WHOLE GENOME SEQUENCE DATA OF MYCOBACTERIUM TUBERCULOSIS XDR STRAIN, ISOLATED FROM PATIENT IN KAZAKHSTAN

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dc.contributor.authorDaniyarov, Asset
dc.contributor.authorMolkenov, Askhat
dc.contributor.authorRakhimova, Saule
dc.contributor.authorAkhmetova, Ainur
dc.contributor.authorNurkina, Zhannur
dc.contributor.authorYerezhepov, Dauren
dc.contributor.authorChingissova, Lyailya
dc.contributor.authorBismilda, Venera
dc.contributor.authorToxanbaeva, Bekzat
dc.contributor.authorAkilzhanova, Ainur
dc.contributor.authorKozhamkulov, Ulan
dc.contributor.authorKairov, Ulykbek
dc.date.accessioned2021-01-27T08:44:18Z
dc.date.available2021-01-27T08:44:18Z
dc.date.issued2020-12
dc.description.abstractDrug-resistant tuberculosis (TB) is a major public health problem. Clinical Mycobacterium tuberculosis (MTB) isolate with Extensively drug-resistant tuberculosis (MTB-XDR) profile was subjected to whole-genome sequencing using a next-generation sequencing platform (NGS) Roche 454 GS FLX+ followed by bioinformatics sequence analysis. Quality of read was checked by FastQC, paired-end reads were trimmed using Trimmomatic. De novo genome assembly was conducted using Velvet v.1.2.10. The assembled genome of XDR-TB-1599 strain was functionally annotated using the PATRIC platform. Analysis of de novo assembled genome was performed using ResFinder, CARD, CASTB and TB-Profiler tools. MIRU_VNTR genotyping on 12 loci and spoligotyping have been performed for XDR-TB-1599 isolate. M. tuberculosis XDR-TB-1599 strain yielded an average read depth of 21-fold with overall 4 199 325 bp. The assembled genome contains 5528 protein-coding genes, including key drug resistance and virulence-associated genes and GC content of 65.4%. We identified that all proteins encoded by this strain contain conserved domains associated with the first-line anti-tuberculosis drugs such as rifampicin, isoniazid, streptomycin and ethionamide. TB-Profiler had higher average concordance results with phenotypic DST (drug susceptibility testing) in comparison with ResFinder, CARD, CASTB profiling to first-line (75% vs 50%) and second-line (25% vs 0%) of anti-TB drugs, correspondingly. To our knowledge, this is the first report of a highly annotated and characterized whole-genome sequence and de novo assembled XDR-TB M.tuberculosis strain isolated from a sputum of new TB case-patient from Kazakhstan performed on Roche 454 GS FLX+ platform. This report highlights an important role of whole-genome sequencing technology and analysis as an advanced approach for drug-resistance investigations of circulated TB isolates.en_US
dc.identifier.citationDaniyarov, A., Molkenov, A., Rakhimova, S., Akhmetova, A., Nurkina, Z., Yerezhepov, D., Chingissova, L., Bismilda, V., Toxanbaeva, B., Akilzhanova, A., Kozhamkulov, U., & Kairov, U. (2020). Whole genome sequence data of Mycobacterium tuberculosis XDR strain, isolated from patient in Kazakhstan. Data in Brief, 33, 106416. https://doi.org/10.1016/j.dib.2020.106416en_US
dc.identifier.issn2352-3409
dc.identifier.urihttps://www.sciencedirect.com/science/article/pii/S2352340920312981?via%3Dihub
dc.identifier.urihttps://doi.org/10.1016/j.dib.2020.106416
dc.identifier.urihttp://nur.nu.edu.kz/handle/123456789/5251
dc.language.isoenen_US
dc.publisherElsevieren_US
dc.relation.ispartofseriesData in Brief;33, 106416
dc.rightsAttribution-NonCommercial-ShareAlike 3.0 United States*
dc.rights.urihttp://creativecommons.org/licenses/by-nc-sa/3.0/us/*
dc.subjectMycobacteriumen_US
dc.subjectWhole genome sequenceen_US
dc.subjectDraft genomeen_US
dc.subjectExtensively drug-resistanceen_US
dc.subjectTuberculosisen_US
dc.subjectKazakhstanen_US
dc.subjectResearch Subject Categories::NATURAL SCIENCESen_US
dc.subjectResearch Subject Categories::NATURAL SCIENCES::Biologyen_US
dc.titleWHOLE GENOME SEQUENCE DATA OF MYCOBACTERIUM TUBERCULOSIS XDR STRAIN, ISOLATED FROM PATIENT IN KAZAKHSTANen_US
dc.typeArticleen_US
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