Analysis of single nucleotide polymorphism population structure of Yersinia pestis in natural focus of plague in Qinghai-Tibet Plateau
10.3760/cma.j.cn231583-20231121-00112
- VernacularTitle:青藏高原鼠疫自然疫源地鼠疫耶尔森菌单核苷酸多态性种群结构分析
- Author:
Juan JIN
1
;
Yiting WANG
;
Sheng LI
;
Xiaoyan YANG
;
Jian HE
;
Youquan XIN
;
Jixiang BAI
;
Li ZHANG
;
Wenqi DU
;
Wei LI
Author Information
1. 青海大学医学部公共卫生系，西宁 810001
- Keywords:
Yersinia;
Plague;
Qinghai-Tibet Plateau;
Single nucleotide polymorphism
- From:
Chinese Journal of Endemiology
2024;43(6):452-455
- CountryChina
- Language:Chinese
-
Abstract:
Objective:To learn about the single nucleotide polymorphism (SNP) population structure and regional distribution characteristics of Yersinia pestis in the natural focus of plague in Qinghai-Tibet Plateau. Methods:A total of 319 representative strains of Yersinia pestis isolated from natural focus of plague in Qinghai-Tibet Plateau from 1954 to 2020 were selected, and 2 298 SNP loci included in the global Yersinia pestis phylogenetic tree were compared by whole genome sequencing technology. MEGA 6.0 software was used to construct phylogenetic trees of 319 strains of Yersinia pestis from Qinghai-Tibet Plateau, determine the SNP population structure of Yersinia pestis in the focus, and describe its regional distribution characteristics. Results:The 319 strains of Yersinia pestis isolated from Qinghai-Tibet Plateau natural plague foci were distributed in 5 clades, namely 1.IN, 2.ANT, 3.ANT, 0.PE and 2.MED. The 1.IN clade contained 209 strains (65.52%, 209/319), which was the dominant population of strains in Qinghai Province, accounting for 90.51% (143/158). The 2.ANT clade contained 83 strains (26.02%, 83/319), which was the dominant population in Tibet Autonomous Region, accounting for 67.24% (78/116). The 3.ANT, 0.PE, and 2.MED clades contained 12 (3.76%, 12/319), 9 (2.82%, 9/319) and 6 strains (1.88%, 6/319), respectively, which were scattered in Qinghai Province, Gansu Province, Sichuan Province, Tibet Autonomous Region, and Xinjiang Uygur Autonomous Region under the jurisdiction of Qinghai-Tibet Plateau. Conclusion:The SNP population structure of Yersinia pestis in natural focus of plague in Qinghai-Tibet Plateau is relatively rich, and the strains are distributed in 5 clades: 1.IN, 2.ANT, 3.ANT, 0.PE and 2.MED, showing the distribution characteristics of specific regions.
