <10% missing data for genotype and marker, >10% minor allele frequency, and no more than two alleles.

The linkage map from this publication can be viewed at 2017 74,146

Data from this analysis can be viewed in JBrowse here.