Key Laboratory of Tropical Translational Medicine of Ministry of Education, Hainan Medical University, Haikou, 571199, China; Hainan Medical University-The University of Hong Kong Joint Laboratory of Tropical Infectious Diseases, Hainan Medical University, Haikou, 571199, China; Department of Pathogen Biology, Hainan Medical University, Haikou, 571199, China.
NHC Key Laboratory of Systems Biology of Pathogens, Institute of Pathogen Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, 100005, China.
Virol Sin. 2023 Oct;38(5):651-662. doi: 10.1016/j.virs.2023.08.003. Epub 2023 Aug 10.
The risk of emerging infectious diseases (EID) is increasing globally. More than 60% of EIDs worldwide are caused by animal-borne pathogens. This study aimed to characterize the virome, analyze the phylogenetic evolution, and determine the diversity of rodent-borne viruses in Hainan Province, China. We collected 682 anal and throat samples from rodents, combined them into 28 pools according to their species and location, and processed them for next-generation sequencing and bioinformatics analysis. The diverse viral contigs closely related to mammals were assigned to 22 viral families. Molecular clues of the important rodent-borne viruses were further identified by polymerase chain reaction for phylogenetic analysis and annotation of genetic characteristics such as arenavirus, coronavirus, astrovirus, pestivirus, parvovirus, and papillomavirus. We identified pestivirus and bocavirus in Leopoldoms edwardsi from Huangjinjiaoling, and bocavirus in Rattus andamanensis from the national nature reserves of Bangxi with low amino acid identity to known pathogens are proposed as the novel species, and their rodent hosts have not been previously reported to carry these viruses. These results expand our knowledge of viral classification and host range and suggest that there are highly diverse, undiscovered viruses that have evolved independently in their unique wildlife hosts in inaccessible areas.
新发传染病（EID）的风险在全球范围内不断增加。全球超过 60%的 EID 是由动物源性病原体引起的。本研究旨在对海南省的啮齿动物携带病毒进行病毒组特征描述、系统进化分析和多样性分析。我们收集了 682 份来自啮齿动物的肛拭子和咽拭子样本，根据物种和采集地点将它们组合成 28 个池，进行下一代测序和生物信息学分析。与哺乳动物密切相关的多样化病毒序列被分配到 22 个病毒科。通过聚合酶链反应进一步鉴定了重要的啮齿动物携带病毒的分子线索，进行了系统进化分析，并对遗传特征进行注释，如沙粒病毒科、冠状病毒科、星状病毒科、瘟病毒科、细小病毒科和乳头瘤病毒科。我们在来自黄金脚岭的爱德华氏貂中鉴定出了瘟病毒和 bocavirus，在来自板溪自然保护区的安氏林鼠中鉴定出了 bocavirus，这些病毒与已知病原体的氨基酸同一性较低，被提议为新种，而其啮齿动物宿主以前没有报道携带这些病毒。这些结果扩展了我们对病毒分类和宿主范围的认识，并表明在难以进入的地区，其独特的野生动物宿主中存在高度多样化、未被发现的独立进化的病毒。
