Deep sequencing a major TB outbreak in the Canadian Arctic
Prior to sequencing, the culture was grown on a Middlebrook 7H10 agar plate. A single colony was then selected and grown further in 3mL of Middlebrook 7H9 Broth to provide sufficient DNA for SMRT sequencing and Illumina MiSeq (for polishing of the long-read assembly). DNA for SMRT sequencing was extracted using the MagAttract High Molecular Weight DNA Kit from Qiagen (Maryland, USA). High molecular weight fragments were verified using gel electrophoresis. Library preparation and sequencing were done at the McGill University/Genome Qubec Innovation Centre. Prior to sequencing, fragment size was evaluated using a BioAnalyzer and the BluePippin system (Sage Science, Massachusetts, USA) was used for size selection.