Single nucleotide polymorphisms characteristics of the Yersinia Pestis in China

VernacularTitle:我国鼠疫耶尔森菌单核苷酸多态性特征研究
Author: Na, WANG ; Xiao-na, SHEN ; Dong-zheng, YU ; Lian-xu, XIA ; Jian-chun, WEI ; Hong, CAI ; Dong-lei, XU ; Chen, CHEN ; Zhi-gang, CUI ; Ying, LIANG ; Da-qin, XU ; Tao, LUO ; Rong, HAI
Publication Type:Journal Article
Keywords: Yersinia pestis; Polymorphism,single nucleotide; Cluster analysis
From:Chinese Journal of Endemiology 2012;31(5):476-481
CountryChina
Language:Chinese
Abstract: Objective To study the single nucleotide polymorphisms (SNP) characteristics of Yersinia pestis strains from different natural foci in China.Methods Genome-wide comparison was done to find SNP sites by the Mummer program among 9 Yersinia pestis genome which was downloaded from NCBI.Then 13 genic fragments including 19 SNP sites were amplified by PCR and sequenced in 133 Yersinia pestis strains,and the results were cluster analyzed with the BioNumerics software.Results Three thousand seven hundred and eighty sequence variation sites were found by genome-wide comparison.Using the different combinations of SNP sites,UPGMA cluster analysis revealed obvious geographic regional and eco-aggregation characteristics of Yersinia pestis strains isolated from China.Conclusions As relatively stable genetic markers,SNP can better reflect the genome characteristics of Yersinia pestis in different plague natural foci of China.