{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,22]],"date-time":"2026-04-22T12:36:27Z","timestamp":1776861387902,"version":"3.51.2"},"reference-count":47,"publisher":"Public Library of Science (PLoS)","issue":"10","license":[{"start":{"date-parts":[[2021,10,7]],"date-time":"2021-10-07T00:00:00Z","timestamp":1633564800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Universidad Cat\u00f3lica de Manizales","award":["033-2019"],"award-info":[{"award-number":["033-2019"]}]},{"name":"Universidad de Santander"},{"name":"Universidad de Manizales","award":["RES-088-16-11-2018"],"award-info":[{"award-number":["RES-088-16-11-2018"]}]}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"abstract":"<jats:p><jats:italic>Mycobacterium tuberculosis (M<\/jats:italic>.<jats:italic>tuberculosis)<\/jats:italic>was the pathogen responsible for the highest number of deaths from infectious diseases in the world, before the arrival of the COVID-19 pandemic. Whole genome sequencing (WGS) has contributed to the understanding of genetic diversity, the mechanisms involved in drug resistance and the transmission dynamics of this pathogen. The object of this study is to use WGS for the epidemiological and molecular characterization of<jats:italic>M<\/jats:italic>.<jats:italic>tuberculosis<\/jats:italic>clinical strains from Chinchin\u00e1, Caldas, a small town in Colombia with a high incidence of TB. Sputum samples were obtained during the first semester of 2020 from six patients and cultured in solid L\u00f6wenstein-Jensen medium. DNA extraction was obtained from positive culture samples and WGS was performed with the Illumina HiSeq 2500 platform for subsequent bioinformatic analysis.<jats:italic>M<\/jats:italic>.<jats:italic>tuberculosis<\/jats:italic>isolates were typified as Euro-American lineage 4 with a predominance of the Harlem and LAM sublineages. All samples were proven sensitive to antituberculosis drugs by genomic analysis, although no phenotype antimicrobial tests were performed on the samples, unreported mutations were identified that could require further analysis. The present study provides preliminary data for the construction of a genomic database line and the follow-up of lineages in this region.<\/jats:p>","DOI":"10.1371\/journal.pone.0258402","type":"journal-article","created":{"date-parts":[[2021,10,8]],"date-time":"2021-10-08T13:18:00Z","timestamp":1633699080000},"page":"e0258402","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":7,"title":["Phylogenomic analysis and Mycobacterium tuberculosis antibiotic resistance prediction by whole-genome sequencing from clinical isolates of Caldas, Colombia"],"prefix":"10.1371","volume":"16","author":[{"given":"Lusayda","family":"S\u00e1nchez-Corrales","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Olga Luc\u00eda","family":"Tovar-Aguirre","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Narmer Fernando","family":"Galeano-Vanegas","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Paula Alejandra","family":"Casta\u00f1o Jim\u00e9nez","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ruth Arali","family":"Mart\u00ednez-Vega","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Carlos Ernesto","family":"Maldonado-Londo\u00f1o","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Johan Sebasti\u00e1n","family":"Hern\u00e1ndez-Botero","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4542-4985","authenticated-orcid":true,"given":"Fernando","family":"Siller-L\u00f3pez","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2021,10,7]]},"reference":[{"key":"pone.0258402.ref001","unstructured":"World Health Organization. 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