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

Dorte Bek Folkvardsen, Anders Norman, Åse Bengård Andersen, Erik Michael Rasmussen, Lars Jelsbak, Troels Lillebaek

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Resumé

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.

OriginalsprogEngelsk
TidsskriftJournal of Infectious Diseases
Vol/bind216
Udgave nummer3
Sider (fra-til)366-374
ISSN0022-1899
DOI
StatusUdgivet - 2017

Fingeraftryk

Mycobacterium tuberculosis
Disease Outbreaks
Epidemiology
Cohort Studies
Retrospective Studies
Incidence
Scandinavian and Nordic Countries
Minisatellite Repeats
Mutation Rate
Denmark
Single Nucleotide Polymorphism

Citer dette

Folkvardsen, Dorte Bek ; Norman, Anders ; Andersen, Åse Bengård ; Michael Rasmussen, Erik ; Jelsbak, Lars ; Lillebaek, Troels. / Genomic Epidemiology of a Major Mycobacterium tuberculosis Outbreak : Retrospective Cohort Study in a Low-Incidence Setting Using Sparse Time-Series Sampling. I: Journal of Infectious Diseases. 2017 ; Bind 216, Nr. 3. s. 366-374.
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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.",
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Genomic Epidemiology of a Major Mycobacterium tuberculosis Outbreak : Retrospective Cohort Study in a Low-Incidence Setting Using Sparse Time-Series Sampling. / Folkvardsen, Dorte Bek; Norman, Anders; Andersen, Åse Bengård; Michael Rasmussen, Erik; Jelsbak, Lars; Lillebaek, Troels.

I: Journal of Infectious Diseases, Bind 216, Nr. 3, 2017, s. 366-374.

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningpeer review

TY - JOUR

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AU - Folkvardsen, Dorte Bek

AU - Norman, Anders

AU - Andersen, Åse Bengård

AU - Michael Rasmussen, Erik

AU - Jelsbak, Lars

AU - Lillebaek, Troels

N1 - © The Author 2017. Published by Oxford University Press for the Infectious Diseases Society of America. All rights reserved. For permissions, e-mail: journals.permissions@oup.com.

PY - 2017

Y1 - 2017

N2 - 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.

AB - 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.

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KW - Polymorphism, Single Nucleotide

KW - Retrospective Studies

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KW - Tuberculosis

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