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    Please use this identifier to cite or link to this item: http://ir.nhri.org.tw/handle/3990099045/10482


    Title: Lineage-specific SNPs for genotyping of Mycobacterium tuberculosis clinical isolates
    Authors: Dou, HY;Lin, CH;Chen, YY;Yang, SJ;Chang, JR;Wu, KM;Chen, YT;Chin, PJ;Liu, YM;Su, IJ;Tsai, SF
    Contributors: Institute of Molecular and Genomic Medicine;Division of Infectious Diseases
    Abstract: Tuberculosis (TB) is a severe infectious disease worldwide. Genetic variation of the causative agent, Mycobacterium tuberculosis (MTB), determines the outcomes of infection and anti-TB treatment. Until recently, there has been no effective and convenient way for classifying clinical isolates based on the DNA sequences of the divergent lineages of MTB infecting human populations. Here, we identified single nucleotide polymorphisms (SNPs) of six representative strains from Taiwan by whole-genome sequencing and comparing the results to the sequence of the H37Rv reference strain. One hundred and ten SNPs, each unique to one of the six strains, were used to genotype 150 additional isolates by applying DNA mass spectrometry. Lineage-specific SNPs were identified that could distinguish the major lineages of the clinical isolates. A subset including 32 SNPs was found to be sufficient to type four major groups of MTB isolates in Taiwan (ancient Beijing, modern Beijing, East African-Indian, and Latin-American Mediterranean). However, there was high genetic homozygosity within the Euro-American lineage, which included spoligotype-classified Haarlem and T strains. By whole-genome sequencing of 12 representative Euro-American isolates, we identified multiple subtype-specific SNPs which allowed us to distinguish two major branches within the Euro-American lineage.
    Date: 2017-05-03
    Relation: Scientific Reports. 2017 May 03;7:Article number 1425.
    Link to: http://dx.doi.org/10.1038/s41598-017-01580-z
    JIF/Ranking 2023: http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=NHRI&SrcApp=NHRI_IR&KeyISSN=2045-2322&DestApp=IC2JCR
    Cited Times(WOS): https://www.webofscience.com/wos/woscc/full-record/WOS:000400491700001
    Cited Times(Scopus): http://www.scopus.com/inward/record.url?partnerID=HzOxMe3b&scp=85018742093
    Appears in Collections:[蔡世峯] 期刊論文
    [蘇益仁(2002-2015)] 期刊論文
    [杜鴻運] 期刊論文

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