biostudies-literaturePankhurst LJMedical Research CouncilNational Institute for Health Research (NIHR)Wellcome Trust49-58https://www.ebi.ac.uk/biostudies/studies/S-EPMC4698465biostudies-literatureUnknown4(1)<h4>Background</h4>Slow and cumbersome laboratory diagnostics for Mycobacterium tuberculosis complex (MTBC) risk delayed treatment and poor patient outcomes. Whole-genome sequencing (WGS) could potentially provide a rapid and comprehensive diagnostic solution. In this prospective study, we compare real-time WGS with routine MTBC diagnostic workflows.<h4>Methods</h4>We compared sequencing mycobacteria from all newly positive liquid cultures with routine laboratory diagnostic workflows across eight laboratories in Europe and North America for diagnostic accuracy, processing times, and cost between Sept 6, 2013, and April 14, 2014. We sequenced specimens once using local Illumina MiSeq platforms and processed data centrally using a semi-automated bioinformatics pipeline. We identified speciesThe Lancet. Respiratory medicineRapid, comprehensive, and affordable mycobacterial diagnosis with whole-genome sequencing: a prospective study.PMC4698465HPRU-2012-10080MR/J011398/1G0800778NF-SI-0512-10047098615Xu LCOMPASS-TB Study GroupVotintseva AAPaul JNiemann SWyllie DRogers TRFermont JMWilcox MHGascoyne-Binzi DMRoycroft ESupply PKong CWalker TMKohl TACole KWordsworth SDel Ojo Elias CDavies JLemaitre NSmith EGTang PCrook DWPankhurst LJfalseRapid, comprehensive, and affordable mycobacterial diagnosis with whole-genome sequencing: a prospective study.<h4>Background</h4>Slow and cumbersome laboratory diagnostics for Mycobacterium tuberculosis complex (MTBC) risk delayed treatment and poor patient outcomes. Whole-genome sequencing (WGS) could potentially provide a rapid and comprehensive diagnostic solution. In this prospective study, we compare real-time WGS with routine MTBC diagnostic workflows.<h4>Methods</h4>We compared sequencing mycobacteria from all newly positive liquid cultures with routine laboratory diagnostic workflows across eight laboratories in Europe and North America for diagnostic accuracy, processing times, and cost between Sept 6, 2013, and April 14, 2014. We sequenced specimens once using local Illumina MiSeq platforms and processed data centrally using a semi-automated bioinformatics pipeline. We identified species2016-01-01T00:00:00Z2016 Jan2026-05-05T07:36:13.834Z2019-03-27T02:06:08ZS-EPMC46984652666989310.1016/S2213-2600(15)00466-X