Department of Microbiology, School of Public Health, Cheeloo College of Medicine, Shandong University, No. 44 Wenhuaxi Road, Jinan 250012, PR China.
Shandong Provincial Key Laboratory of Infectious Disease Control and Prevention, Shandong Center for Disease Control and Prevention, No. 16992 Jingshi Road, Jinan 250014, PR China.
Infect Genet Evol. 2021 Jul;91:104814. doi: 10.1016/j.meegid.2021.104814. Epub 2021 Mar 19.
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.
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.
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.
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.
通过下一代测序（NGS）了解国内污水中 A 组轮状病毒（RVA）的遗传多样性和分子流行病学特征，探讨 NGS 方法用于 RVA 环境监测的可行性和必要性。
本研究选择了 2019 年每季度来自济南的两份污水样本进行浓缩、RNA 提取，然后进行 RT-PCR 反应。对扩增的阳性产物进行 NGS，最后对多样性和系统发育进行分析。
共检测到 9 种 G 基因型和 13 种 P 基因型。秋冬季节的辛普森多样性指数相对较高。系统发育分析表明，优势型 G9 和 P[8]与源自人类的序列密切相关。
本研究证明，作为了解人群中 RVA 流行情况的一种手段，环境监测不仅是可行的，而且是必要的。基于 NGS 的环境监测极大地提高了我们对 RVA 遗传多样性的认识，应鼓励将其作为一种敏感的监测工具。
