Haploid, diploid, and pooled exome capture recapitulate features of biology and paralogy in two non-model tree species

Brandon Lind, Mengmeng Lu, Dragana Obreht Vidakovic, Pooja Singh, Tom Booker, Sally Aikten & Sam Yeaman
Despite their suitability for studying evolution, many conifer species have large and repetitive giga-genomes (16-31Gbp) that create hurdles to producing high coverage SNP datasets that capture diversity from across the entirety of the genome. Due in part to multiple ancient whole genome duplication events, gene family expansion and subsequent evolution within Pinaceae, false diversity from the misalignment of paralog copies creates further challenges in accurately and reproducibly inferring evolutionary history from sequence data. Here, we...
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