Analysis of genomic single nucleotide polymorphisms of Yersinia pestis in the Sanjiangyuan region of Qinghai Province,China
Objective To investigate the characteristics of Yersinia pestis population structure in natural plague foci in the Sanjiangyuan region of Qinghai Province using genomic single nucleotide polymorphisms (SNPs) analysis,so as to provide a theoretical basis for plague prevention and control in this region.Methods A total of 81 representative strains of Y.pestis collected in the Sanjiangyuan region were selected for analysis of variations across 2298 SNP sites based on whole genome sequencing data.MEGA 6.0 software was used to construct a phylogenetic tree.The structure and distribution characteristics of Y.pestis population in this region were analyzed.Results The 81 strains of were classified into three SNP genotypes,designated as 1.IN,2.ANT,and 0.PE.The strains in the 1.IN subpopulation were dominant in the natural plague foci of the Sanjiangyuan region,and all of them were isolated from the natural plague focus of Marmota himalayana.The strains in the 2.ANT and 0.PE subpopulations were distributed across Chengduo County,Nangqian County,and Qumalai County in Yushu Tibetan Autonomous Prefecture.The strains of Y.pestis isolated from the natural plague focus of Neodon fuscus in Qinghai belonged exclusively to the 0.PE4C subpopulation.Conclusion Genomic SNP analysis of Y.pestis subpopulations showed obvious regional distribution characteristics in the Sanjiangyuan region,which provides scientific tips for the epidemiological investigation of plague epidemic in this region.
Yersinia pestisGenomicsSingle nucleotide polymorphismGenotypingSanjiangyuan region
万方数据
维普
