SNP Ascertainment
Read clustering and marker filtering produced 8,781 candidate SNPs.
Primer design and testing from SNPs with strong loadings on PCA axes
ultimately produced 325 primer combinations with consistent
amplification, probe-matching patterns, and low cross-locus
interference. These were retained for multiplex in the “Atr325” GT-seq
panel (primers and probes for genotyping in Supplemental Table 1).