DNA extraction, sequencing, and trimming of linkage mapping samples
We extracted DNA from 229 F1 and F2 individuals from the North X South crosses using the Qiagen DNeasy Blood and Tissue kit with optional RNase treatment. Samples underwent SNP library preparation following the ddRAD protocol of Peterson et al. (2012) using PstI and MspIrestriction enzymes. Illumina 75 bp single-end sequences were produced on a NextSeq500 at the University of Alberta Molecular Biology Services Unit. We demultiplexed the resulting sequence reads using theprocess_radtags module of Stacks v2.0 (Catchen et al., 2011; Rochette et al., 2019). Remnant Illumina adapters and the PstIcut site at the 5’ end of each read were trimmed using Cutadapt v1.10 (Martin, 2011). The trimmed length for each read was 62 bp. We have deposited the demultiplexed, trimmed reads for these samples (NCBI BioSamples SAMN17498181-SAMN17498396) into the NCBI Sequence Read Archive under accession PRJNA694171.