[PMID]: | 28745309 |
[Au] Autor: | Pan XL; Zhang CL; Nakajima C; Fu J; Shao CX; Zhao LN; Cui JY; Jiao N; Fan CL; Suzuki Y; Hattori T; Li D; Ling H |
[Ad] Endereço: | Department of Microbiology, Wu Lien-Teh Institute, Harbin Medical University, Heilongjiang Provincial Key Laboratory of Infection and Immunity, Key Laboratory of Pathogen Biology, Harbin 150081, China. |
[Ti] Título: | A quantitative and efficient approach to select MIRU-VNTR loci based on accumulation of the percentage differences of strains for discriminating divergent Mycobacterium tuberculosis sublineages. |
[So] Source: | Emerg Microbes Infect;6(7):e68, 2017 Jul 26. |
[Is] ISSN: | 2222-1751 |
[Cp] País de publicação: | United States |
[La] Idioma: | eng |
[Ab] Resumo: | Although several optimal mycobacterial interspersed repetitive units-variable number tandem repeat (MIRU-VNTR) loci have been suggested for genotyping homogenous Mycobacterium tuberculosis, including the Beijing genotype, a more efficient and convenient selection strategy for identifying optimal VNTR loci is needed. Here 281 M. tuberculosis isolates were analyzed. Beijing genotype and non-Beijing genotypes were identified, as well as Beijing sublineages, according to single nucleotide polymorphisms. A total of 22 MIRU-VNTR loci were used for genotyping. To efficiently select optimal MIRU-VNTR loci, we established accumulations of percentage differences (APDs) between the strains among the different genotypes. In addition, we constructed a minimum spanning tree for clustering analysis of the VNTR profiles. Our findings showed that eight MIRU-VNTR loci displayed disparities in h values of ≥0.2 between the Beijing genotype and non-Beijing genotype isolates. To efficiently discriminate Beijing and non-Beijing genotypes, an optimal VNTR set was established by adding loci with APDs ranging from 87.2% to 58.8%, resulting in the construction of a nine-locus set. We also found that QUB11a is a powerful locus for separating ST10s (including ST10, STF and STCH1) and ST22s (including ST22 and ST8) strains, whereas a combination of QUB11a, QUB4156, QUB18, Mtub21 and QUB26 could efficiently discriminate Beijing sublineages. Our findings suggested that two nine-locus sets were not only efficient for distinguishing the Beijing genotype from non-Beijing genotype strains, but were also suitable for sublineage genotyping with different discriminatory powers. These results indicate that APD represents a quantitative and efficient approach for selecting MIRU-VNTR loci to discriminate between divergent M. tuberculosis sublineages. |
[Mh] Termos MeSH primário: |
Técnicas de Tipagem Bacteriana/métodos Repetições Minissatélites/genética Mycobacterium tuberculosis/classificação Mycobacterium tuberculosis/genética Sequências Repetitivas de Ácido Nucleico
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[Mh] Termos MeSH secundário: |
Pequim DNA Bacteriano Variação Genética Genótipo Seres Humanos Polimorfismo de Nucleotídeo Único Tuberculose/microbiologia Tuberculose/transmissão
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[Pt] Tipo de publicação: | JOURNAL ARTICLE |
[Nm] Nome de substância:
| 0 (DNA, Bacterial) |
[Em] Mês de entrada: | 1801 |
[Cu] Atualização por classe: | 180118 |
[Lr] Data última revisão:
| 180118 |
[Sb] Subgrupo de revista: | IM |
[Da] Data de entrada para processamento: | 170727 |
[St] Status: | MEDLINE |
[do] DOI: | 10.1038/emi.2017.58 |
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