Raw demultiplexed UCE sequences of  Polyrhachis limbata_MJ18283
We conducted DNA extraction using the Qiagen DNEasy Blood and Tissue Kit (Qiagen Inc., Valencia, CA, USA) following the protocol of Moreau (2014). After this step, library preparation, sample pooling, UCE enrichment, enrichment verification, final pooling, and Illumina sequencing followed the protocols described in Faircloth et al. (2015). All steps except for Illumina sequencing were conducted in the Field Museum Pritzker Laboratory, after which sample pools were sent to the University of Oregon GC3F iLab for Illumina sequencing on an Illumina HiSeq 4000 (150 bp paired-end reads; Illumina Inc., San Diego, CA, USA). The GC3F iLab also demultiplexed and converted the raw data into FASTQ format.