title: Sequence capture of UCEs for Suzukielus sauteri
design: UCE libraries were prepared using the KAPA Hyper Prep Kit (Kapa Biosystems), using up to 250 ng DNA (i.e., half reaction of manufacturers protocol) as starting material. Ampure XP beads were used for all cleanup steps. For samples containing <250 ng total, all DNA was used in library preparation. Target enrichment was performed on pooled libraries using the MYbaits Arachnida 1.1K version 1 kit (Arbor Biosciences, Ann Arbor, MI) following the Target Enrichment of Illumina Libraries v. 1.5 protocol (http://ultraconserved.org/#protocols). Hybridization was conducted at either 60 or 65 C for 24 hours, with a post-hybridization amplification of 18 cycles. Following an additional cleanup, libraries were quantified using a Qubit fluorometer and equimolar mixes were prepared for sequencing.