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Genomic surveillance of COVID-19 cases in Beijing
The spread of SARS-CoV-2 in Beijing before May, 2020 resulted from transmission following both domestic and global importation of cases. Here we present genomic surveillance data on 102 imported cases, which account for 17.2% of the total cases in Beijing. Our data suggest that all of the cases in B...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7603498/ https://www.ncbi.nlm.nih.gov/pubmed/33127911 http://dx.doi.org/10.1038/s41467-020-19345-0 |
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author | Du, Pengcheng Ding, Nan Li, Jiarui Zhang, Fujie Wang, Qi Chen, Zhihai Song, Chuan Han, Kai Xie, Wen Liu, Jingyuan Wang, Linghang Wei, Lirong Ma, Shanfang Hua, Mingxi Yu, Fengting Wang, Lin Wang, Wei An, Kang Chen, Jianjun Liu, Haizhou Gao, Guiju Wang, Sa Huang, Yanyi Wu, Angela R. Wang, Jianbin Liu, Di Zeng, Hui Chen, Chen |
author_facet | Du, Pengcheng Ding, Nan Li, Jiarui Zhang, Fujie Wang, Qi Chen, Zhihai Song, Chuan Han, Kai Xie, Wen Liu, Jingyuan Wang, Linghang Wei, Lirong Ma, Shanfang Hua, Mingxi Yu, Fengting Wang, Lin Wang, Wei An, Kang Chen, Jianjun Liu, Haizhou Gao, Guiju Wang, Sa Huang, Yanyi Wu, Angela R. Wang, Jianbin Liu, Di Zeng, Hui Chen, Chen |
author_sort | Du, Pengcheng |
collection | PubMed |
description | The spread of SARS-CoV-2 in Beijing before May, 2020 resulted from transmission following both domestic and global importation of cases. Here we present genomic surveillance data on 102 imported cases, which account for 17.2% of the total cases in Beijing. Our data suggest that all of the cases in Beijing can be broadly classified into one of three groups: Wuhan exposure, local transmission and overseas imports. We classify all sequenced genomes into seven clusters based on representative high-frequency single nucleotide polymorphisms (SNPs). Genomic comparisons reveal higher genomic diversity in the imported group compared to both the Wuhan exposure and local transmission groups, indicating continuous genomic evolution during global transmission. The imported group show region-specific SNPs, while the intra-host single nucleotide variations present as random features, and show no significant differences among groups. Epidemiological data suggest that detection of cases at immigration with mandatory quarantine may be an effective way to prevent recurring outbreaks triggered by imported cases. Notably, we also identify a set of novel indels. Our data imply that SARS-CoV-2 genomes may have high mutational tolerance. |
format | Online Article Text |
id | pubmed-7603498 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-76034982020-11-10 Genomic surveillance of COVID-19 cases in Beijing Du, Pengcheng Ding, Nan Li, Jiarui Zhang, Fujie Wang, Qi Chen, Zhihai Song, Chuan Han, Kai Xie, Wen Liu, Jingyuan Wang, Linghang Wei, Lirong Ma, Shanfang Hua, Mingxi Yu, Fengting Wang, Lin Wang, Wei An, Kang Chen, Jianjun Liu, Haizhou Gao, Guiju Wang, Sa Huang, Yanyi Wu, Angela R. Wang, Jianbin Liu, Di Zeng, Hui Chen, Chen Nat Commun Article The spread of SARS-CoV-2 in Beijing before May, 2020 resulted from transmission following both domestic and global importation of cases. Here we present genomic surveillance data on 102 imported cases, which account for 17.2% of the total cases in Beijing. Our data suggest that all of the cases in Beijing can be broadly classified into one of three groups: Wuhan exposure, local transmission and overseas imports. We classify all sequenced genomes into seven clusters based on representative high-frequency single nucleotide polymorphisms (SNPs). Genomic comparisons reveal higher genomic diversity in the imported group compared to both the Wuhan exposure and local transmission groups, indicating continuous genomic evolution during global transmission. The imported group show region-specific SNPs, while the intra-host single nucleotide variations present as random features, and show no significant differences among groups. Epidemiological data suggest that detection of cases at immigration with mandatory quarantine may be an effective way to prevent recurring outbreaks triggered by imported cases. Notably, we also identify a set of novel indels. Our data imply that SARS-CoV-2 genomes may have high mutational tolerance. Nature Publishing Group UK 2020-10-30 /pmc/articles/PMC7603498/ /pubmed/33127911 http://dx.doi.org/10.1038/s41467-020-19345-0 Text en © The Author(s) 2020 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Du, Pengcheng Ding, Nan Li, Jiarui Zhang, Fujie Wang, Qi Chen, Zhihai Song, Chuan Han, Kai Xie, Wen Liu, Jingyuan Wang, Linghang Wei, Lirong Ma, Shanfang Hua, Mingxi Yu, Fengting Wang, Lin Wang, Wei An, Kang Chen, Jianjun Liu, Haizhou Gao, Guiju Wang, Sa Huang, Yanyi Wu, Angela R. Wang, Jianbin Liu, Di Zeng, Hui Chen, Chen Genomic surveillance of COVID-19 cases in Beijing |
title | Genomic surveillance of COVID-19 cases in Beijing |
title_full | Genomic surveillance of COVID-19 cases in Beijing |
title_fullStr | Genomic surveillance of COVID-19 cases in Beijing |
title_full_unstemmed | Genomic surveillance of COVID-19 cases in Beijing |
title_short | Genomic surveillance of COVID-19 cases in Beijing |
title_sort | genomic surveillance of covid-19 cases in beijing |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7603498/ https://www.ncbi.nlm.nih.gov/pubmed/33127911 http://dx.doi.org/10.1038/s41467-020-19345-0 |
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