Zou Yanyan, Cao Xiaojian, Yang Bing, Deng Lulu, Xu Yangyang, Dong Shuang, Li Wentao, Wu Chengchao, Cao Gang
State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan, China.
College of Informatics, Huazhong Agricultural University, Wuhan, China.
Front Mol Biosci. 2022 Feb 8;9:831876. doi: 10.3389/fmolb.2022.831876. eCollection 2022.
Coronaviruses are a great source of threat to public health which could infect various species and cause diverse diseases. However, the epidemic's spreading among different species remains elusive. This study proposed an infection analysis (iSFA) system that includes pathogen genome or transcript mining in transcriptome data of the potential host and performed a comprehensive analysis about the infection of 38 coronaviruses in wild animals, based on 2,257 transcriptome datasets from 89 mammals' lung and intestine, and revealed multiple potential coronavirus infections including porcine epidemic diarrhea virus (PEDV) infection in . Then, through our transmission network analysis, potential intermediate hosts of five coronaviruses were identified. Notably, iSFA results suggested that the expression of coronavirus receptor genes tended to be downregulated after infection by another virus. Finally, binding affinity and interactive interface analysis of S1 protein and ACE2 from different species demonstrated the potential inter-species transmission barrier and cross-species transmission of SARS-CoV-2. Meanwhile, the iSFA system developed in this study could be further applied to conduct the source tracing and host prediction of other pathogen-induced diseases, thus contributing to the epidemic prevention and control.
冠状病毒是对公共卫生的重大威胁源，可感染多种物种并引发多种疾病。然而，该流行病在不同物种间的传播情况仍不清楚。本研究提出了一种感染分析（iSFA）系统，该系统包括在潜在宿主的转录组数据中挖掘病原体基因组或转录本，并基于来自89种哺乳动物肺和肠道的2257个转录组数据集，对38种冠状病毒在野生动物中的感染情况进行了全面分析，揭示了多种潜在的冠状病毒感染，包括猪流行性腹泻病毒（PEDV）感染。然后，通过我们的传播网络分析，确定了五种冠状病毒的潜在中间宿主。值得注意的是，iSFA结果表明，冠状病毒受体基因的表达在被另一种病毒感染后往往会下调。最后，对不同物种的S1蛋白和ACE2进行结合亲和力和相互作用界面分析，证明了SARS-CoV-2的潜在种间传播障碍和跨物种传播。同时，本研究开发的iSFA系统可进一步应用于其他病原体引起疾病的溯源和宿主预测，从而有助于疫情防控。
