title: UCE target enrichment of Camponotus_nossibeensis_MAMI0153_CASENT0840779_GAGATACG+CGAAGTCA [Raw reads]
design: Samples were extracted using Qiagen DNeasy extraction kits. DNA was sheared to 400-600 bp using a QSoncia Q800R sonicator. Genomic libraries were prepared using Kapa Hyper Prep Kits (1/4 volume reactions) and iTru, 8bp dual-indexing adapters (Glenn et al. 2019). Samples were pooled into pools of 10 or 11 samples and enriched for ultraconserved elements (UCEs) using an ant-customized RNA bait set (Arbor Biosciences; ant-specific hym-v2) that includes 9,898 baits (120 mer) targeting 2,524 UCE loci shared across Hymenoptera and a set of legacy markers (Branstetter et al. 2017). Enriched pools were pooled together (up to 102 individual samples) and shipped to the University of Utah genomics core facility for sequencing on an Illumina NovaSeq 6000 instrument (2x125 bp v4 chemistry). For trimming raw reads, use i7:GATCGGAAGAGCACACGTCTGAACTCCAGTCAC*ATCTCGTATGCCGTCTTCTGCTTG and i5:AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGT*GTGTAGATCTCGGTGGTCGCCGTATCATT, where * indicates the index sequence.