Whole genome analysis of extensively drug resistant Mycobacterium tuberculosis strains in Peru

Abstract Peru has the highest burden of multidrug-resistant tuberculosis in the Americas region. Since 1999, the annual number of extensively drug-resistant tuberculosis (XDR-TB) Peruvian cases has been increasing, becoming a public health challenge. The objective of this study was to perform genomi...

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Autores principales:	David Santos-Lazaro, Ronnie G. Gavilan, Lely Solari, Aiko N. Vigo, Zully M. Puyen
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/4958d1d00e5e4215960b31bad5879328
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spelling	oai:doaj.org-article:4958d1d00e5e4215960b31bad58793282021-12-02T15:38:11ZWhole genome analysis of extensively drug resistant Mycobacterium tuberculosis strains in Peru10.1038/s41598-021-88603-y2045-2322https://doaj.org/article/4958d1d00e5e4215960b31bad58793282021-05-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-88603-yhttps://doaj.org/toc/2045-2322Abstract Peru has the highest burden of multidrug-resistant tuberculosis in the Americas region. Since 1999, the annual number of extensively drug-resistant tuberculosis (XDR-TB) Peruvian cases has been increasing, becoming a public health challenge. The objective of this study was to perform genomic characterization of Mycobacterium tuberculosis strains obtained from Peruvian patients with XDR-TB diagnosed from 2011 to 2015 in Peru. Whole genome sequencing (WGS) was performed on 68 XDR-TB strains from different regions of Peru. 58 (85.3%) strains came from the most populated districts of Lima and Callao. Concerning the lineages, 62 (91.2%) strains belonged to the Euro-American Lineage, while the remaining 6 (8.8%) strains belonged to the East-Asian Lineage. Most strains (90%) had high-confidence resistance mutations according to pre-established WHO-confident grading system. Discordant results between microbiological and molecular methodologies were caused by mutations outside the hotspot regions analysed by commercial molecular assays (rpoB I491F and inhA S94A). Cluster analysis using a cut-off ≤ 10 SNPs revealed that only 23 (34%) strains evidenced recent transmission links. This study highlights the relevance and utility of WGS as a high-resolution approach to predict drug resistance, analyse transmission of strains between groups, and determine evolutionary patterns of circulating XDR-TB strains in the country.David Santos-LazaroRonnie G. GavilanLely SolariAiko N. VigoZully M. PuyenNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q David Santos-Lazaro Ronnie G. Gavilan Lely Solari Aiko N. Vigo Zully M. Puyen Whole genome analysis of extensively drug resistant Mycobacterium tuberculosis strains in Peru
description	Abstract Peru has the highest burden of multidrug-resistant tuberculosis in the Americas region. Since 1999, the annual number of extensively drug-resistant tuberculosis (XDR-TB) Peruvian cases has been increasing, becoming a public health challenge. The objective of this study was to perform genomic characterization of Mycobacterium tuberculosis strains obtained from Peruvian patients with XDR-TB diagnosed from 2011 to 2015 in Peru. Whole genome sequencing (WGS) was performed on 68 XDR-TB strains from different regions of Peru. 58 (85.3%) strains came from the most populated districts of Lima and Callao. Concerning the lineages, 62 (91.2%) strains belonged to the Euro-American Lineage, while the remaining 6 (8.8%) strains belonged to the East-Asian Lineage. Most strains (90%) had high-confidence resistance mutations according to pre-established WHO-confident grading system. Discordant results between microbiological and molecular methodologies were caused by mutations outside the hotspot regions analysed by commercial molecular assays (rpoB I491F and inhA S94A). Cluster analysis using a cut-off ≤ 10 SNPs revealed that only 23 (34%) strains evidenced recent transmission links. This study highlights the relevance and utility of WGS as a high-resolution approach to predict drug resistance, analyse transmission of strains between groups, and determine evolutionary patterns of circulating XDR-TB strains in the country.
format	article
author	David Santos-Lazaro Ronnie G. Gavilan Lely Solari Aiko N. Vigo Zully M. Puyen
author_facet	David Santos-Lazaro Ronnie G. Gavilan Lely Solari Aiko N. Vigo Zully M. Puyen
author_sort	David Santos-Lazaro
title	Whole genome analysis of extensively drug resistant Mycobacterium tuberculosis strains in Peru
title_short	Whole genome analysis of extensively drug resistant Mycobacterium tuberculosis strains in Peru
title_full	Whole genome analysis of extensively drug resistant Mycobacterium tuberculosis strains in Peru
title_fullStr	Whole genome analysis of extensively drug resistant Mycobacterium tuberculosis strains in Peru
title_full_unstemmed	Whole genome analysis of extensively drug resistant Mycobacterium tuberculosis strains in Peru
title_sort	whole genome analysis of extensively drug resistant mycobacterium tuberculosis strains in peru
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/4958d1d00e5e4215960b31bad5879328
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Whole genome analysis of extensively drug resistant Mycobacterium tuberculosis strains in Peru

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