. 2022 May;84(5):722-746.

doi: 10.1016/j.jinf.2022.01.016. Epub 2022 Jan 15.

Intra-host SARS-CoV-2 single-nucleotide variants emerged during the early stage of COVID-19 pandemic forecast population fixing mutations

Yi Zhang¹, Ning Jiang², Weiqiang Qi³, Tao Li³, Yumeng Zhang¹, Haocheng Zhang¹, Jing Wu¹, Zhaoqin Zhu⁴, Jingwen Ai⁵, Chao Qiu⁶, Wenhong Zhang⁷

Affiliations

¹ Department of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Shanghai Key Laboratory of Infectious Diseases and Biosafety Emergency Response, Huashan Hospital, Fudan University, Shanghai, China.
² Department of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Shanghai Key Laboratory of Infectious Diseases and Biosafety Emergency Response, Huashan Hospital, Fudan University, Shanghai, China; State Key Laboratory of Genetic Engineering and Institute of Biostatistics, School of Life Sciences, Fudan University, Shanghai, China.
³ Shanghai Public Health Clinical Center, Shanghai, China.
⁴ Shanghai Public Health Clinical Center, Shanghai, China. Electronic address: zhaoqinzhu@163.com.
⁵ Department of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Shanghai Key Laboratory of Infectious Diseases and Biosafety Emergency Response, Huashan Hospital, Fudan University, Shanghai, China. Electronic address: jingwenai1990@126.com.
⁶ Department of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Shanghai Key Laboratory of Infectious Diseases and Biosafety Emergency Response, Huashan Hospital, Fudan University, Shanghai, China; Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University, Shanghai, China. Electronic address: qiuchao@fudan.edu.cn.
⁷ Department of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Shanghai Key Laboratory of Infectious Diseases and Biosafety Emergency Response, Huashan Hospital, Fudan University, Shanghai, China; Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University, Shanghai, China; State Key Laboratory of Genetic Engineering and Institute of Biostatistics, School of Life Sciences, Fudan University, Shanghai, China; Key Laboratory of Medical Molecular Virology (MOE/MOH), Shanghai Medical College, Fudan University, Shanghai, China. Electronic address: zhangwenhong@fudan.edu.cn.

PMID: 35041922
PMCID: PMC8760650
DOI: 10.1016/j.jinf.2022.01.016

Intra-host SARS-CoV-2 single-nucleotide variants emerged during the early stage of COVID-19 pandemic forecast population fixing mutations

Yi Zhang et al. J Infect. 2022 May.

. 2022 May;84(5):722-746.

doi: 10.1016/j.jinf.2022.01.016. Epub 2022 Jan 15.

Authors

Yi Zhang¹, Ning Jiang², Weiqiang Qi³, Tao Li³, Yumeng Zhang¹, Haocheng Zhang¹, Jing Wu¹, Zhaoqin Zhu⁴, Jingwen Ai⁵, Chao Qiu⁶, Wenhong Zhang⁷

Affiliations

¹ Department of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Shanghai Key Laboratory of Infectious Diseases and Biosafety Emergency Response, Huashan Hospital, Fudan University, Shanghai, China.
² Department of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Shanghai Key Laboratory of Infectious Diseases and Biosafety Emergency Response, Huashan Hospital, Fudan University, Shanghai, China; State Key Laboratory of Genetic Engineering and Institute of Biostatistics, School of Life Sciences, Fudan University, Shanghai, China.
³ Shanghai Public Health Clinical Center, Shanghai, China.
⁴ Shanghai Public Health Clinical Center, Shanghai, China. Electronic address: zhaoqinzhu@163.com.
⁵ Department of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Shanghai Key Laboratory of Infectious Diseases and Biosafety Emergency Response, Huashan Hospital, Fudan University, Shanghai, China. Electronic address: jingwenai1990@126.com.
⁶ Department of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Shanghai Key Laboratory of Infectious Diseases and Biosafety Emergency Response, Huashan Hospital, Fudan University, Shanghai, China; Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University, Shanghai, China. Electronic address: qiuchao@fudan.edu.cn.
⁷ Department of Infectious Diseases, National Clinical Research Center for Aging and Medicine, Shanghai Key Laboratory of Infectious Diseases and Biosafety Emergency Response, Huashan Hospital, Fudan University, Shanghai, China; Institutes of Biomedical Sciences, Shanghai Medical College, Fudan University, Shanghai, China; State Key Laboratory of Genetic Engineering and Institute of Biostatistics, School of Life Sciences, Fudan University, Shanghai, China; Key Laboratory of Medical Molecular Virology (MOE/MOH), Shanghai Medical College, Fudan University, Shanghai, China. Electronic address: zhangwenhong@fudan.edu.cn.

PMID: 35041922
PMCID: PMC8760650
DOI: 10.1016/j.jinf.2022.01.016

No abstract available

Keywords: COVID-19; Fixed mutation; Intra-host single-nucleotide variants; SARS-CoV-2.

PubMed Disclaimer

Conflict of interest statement

Declarations of Competing Interest All authors report no potential conflict of interest.

Figures

Fig 1 — **Fig. 1**
The dynamics mutation rate of iSNV 10029, 11428 and 22992 since December, 2019. (a) The dynamics fixed mutation rate of iSNV 10029 since December, 2021. The fixed mutation emerged from 2020/01 and ascend dramatically from 2021/07.(b) The dynamics fixed mutation rate of iSNV 11418 since December, 2021. The fixed mutation emerged from 2020/05 and ascend dramatically from 2021/06.(c) The dynamics fixed mutation rate of iSNV 22992 since December, 2021. The fixed mutation emerged from 2020/01 and ascend quickly from 2020/07.(d) The proportion of dominant fixed mutations in substitution C>U/G>A and the other five substitutions.

See this image and copyright information in PMC

Comment in

Cohorting inpatients with Omicron and Delta variants of Sars-CoV-2 does not increase rates of mixed infection.
Davies J, Gibani MM, Portone G, McGregor A. Davies J, et al. J Infect. 2022 Jul;85(1):e18-e20. doi: 10.1016/j.jinf.2022.04.021. Epub 2022 Apr 12. J Infect. 2022. PMID: 35427720 Free PMC article. No abstract available.
Molecular evolution of the SARS-CoV-2 omicron BA.2 variant in kidney transplant recipients with prolonged viral shedding.
Caillard S, Laugel E, Benotmane I, Fafi Kremer S. Caillard S, et al. J Infect. 2023 May;86(5):513-515. doi: 10.1016/j.jinf.2023.02.001. Epub 2023 Feb 9. J Infect. 2023. PMID: 36764392 Free PMC article. No abstract available.

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Intra-host SARS-CoV-2 single-nucleotide variants emerged during the early stage of COVID-19 pandemic forecast population fixing mutations

Affiliations

Intra-host SARS-CoV-2 single-nucleotide variants emerged during the early stage of COVID-19 pandemic forecast population fixing mutations

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