UCE target enrichment of Nylanderia camon _VN01-SKY-76_USNMENT01886559_GGACATCA+CAATAGCC
Genomic DNA was nondestructively extracted using Qiagen DNeasy Blood and Tissue kits (Qiagen, Valencia, CA, USA). UCE libraries were prepared at the Laboratories of Analytical Biology, Smithsonian NMNH (Washington, DC, USA) following Branstetter et al. (2017), targeting up to 2,524 loci. DNA was sheared to 400600 bp using a Qsonica Q800R sonicator, and libraries were constructed with Kapa Hyper Prep kits and TruSeq adapters. Libraries were PCR-amplified, SPRI-cleaned, and pooled equimolarly. All pools were combined into a single pool-of-pools, which was size-selected to 300500 bp using a BluePippin (Sage Science, Beverly, MA, USA). Target enrichment used MYbaits with a 1:4 dilution of the hym-v2-ants probe set. Enriched libraries were validated by qPCR, assessed on an Agilent TapeStation, and sequenced by Admera Health (South Plainfield, NJ, USA) on an Illumina NovaSeq X Plus (2  150 bp flow cell). For trimming raw reads, use i7:GATCGGAAGAGCACACGTCTGAACTCCAGTCAC*ATCTCGTATGCCGTCTTCTGCTTG i5:AATGATACGGCGACCACCGAGATCTACAC*ACACTCTTTCCCTACACGACGCTCTTCCGATCT,where * indicates the index sequence.