title: Whole genome sequencing of sample TB034010104
design: After MGIT cultures were flagged as positive and volumes were allocated for other testing and/or storage the remaining ~300uL in the MGIT tube was grown an additional 3-5 days. Past this time, the MGIT tube was placed in the fridge at 4 degrees Celsius until DNA extractions were performed. DNA extractions were performed  using Ultra-Deep Microbiome Prep kit (Molzym GmbH & Co. KG, Bremen, Germany). For the extraction, 300uL of each  culture to be extracted was pipetted, ensuring that any visible cells or  clumps were transferred. Following this steps were followed as per the package insert. Fifty uL of DNA eluate was sent for whole genome sequencing. Whole genome libraries were prepared using NEBNext Ultra II DNA Library Prep Kit  for Illumina (New England Biolabs, Inc. Ipswich, MA, USA) according to manufacturer instructions and sequencing was conducted using the Illumina Hiseq X Ten platform.