Standard Genotyping Overestimates Transmission of Mycobacterium tuberculosis among Immigrants in a Low-Incidence Country.
Détails
ID Serval
serval:BIB_A3A0FD5BC136
Type
Article: article d'un périodique ou d'un magazine.
Collection
Publications
Institution
Titre
Standard Genotyping Overestimates Transmission of Mycobacterium tuberculosis among Immigrants in a Low-Incidence Country.
Périodique
Journal of clinical microbiology
ISSN
1098-660X (Electronic)
ISSN-L
0095-1137
Statut éditorial
Publié
Date de publication
07/2016
Peer-reviewed
Oui
Volume
54
Numéro
7
Pages
1862-1870
Langue
anglais
Notes
Publication types: Journal Article
Publication Status: ppublish
Publication Status: ppublish
Résumé
Immigrants from regions with a high incidence of tuberculosis (TB) are a risk group for TB in low-incidence countries such as Switzerland. In a previous analysis of a nationwide collection of 520 Mycobacterium tuberculosis isolates from 2000 to 2008, we identified 35 clusters comprising 90 patients based on standard genotyping (24-locus mycobacterial interspersed repetitive-unit-variable-number tandem-repeat [MIRU-VNTR] typing and spoligotyping). Here, we used whole-genome sequencing (WGS) to revisit these transmission clusters. Genome-based transmission clusters were defined as isolate pairs separated by ≤12 single nucleotide polymorphisms (SNPs). WGS confirmed 17/35 (49%) MIRU-VNTR typing clusters; the other 18 clusters contained pairs separated by >12 SNPs. Most transmission clusters (3/4) of Swiss-born patients were confirmed by WGS, as opposed to 25% (4/16) of the clusters involving only foreign-born patients. The overall clustering proportion was 17% (90 patients; 95% confidence interval [CI], 14 to 21%) by standard genotyping but only 8% (43 patients; 95% CI, 6 to 11%) by WGS. The clustering proportion was 17% (67/401; 95% CI, 13 to 21%) by standard genotyping and 7% (26/401; 95% CI, 4 to 9%) by WGS among foreign-born patients and 19% (23/119; 95% CI, 13 to 28%) and 14% (17/119; 95% CI, 9 to 22%), respectively, among Swiss-born patients. Using weighted logistic regression, we found weak evidence of an association between birth origin and transmission (adjusted odds ratio of 2.2 and 95% CI of 0.9 to 5.5 comparing Swiss-born patients to others). In conclusion, standard genotyping overestimated recent TB transmission in Switzerland compared to WGS, particularly among immigrants from regions with a high TB incidence, where genetically closely related strains often predominate. We recommend the use of WGS to identify transmission clusters in settings with a low incidence of TB.
Mots-clé
Adolescent, Adult, Cluster Analysis, Disease Transmission, Infectious, Emigrants and Immigrants, Female, Follow-Up Studies, Genome, Bacterial, Humans, Incidence, Male, Middle Aged, Molecular Epidemiology, Molecular Typing, Mycobacterium tuberculosis/classification, Mycobacterium tuberculosis/genetics, Mycobacterium tuberculosis/isolation & purification, Polymorphism, Single Nucleotide, Sequence Analysis, DNA, Switzerland/epidemiology, Tuberculosis/epidemiology, Tuberculosis/microbiology, Tuberculosis/transmission, Young Adult
Pubmed
Web of science
Open Access
Oui
Création de la notice
06/06/2016 16:31
Dernière modification de la notice
29/01/2021 6:25