NextSeq 500 paired end sequencing; Whole Genome Sequence Analysis of Mycobacterium tuberculosis Strains from Patients in Campania Region
Whole Genome Sequence Analysis of Mycobacterium tuberculosis Strains from Patients in Campania Region
109 bacterial isolates were collected from four hospitals in the Campania region (Southern Italy). Bacterial isolation was performed via routine methods using mycobacterial growth indicator tubes (Bactec MGIT 960; Becton Dickinson, Sparks, MD, US) and Lowenstein-Jensen agar slants.  Genomic DNA was obtained from clinical strains using two column-based DNA extraction methods (QIAamp DNA minikit, Qiagen, Germany), according to the instructions. The purified DNA was qualitatively and quantitatively evaluated using NanoDrop and Qubit dsDNA analysis kits (ThermoFisher Scientific, Waltham, MA, USA). Indexed libraries were prepared starting from 60 ng of each DNA sample according to Illumina DNA Prep sample preparation kits (Illumina Inc., San Diego, CA, USA). Final libraries concentrations and size were assessed with Quant-IT DNA Assay Kit and Agilent 4200 Tapestation System (Agilent Technologies, Milan, Italy), respectively.