title: Staphylococcus aureus WGS: cutaneous leishmaniasis
design: Bacterial isolates were collected with a swab, stored immediately in cryotubes with freezing media (autoclaved, filtered Tryptic Soy Broth (TSB) dissolved in de-ionized water with 1% sterile Tween 80% and 15% glycerol) at -20oC. For bacterial identification, swabs were removed from TSB and streaked out onto blood agar plates (TSA with Sheep Blood Plate) (Remel, R01201) overnight at 37C. Morphologically unique colonies were sub-cultured onto blood agar plates and individual bacterial species were identified using Matrix-assisted laser desorption/ionization-time of flight (MALDI-TOF) (Pennsylvania Animal Diagnostic Laboratory System, New Bolton Center). Following identification, S. aureus isolates were short-read whole-genome sequenced. S. aureus DNA was extracted and purified using the Quick-DNA Fungal/Bacterial Miniprep Kit (Zymo Research, D6005) and short-read single-end sequencing on Illumina HiSeq 2500 at PennCHOP Microbiome Core.