ArticlePloS one2013
Features of Variable Number of Tandem Repeats in Yersinia pestis and the Development of a Hierarchical Genotyping Scheme.
Article in PloS one, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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13 citing papers in PubMed, 24 citations in OpenAlex.
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- Genetic source tracking of human plague cases in Inner Mongolia-Beijing, 2019.PLoS neglected tropical diseases · 2021Article
- Evolutionary selection of biofilm-mediated extended phenotypes in Yersinia pestis in response to a fluctuating environment.Nature communications · 2020Article
- Variant site strain typer (VaST): efficient strain typing using a minimal number of variant genomic sites.BMC bioinformatics · 2018Article
- Genetic diversity and spatial-temporal distribution of Yersinia pestis in Qinghai Plateau, China.PLoS neglected tropical diseases · 2018Article
- Ten years of surveillance of the Yulong plague focus in China and the molecular typing and source tracing of the isolates.PLoS neglected tropical diseases · 2018Article
- Phenotypic and Molecular Genetic Characteristics ofThe American journal of tropical medicine and hygiene · 2018Article
- Reemergence of human plague in Yunnan, China in 2016.PloS one · 2018Article
- Reannotation of Yersinia pestis Strain 91001 Based on Omics Data.The American journal of tropical medicine and hygiene · 2016Article
- Two Distinct Yersinia pestis Populations Causing Plague among Humans in the West Nile Region of Uganda.PLoS neglected tropical diseases · 2016Article
- Multilocus variable-number tandem-repeat analysis of Neisseria meningitidis serogroup C in China.Epidemiology and infection · 2015Article
- Strain discrimination ofChemical science · 2015Article
- Two-step source tracing strategy of Yersinia pestis and its historical epidemiology in a specific region.PloS one · 2014Article
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Authors and funding
14 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundVariable number of tandem repeats (VNTRs) that are widely distributed in the genome of Yersinia pestis proved to be useful markers for the genotyping and source-tracing of this notorious pathogen. In this study, we probed into the features of VNTRs in the Y. pestis genome and developed a simple hierarchical genotyping system based on optimized VNTR loci. METHODOLOGY/PRINCIPAL
findingsCapillary electrophoresis was used in this study for multi-locus VNTR analysis (MLVA) in 956 Y. pestis strains. The general features and genetic diversities of 88 VNTR loci in Y. pestis were analyzed with BioNumerics, and a "14+12" loci-based hierarchical genotyping system, which is compatible with single nucleotide polymorphism-based phylogenic analysis, was established. CONCLUSIONS/SIGNIFICANCE: Appropriate selection of target loci reduces the impact of homoplasies caused by the rapid mutation rates of VNTR loci. The optimized "14+12" loci are highly discriminative in genotyping and source-tracing Y. pestis for molecular epidemiological or microbial forensic investigations with less time and lower cost. An MLVA genotyping datasets of representative strains will improve future research on the source-tracing and microevolution of Y. pestis.
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