Frontiers in Medicine (Feb 2021)
Population Bottlenecks and Intra-host Evolution During Human-to-Human Transmission of SARS-CoV-2
- Daxi Wang,
- Daxi Wang,
- Yanqun Wang,
- Wanying Sun,
- Wanying Sun,
- Wanying Sun,
- Lu Zhang,
- Lu Zhang,
- Jingkai Ji,
- Jingkai Ji,
- Zhaoyong Zhang,
- Xinyi Cheng,
- Xinyi Cheng,
- Xinyi Cheng,
- Yimin Li,
- Fei Xiao,
- Airu Zhu,
- Bei Zhong,
- Shicong Ruan,
- Jiandong Li,
- Jiandong Li,
- Jiandong Li,
- Peidi Ren,
- Peidi Ren,
- Zhihua Ou,
- Zhihua Ou,
- Minfeng Xiao,
- Minfeng Xiao,
- Min Li,
- Min Li,
- Min Li,
- Ziqing Deng,
- Ziqing Deng,
- Huanzi Zhong,
- Huanzi Zhong,
- Huanzi Zhong,
- Fuqiang Li,
- Fuqiang Li,
- Fuqiang Li,
- Wen-jing Wang,
- Wen-jing Wang,
- Yongwei Zhang,
- Weijun Chen,
- Weijun Chen,
- Shida Zhu,
- Shida Zhu,
- Xun Xu,
- Xun Xu,
- Xin Jin,
- Jingxian Zhao,
- Nanshan Zhong,
- Wenwei Zhang,
- Jincun Zhao,
- Jincun Zhao,
- Junhua Li,
- Junhua Li,
- Junhua Li,
- Yonghao Xu
Affiliations
- Daxi Wang
- BGI-Shenzhen, Shenzhen, China
- Daxi Wang
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Yanqun Wang
- State Key Laboratory of Respiratory Disease, National Clinical Research Center for Respiratory Disease, Guangzhou Institute of Respiratory Health, The First Affiliated Hospital of Guangzhou Medical University, Guangzhou, China
- Wanying Sun
- BGI-Shenzhen, Shenzhen, China
- Wanying Sun
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Wanying Sun
- BGI Education Center, University of Chinese Academy of Sciences, Shenzhen, China
- Lu Zhang
- State Key Laboratory of Respiratory Disease, National Clinical Research Center for Respiratory Disease, Guangzhou Institute of Respiratory Health, The First Affiliated Hospital of Guangzhou Medical University, Guangzhou, China
- Lu Zhang
- Institute of Infectious Disease, Guangzhou Eighth People's Hospital of Guangzhou Medical University, Guangzhou, China
- Jingkai Ji
- BGI-Shenzhen, Shenzhen, China
- Jingkai Ji
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Zhaoyong Zhang
- State Key Laboratory of Respiratory Disease, National Clinical Research Center for Respiratory Disease, Guangzhou Institute of Respiratory Health, The First Affiliated Hospital of Guangzhou Medical University, Guangzhou, China
- Xinyi Cheng
- BGI-Shenzhen, Shenzhen, China
- Xinyi Cheng
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Xinyi Cheng
- School of Biology and Biological Engineering, South China University of Technology, Guangzhou, China
- Yimin Li
- State Key Laboratory of Respiratory Disease, National Clinical Research Center for Respiratory Disease, Guangzhou Institute of Respiratory Health, The First Affiliated Hospital of Guangzhou Medical University, Guangzhou, China
- Fei Xiao
- Guangdong Provincial Key Laboratory of Biomedical Imaging, Department of Infectious Diseases, Guangdong Provincial Engineering Research Center of Molecular Imaging, The Fifth Affiliated Hospital, Sun Yat-sen University, Zhuhai, China
- Airu Zhu
- State Key Laboratory of Respiratory Disease, National Clinical Research Center for Respiratory Disease, Guangzhou Institute of Respiratory Health, The First Affiliated Hospital of Guangzhou Medical University, Guangzhou, China
- Bei Zhong
- The Sixth Affiliated Hospital of Guangzhou Medical University, Qingyuan People's Hospital, Qingyuan, China
- Shicong Ruan
- Yangjiang People's Hospital, Yangjiang, China
- Jiandong Li
- BGI-Shenzhen, Shenzhen, China
- Jiandong Li
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Jiandong Li
- BGI Education Center, University of Chinese Academy of Sciences, Shenzhen, China
- Peidi Ren
- BGI-Shenzhen, Shenzhen, China
- Peidi Ren
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Zhihua Ou
- BGI-Shenzhen, Shenzhen, China
- Zhihua Ou
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Minfeng Xiao
- BGI-Shenzhen, Shenzhen, China
