Promyrmekiaphila and outgroup Ultraconserved element data

Ultraconserved element loci were sequenced for phylogenomic, population genomic, and species delimitation analyses for the trapdoor spider genus Promyrmekiaphila. Ultraconserved element (UCE) data was generated following the methods described in Faircloth et al (Faircloth et al., 2012) and further modified in (Hedin et al., 2019; Kulkarni et al., 2020; Starrett et al., 2017). Genomic DNA was extracted from leg tissue using the Blood and Tissue DNeasy kit (Qiagen) and quantified using Qubit. 250 ng of DNA was fragmented to 200-1000 bp using ultrasonication (Covaris). Libraries were generated with the KAPA Hyperprep kit (Roche) with universal adapters and iTru5/7 barcodes (Glenn et al., 2019) (BadDNA UGA) and then hybridized at 60 C for 24 hours to the Spider probeset (Kulkarni et al., 2020) following the version 4 chemistry protocol (Arbor Biosciences). Hybridization enriched library pools were sequenced with 150 bp paired-end reads on the HiSeq4K at the University of California Davis DNA Technologies Core. Additional samples were processed by RAPID Genomics (Gainesville, FL). The new species species Promyrmekiaphila korematsui is formally described and population structure is inferred for P. clathrata.