生物
大流行
2019年冠状病毒病(COVID-19)
2019-20冠状病毒爆发
病毒学
严重急性呼吸综合征冠状病毒2型(SARS-CoV-2)
野生动物
野生动物贸易
进化生物学
生态学
爆发
传染病(医学专业)
疾病
医学
病理
作者
Alexander Crits‐Christoph,Joshua I. Levy,Jonathan E. Pekar,Stephen A. Goldstein,Reema Singh,Zach Hensel,Karthik Gangavarapu,Matthew B. Rogers,Niema Moshiri,Robert F. Garry,Edward C. Holmes,Marion Koopmans,Philippe Lemey,Thomas P. Peacock,Saskia Popescu,Andrew Rambaut,Emma C. Thomson,Marc A. Suchard,Joel O. Wertheim,Angela L. Rasmussen,Kristian G. Andersen,Michael Worobey,Florence Débarre
出处
期刊:Cell
[Elsevier]
日期:2024-09-01
卷期号:187 (19): 5468-5482.e11
被引量:1
标识
DOI:10.1016/j.cell.2024.08.010
摘要
Zoonotic spillovers of viruses have occurred through the animal trade worldwide. The start of the COVID-19 pandemic was traced epidemiologically to the Huanan Seafood Wholesale Market. Here, we analyze environmental qPCR and sequencing data collected in the Huanan market in early 2020. We demonstrate that market-linked severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genetic diversity is consistent with market emergence and find increased SARS-CoV-2 positivity near and within a wildlife stall. We identify wildlife DNA in all SARS-CoV-2-positive samples from this stall, including species such as civets, bamboo rats, and raccoon dogs, previously identified as possible intermediate hosts. We also detect animal viruses that infect raccoon dogs, civets, and bamboo rats. Combining metagenomic and phylogenetic approaches, we recover genotypes of market animals and compare them with those from farms and other markets. This analysis provides the genetic basis for a shortlist of potential intermediate hosts of SARS-CoV-2 to prioritize for serological and viral sampling.
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