- Minfeng Xiao
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Min Li
- BGI-Shenzhen, Shenzhen, China
- Min Li
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Min Li
- BGI Education Center, University of Chinese Academy of Sciences, Shenzhen, China
- Ziqing Deng
- BGI-Shenzhen, Shenzhen, China
- Ziqing Deng
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Huanzi Zhong
- BGI-Shenzhen, Shenzhen, China
- Huanzi Zhong
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Huanzi Zhong
- 0Laboratory of Genomics and Molecular Biomedicine, Department of Biology, University of Copenhagen, Copenhagen, Denmark
- Fuqiang Li
- BGI-Shenzhen, Shenzhen, China
- Fuqiang Li
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Fuqiang Li
- 1Guangdong Provincial Key Laboratory of Human Disease Genomics, Shenzhen Key Laboratory of Genomics, BGI-Shenzhen, Shenzhen, China
- Wen-jing Wang
- BGI-Shenzhen, Shenzhen, China
- Wen-jing Wang
- 1Guangdong Provincial Key Laboratory of Human Disease Genomics, Shenzhen Key Laboratory of Genomics, BGI-Shenzhen, Shenzhen, China
- Yongwei Zhang
- BGI-Shenzhen, Shenzhen, China
- Weijun Chen
- BGI Education Center, University of Chinese Academy of Sciences, Shenzhen, China
- Weijun Chen
- 2BGI PathoGenesis Pharmaceutical Technology, BGI-Shenzhen, Shenzhen, China
- Shida Zhu
- BGI-Shenzhen, Shenzhen, China
- Shida Zhu
- 3Shenzhen Engineering Laboratory for Innovative Molecular Diagnostics, BGI-Shenzhen, Shenzhen, China
- Xun Xu
- BGI-Shenzhen, Shenzhen, China
- Xun Xu
- 4Guangdong Provincial Key Laboratory of Genome Read and Write, BGI-Shenzhen, Shenzhen, China
- Xin Jin
- BGI-Shenzhen, Shenzhen, China
- Jingxian Zhao
- State Key Laboratory of Respiratory Disease, National Clinical Research Center for Respiratory Disease, Guangzhou Institute of Respiratory Health, The First Affiliated Hospital of Guangzhou Medical University, Guangzhou, China
- Nanshan Zhong
- State Key Laboratory of Respiratory Disease, National Clinical Research Center for Respiratory Disease, Guangzhou Institute of Respiratory Health, The First Affiliated Hospital of Guangzhou Medical University, Guangzhou, China
- Wenwei Zhang
- BGI-Shenzhen, Shenzhen, China
- Jincun Zhao
- State Key Laboratory of Respiratory Disease, National Clinical Research Center for Respiratory Disease, Guangzhou Institute of Respiratory Health, The First Affiliated Hospital of Guangzhou Medical University, Guangzhou, China
- Jincun Zhao
- Institute of Infectious Disease, Guangzhou Eighth People's Hospital of Guangzhou Medical University, Guangzhou, China
- Junhua Li
- BGI-Shenzhen, Shenzhen, China
- Junhua Li
- Shenzhen Key Laboratory of Unknown Pathogen Identification, BGI-Shenzhen, Shenzhen, China
- Junhua Li
- School of Biology and Biological Engineering, South China University of Technology, Guangzhou, China
- Yonghao Xu
- State Key Laboratory of Respiratory Disease, National Clinical Research Center for Respiratory Disease, Guangzhou Institute of Respiratory Health, The First Affiliated Hospital of Guangzhou Medical University, Guangzhou, China
- DOI
- https://doi.org/10.3389/fmed.2021.585358
- Journal volume & issue
-
Vol. 8
Abstract
The emergence of the novel human coronavirus, SARS-CoV-2, causes a global COVID-19 (coronavirus disease 2019) pandemic. Here, we have characterized and compared viral populations of SARS-CoV-2 among COVID-19 patients within and across households. Our work showed an active viral replication activity in the human respiratory tract and the co-existence of genetically distinct viruses within the same host. The inter-host comparison among viral populations further revealed a narrow transmission bottleneck between patients from the same households, suggesting a dominated role of stochastic dynamics in both inter-host and intra-host evolutions.
Keywords
