Targeted capture of Anhima cornuta ultra-conserved elements: adult toe pad
We performed a partial UDG treatment on  toe pad extracts, followed by end-repair and adapter ligation. We performed qPCR to determine the optimal cycling for library amplification and indexing using KapaHifi + Uracil following the manufacturers protocol (F. Hoffmann-La Roche AG, Basel, Switzerland). We enriched pooled libraries using the myBaits UCE Tetrapods 5Kv1 kit (Daciel Arbor Biosciences, Ann Arbor, MI), optimized for birds and with improved tiling for historical or ancient sources of avian DNA, following the manufacturers protocol. We amplified pools with 16-18 cycles of PCR followed by adapter-dimer removal using a Qiagen GeneRead Size Selection kit.