Genetic diversity and molecular epidemiological characterization of group A rotaviruses in raw sewage in Jinan by next generation sequencing

被引：7

作者：

Du, Haibo ^{[1
]}

Xiong, Ping ^{[2
]}

Ji, Feng ^{[2
]}

Lin, Xiaojuan ^{[2
]}

Wang, Suting ^{[2
]}

Zhang, Li ^{[2
]}

Liu, Yao ^{[2
]}

Song, Yanyan ^{[1
]}

Tao, Zexin ^{[2
]}

Xu, Aiqiang ^{[1
,2
]}

机构：

[1] Shandong Univ, Cheeloo Med, Sch Publ Hlth, Dept Microbiol, 44 Wenhuaxi Rd, Jinan 250012, Peoples R China

[2] Shandong Ctr Dis Control & Prevent, Shandong Prov Key Lab Infect Dis Control & Preven, 16992 Jingshi Rd, Jinan 250014, Peoples R China

来源：

INFECTION GENETICS AND EVOLUTION | 2021年 / 91卷

基金：

中国国家自然科学基金;

关键词：

Rotavirus; Sewage; Environmental surveillance; Next generation sequencing; ENVIRONMENTAL SURVEILLANCE; SHANDONG PROVINCE; CHILDREN YOUNGER; ECHOVIRUS; 6; CHINA; PREVALENCE; STRAINS; DISEASE; BURDEN; ADENOVIRUS;

D O I：

10.1016/j.meegid.2021.104814

中图分类号：

R51 [传染病];

学科分类号：

100401 ;

摘要：

Objective: To understand the genetic diversity and molecular epidemiology characteristics of group A Rotavirus (RVA) in domestic sewage through next generation sequencing (NGS), and to explore the feasibility and necessity of NGS method for RVA environmental surveillance. Methods: In this study, two sewage samples from Jinan each quarter in 2019 were selected for concentration, RNA extraction, and then RT-PCR reaction. The amplified positive products were subjected to NGS. Finally, the results were analyzed for diversity and phylogeny. Results: A total of 9 G-genotypes and 13 P-genotypes were detected. The Simpson diversity indices in autumn and winter were relatively high. Phylogenetic analysis showed that the dominant types G9 and P[8] were closely related to human-derived sequences. Conclusions: This study proves that environmental surveillance as a means to understand the prevalence of RVA in the population is not only feasible but necessary. NGS based environmental surveillance greatly improves our understanding on RVA genetic diversity, and should be encouraged as a sensitive surveillance tool.

引用

页数：7

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