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. 2017 Aug 1;216(3):366-374.
doi: 10.1093/infdis/jix298.

Genomic Epidemiology of a Major Mycobacterium tuberculosis Outbreak: Retrospective Cohort Study in a Low-Incidence Setting Using Sparse Time-Series Sampling

Dorte Bek Folkvardsen  1 , Anders Norman  1   2 , Åse Bengård Andersen  3   4 , Erik Michael Rasmussen  1 , Lars Jelsbak  2 , Troels Lillebaek  1
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Free article

Genomic Epidemiology of a Major Mycobacterium tuberculosis Outbreak: Retrospective Cohort Study in a Low-Incidence Setting Using Sparse Time-Series Sampling

Dorte Bek Folkvardsen et al. J Infect Dis. .
Free article

Abstract

Since 1992, Denmark has documented the largest outbreak of tuberculosis in Scandinavia ascribed to a single genotype, termed C2/1112-15. As of spring 2017, the International Reference Laboratory of Mycobacteriology in Copenhagen has collected and identified isolates from more than a thousand cases belonging to this outbreak via routine mycobacterial interspersed repetitive units-variable number of tandem repeats typing. Here, we present a retrospective analysis of the C2/1112-15 dataset, based on whole-genome data from a sparse time series consisting of 5 randomly selected isolates from 23 years of sampling. Even if these data are derived from only 12% of the collected isolates, we have been able to extract important key information, such as mutation rate and conserved single-nucleotide polymorphisms to identify discrete transmission chains, as well as the possible historical origins of the outbreak.

Keywords: M. tuberculosis; WGS; evolution; outbreak; transmission.

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