Sampling, DNA extraction, Genomic library preparation and sequencing
In 2015 we used a modified chloroform and LiCl precipitation protocol(Gemmell & Akiyama, 1996) to extract gross DNA from the blood of a rescued male black-faced spoonbill (22.88°N and 120.20°E) which was kept in the Taiwan Endangered Species Research Institute.
Libraries with insert size 200 bp, 3 Kb and 5 Kb were constructed (with the Paired-End DNA Sample Prep Kit for the 200 bp library and Mate Pair Library Prep Kit v2 for the 3 Kb and 5 Kb libraries) and sequenced on an Illumina HiSeq 2500 platform by Genomics BioSci & Tech (Taipei, Taiwan). In total, 124 Gb raw reads were generated (table S1).