RADSeq raw data of Nautilus pompilius: sample Va11
DNA was extracted from ethanol preserved tissue using the DNAeasy Kit (Qiagen) following optimized manufacturer's instruction. Library preparation was conducted following Peterson et al. (2012) with the following modifications: Genomic DNA was digested using high-fidelity restriction enzymes Sbf1 and EcoR1 (New England Biolabs). Resulting fragments were ligated to custom-made P1 and P2 adapters containing sample-specific barcodes and primer annealing sites. Individually barcoded samples were then pooled into libraries and size-selected (320 to 720bp) using a Pippin prep (Sage Science). Each library was then PCR-amplified using Phusion Polymerase, and 14-18 PCR cycles. Resulting libraries were cleaned and size-selected to remove remaining adapters and primers using Agilent beads (ratio 1:0.8). Libraries were multiplexed with more diverse RNA-Seq libraries and paired-end sequenced (150 bp) on an Illumina HiSeq 2500 at the Center for Systems Biology - Harvard University (Cambridge, MA).