{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,27]],"date-time":"2026-10-27T18:26:26Z","timestamp":1793125586316,"version":"4.5.0"},"reference-count":31,"publisher":"Microbiology Society","issue":"7","funder":[{"DOI":"10.13039\/501100006378","name":"Universitas Indonesia","doi-asserted-by":"crossref","award":["PITTA 2018"],"award-info":[{"award-number":["PITTA 2018"]}],"id":[{"id":"10.13039\/501100006378","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/100000061","name":"Fogarty International Center","doi-asserted-by":"crossref","award":["No. 5D43TW009522"],"award-info":[{"award-number":["No. 5D43TW009522"]}],"id":[{"id":"10.13039\/100000061","id-type":"DOI","asserted-by":"crossref"}]},{"DOI":"10.13039\/501100004704","name":"National Research Council of Thailand","doi-asserted-by":"crossref","award":["Grant No. 60-057 and 62-003"],"award-info":[{"award-number":["Grant No. 60-057 and 62-003"]}],"id":[{"id":"10.13039\/501100004704","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2020,7,1]]},"abstract":"<jats:p>\n                  <jats:bold>Introduction.<\/jats:bold> Multidrug-resistant tuberculosis (MDR-TB) is a major public health problem globally, including in Indonesia. Whole-genome sequencing (WGS) analysis has rarely been used for the study of TB and MDR-TB in Indonesia.<\/jats:p>\n               <jats:p>\n                  <jats:bold>Aim.<\/jats:bold> We evaluated the use of WGS for drug-susceptibility testing (DST) and to investigate the population structure of drug-resistant <jats:italic>\n                     <jats:named-content content-type=\"species\">\n                        <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/doi.org\/10.1601\/nm.10886\" xlink:type=\"simple\">Mycobacterium tuberculosis<\/jats:ext-link>\n                     <\/jats:named-content>\n                  <\/jats:italic> in Java, Indonesia.<\/jats:p>\n               <jats:p>\n                  <jats:bold>Methodology.<\/jats:bold> Thirty suspected MDR-TB isolates were subjected to MGIT 960 system (MGIT)-based DST and to WGS. Phylogenetic analysis was done using the WGS data. Results obtained using MGIT-based DST and WGS-based DST were compared.<\/jats:p>\n               <jats:p>\n                  <jats:bold>Results.<\/jats:bold> Agreement between WGS and MGIT was 93.33\u200a% for rifampicin, 83.33\u200a% for isoniazid and 76.67\u200a% for streptomycin but only 63.33\u200a% for ethambutol. Moderate WGS\u2013MGIT agreement was found for second-line drugs including amikacin, kanamycin and fluoroquinolone (73.33\u201376.67\u200a%). MDR-TB was more common in isolates of the East Asian Lineage (63.3%). No evidence of clonal transmission of DR-TB was found among members of the tested population.<\/jats:p>\n               <jats:p>\n                  <jats:bold>Conclusion.<\/jats:bold> Our study demonstrated the applicability of WGS for DST and molecular epidemiology of DR-TB in Java, Indonesia. We found no transmission of DR-TB in Indonesia.<\/jats:p>","DOI":"10.1099\/jmm.0.001221","type":"journal-article","created":{"date-parts":[[2020,6,24]],"date-time":"2020-06-24T15:15:55Z","timestamp":1593011755000},"page":"1013-1019","source":"Crossref","is-referenced-by-count":14,"title":["Whole-genome sequencing analysis of multidrug-resistant Mycobacterium tuberculosis from Java, Indonesia"],"prefix":"10.1099","volume":"69","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-0787-3157","authenticated-orcid":false,"given":"Tryna","family":"Tania","sequence":"first","affiliation":[{"name":"Department of Microbiology, Faculty of Medicine, Universitas Indonesia-Cipto Mangunkusumo National Central General Hospital, Jakarta, Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7637-2634","authenticated-orcid":false,"given":"Pratiwi","family":"Sudarmono","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Faculty of Medicine, Universitas Indonesia-Cipto Mangunkusumo National Central General Hospital, Jakarta, Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0459-1026","authenticated-orcid":false,"given":"R. 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