Resequencing of Neisseria gonorrhoeae: parental and compensatory mutants isolated from the experimental mouse model of infection
Genomic DNA was extracted using the Promega Wizard Genomic DNA purification kit (Promega, Madison, WI) according to the manufacturer's protocol using bacteria grown to mid-log phase in supplemented GC broth. The extracted DNA was rehydrated overnight, and a mate-pair library was constructed using Nextera XT standard kits (Illumina FC-121-1024 and FC-121-1001) and prepared for emulsion-based amplification and paired-end sequencing. Illumina MiSeq 2500 Genomic DNA paired-end sequencing was conducted by the Tufts University Core Facility using a v2 flow cell paired-end 250 base format. Each read was 251 bases with two reads per insert plus a barcode. The insert for PE250 with Nextera XT ranges from 500 bp to 1300 bp, with the average/peak size range around 800 bp. Data were aligned to the recently sequenced FA19 genome sequence using CLC Genomics Workbench version 6.0.4.