design: To prepare genomic libraries, we used KAPA library preparation kits for Illumina NGS sequencing (Kapa Biosystems) and 1g of purified DNA per isolate. Next, we indexed the libraries using unique 8-bp nucleotide identifiers. We evaluated the concentration of each library with a Kapa library quantification kit (Kapa Biosystems, Wilmington, MA) on a 7900HT Instrument (Life Technologies). We sequenced the libraries to a read length of 100 bp using v3 or v4 chemistries on an Illumina HiSeq 2500.