Genotype by Sequencing of Ixodes scapularis: whole adult tick
DNA was submitted to the University of Wisconsin-Madison Biotechnology Center.  DNA concentration was verified using the Quant-iT PicoGreen dsDNA kit (Life Technologies, Grand Island, NY).  Libraries were prepared as in Elshire et al (2011) with minimal modification; in short, 150 ng of DNA was digested PstI and MspI (New England Biolabs, Ipswich, MA) after which barcoded adapters amenable to Illumina sequencing were added by ligation with T4 ligase (New England Biolabs, Ipswich, MA). 96 adapter-ligated samples were pooled and amplified to provide library quantities amenable for sequencing, and adapter dimers were removed by SPRI bead purification. Quality and quantity of the finished libraries were assessed using the Agilent Bioanalyzer High Sensitivity Chip (Agilent Technologies, Inc., Santa Clara, CA) and Qubit dsDNA HS Assay Kit (Life Technologies, Grand Island, NY), respectively. Libraries were sequenced on a NovaSeq6000 or NovaSeq X Plus (Illumina Inc.).  Images were analyzed using the standard Illumina Pipeline, version 1.8.2.