About: Population Bottlenecks and Intra-host Evolution during Human-to-Human Transmission of SARS-CoV-2

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About: Population Bottlenecks and Intra-host Evolution during Human-to-Human Transmission of SARS-CoV-2 Goto Sponge NotDistinct Permalink

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Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Population Bottlenecks and Intra-host Evolution during Human-to-Human Transmission of SARS-CoV-2
Creator	Li, Min Jin, Xin Zhao, Jincun Wang, Yanqun Zhao, Jingxian Chen, Weijun Zhang, Lu Zhong, Nanshan Li, Yimin Zhu, Airu Xiao, Fei Li, Jiandong Li, Fuqiang Li, Junhua Xu, Yonghao Zhang, Sun, Wanying Cheng, Xinyi Deng, Ziqing Ji, Jingkai Ou, Zhihua Ren, Peidi Wang, Daxi Xiao, Minfeng Xu, Xun Zhong, Huanzi Zhu, Shida Wang, Wen-Jing Zhong, Bei Ruan, Shicong Zhang, Wenwei Zhang, Yongwei
Source	BioRxiv
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. Author summary In this study, we compared SARS-CoV-2 populations of 13 Chinese COVID-19 patients. Those viral populations contained a considerable proportion of viral sub-genomic messenger RNAs (sgmRNA), reflecting an active viral replication activity in the respiratory tract tissues. The comparison of 66 identified intra-host variants further showed a low viral genetic distance between intra-household patients and a narrow transmission bottleneck size. Despite the co-existence of genetically distinct viruses within the same host, most intra-host minor variants were not shared between transmission pairs, suggesting a dominated role of stochastic dynamics in both inter-host and intra-host evolutions. Furthermore, the narrow bottleneck and active viral activity in the respiratory tract show that the passage of a small number of virions can cause infection. Our data have therefore delivered a key genomic resource for the SARS-CoV-2 transmission research and enhanced our understanding of the evolutionary dynamics of SARS-CoV-2.
has issue date	2020-06-26(xsd:dateTime)
bibo:doi	10.1101/2020.06.26.173203
has license	biorxiv
sha1sum (hex)	1fbf5a666442322641763baffd195c293ffd1034
schema:url	https://doi.org/10.1101/2020.06.26.173203
resource representing a document's title	Population Bottlenecks and Intra-host Evolution during Human-to-Human Transmission of SARS-CoV-2
schema:publication	bioRxiv
resource representing a document's body	covid:1fbf5a666442322641763baffd195c293ffd1034#body_text
is schema:about of	named entity 'SARS-CoV-2' named entity 'VIRAL REPLICATION' named entity 'REVEALED' named entity 'INTER-' named entity 'DISEASE' named entity 'NOVEL' named entity 'VIRUSES' named entity 'HUMAN CORONAVIRUS' named entity '2019' named entity 'COVID-19' named entity 'POPULATIONS' named entity 'HOUSEHOLDS' named entity 'CHARACTERIZED' named entity 'OUR' named entity 'patients' named entity 'SARS-CoV-2' named entity 'reverse transcriptase quantitative PCR' named entity 'single nucleotide variants' named entity 'stochastic' named entity 'respiratory viral infections' named entity 'COVID-19' named entity 'viral replication' named entity 'symptom' named entity 'reference genome' named entity 'coronaviridae' named entity 'RNA' named entity 'gene' named entity 'viral replication' named entity 'genetic distance' named entity 'sputum' named entity 'Coronaviridae' named entity 'RT-qPCR' named entity 'reference genome' named entity 'COVID' named entity 'respiratory tract' named entity 'SARS-CoV-2' named entity 'bottleneck' named entity 'bottleneck' named entity 'Thermo Fisher Scientific' named entity 'global' named entity 'Here' named entity 'human coronavirus' named entity 'stochastic' named entity 'genetic distance' named entity 'Spearman's ρ' named entity 'co-infected' named entity 'respiratory tract' named entity 'Guangdong, China' named entity 'Germany' named entity 'Shenzhen' named entity 'viral replication' named entity 'virions' named entity 'SARS-CoV-2'

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