Multidrug resistant Mycobacterium tuberculosis of the Latin American Mediteranean lineage wrongly identified as Mycobacterium pinnipedii (ST863) causing active tuberculosis in south Brazil.


Dalla Costa, ER; Vasconcelos, SE; Esteves, LS; Gomes, HM; Gomes, LL; da Silva, PA; Perdigão, J; Portugal, I; Viveiros, M; McNerney, R; Pain, A; Clark, TG; Rastogi, N; Unis, G; Rossetti, ML; Suffys, PN; (2015) Multidrug resistant Mycobacterium tuberculosis of the Latin American Mediteranean lineage wrongly identified as Mycobacterium pinnipedii (ST863) causing active tuberculosis in south Brazil. Journal of clinical microbiology, 53 (12). pp. 3805-11. ISSN 0095-1137 DOI: 10.1128/JCM.02012-15

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Abstract

: We recently detected the spoligotype patterns of strains of Mycobacterium pinnipedii, a species of the Mycobacterium tuberculosis complex, in sputum samples from nine cases with pulmonary tuberculosis residing in Porto Alegre, South Brazil. Because this species is rarely encountered in humans, we further characterized these nine isolates by additional genotyping techniques, including 24-locus mycobacterial interspersed repetitive-unit-variable-number tandem-repeat (MIRU-VNTR) typing, verification of the loci TbD1, RD9, pks15/1, RD(Rio), and fbpC, the insertion of IS6110 at a site specific to the M. tuberculosis Latin American Mediterranean (LAM) lineage, and whole-genome sequencing. The combined analysis of these markers revealed that the isolates are in fact M. tuberculosis and more specifically belong to the LAM genotype. Most of these isolates (n8) were shown to be multidrug resistant (MDR), which prompted us to perform partial sequencing of the rpoA, rpoB, rpoC, katG, and inhA genes. Seven isolates (77.8%) carried the S315T mutation in katG, and one of these (11%) also presented the C((-17)T single-nucleotide polymorphism (SNP) in inhA. Interestingly, six of the MDR isolates also presented an undescribed insertion of 12 nucleotides (CCA GAA CAA CCC) in codon 516 of rpoB. No putative compensatory mutation was found in either rpoA or rpoC. This is the first report of an M. tuberculosis LAM family strain with a convergent M. pinnipedii spoligotype. These spoligotypes are observed in genotype databases at a modest frequency, highlighting that care must be taken when identifying isolates in the M. tuberculosis complex on the basis of single genetic markers.<br/>

Item Type: Article
Faculty and Department: Faculty of Infectious and Tropical Diseases > Dept of Clinical Research
Faculty of Epidemiology and Population Health > Dept of Infectious Disease Epidemiology
Faculty of Infectious and Tropical Diseases > Dept of Pathogen Molecular Biology
Research Centre: Antimicrobial Resistance Centre (AMR)
PubMed ID: 26400784
Web of Science ID: 367532800016
URI: http://researchonline.lshtm.ac.uk/id/eprint/2312497

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