About: Evolutionary history, potential intermediate animal host, and cross‐species analyses of SARS‐CoV‐2

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An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

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type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	Evolutionary history, potential intermediate animal host, and cross‐species analyses of SARS‐CoV‐2
Creator	Li, Yi Chaillon, Antoine Li, Xingguang Zai, Junjie Nie, Qing Foley, Brian Chaillon, \| Zhao, \|
Source	Medline; PMC; WHO
abstract	To investigate the evolutionary history of the recent outbreak of severe acute respiratory syndrome coronavirus 2 (SARS‐CoV‐2) in China, a total of 70 genomes of virus strains from China and elsewhere with sampling dates between 24 December 2019 and 3 February 2020 were analyzed. To explore the potential intermediate animal host of the SARS‐CoV‐2 virus, we reanalyzed virome data sets from pangolins and representative SARS‐related coronaviruses isolates from bats, with particular attention paid to the spike glycoprotein gene. We performed phylogenetic, split network, transmission network, likelihood‐mapping, and comparative analyses of the genomes. Based on Bayesian time‐scaled phylogenetic analysis using the tip‐dating method, we estimated the time to the most recent common ancestor and evolutionary rate of SARS‐CoV‐2, which ranged from 22 to 24 November 2019 and 1.19 to 1.31 × 10(−3) substitutions per site per year, respectively. Our results also revealed that the BetaCoV/bat/Yunnan/RaTG13/2013 virus was more similar to the SARS‐CoV‐2 virus than the coronavirus obtained from the two pangolin samples (SRR10168377 and SRR10168378). We also identified a unique peptide (PRRA) insertion in the human SARS‐CoV‐2 virus, which may be involved in the proteolytic cleavage of the spike protein by cellular proteases, and thus could impact host range and transmissibility. Interestingly, the coronavirus carried by pangolins did not have the RRAR motif. Therefore, we concluded that the human SARS‐CoV‐2 virus, which is responsible for the recent outbreak of COVID‐19, did not come directly from pangolins.
has issue date	2020-03-11(xsd:dateTime)
bibo:doi	10.1002/jmv.25731
bibo:pmid	32104911
has license	no-cc
sha1sum (hex)	dd87b73244c421e71b387676c12b3ac5b0108591
schema:url	https://doi.org/10.1002/jmv.25731
resource representing a document's title	Evolutionary history, potential intermediate animal host, and cross‐species analyses of SARS‐CoV‐2
has PubMed Central identifier	PMC7228310
has PubMed identifier	32104911
schema:publication	J Med Virol
resource representing a document's body	covid:dd87b73244c421e71b387676c12b3ac5b0108591#body_text
is schema:about of	named entity 'severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)' named entity 'outbreak' named entity 'outbreak' named entity 'spike' named entity 'host' named entity 'potential' named entity 'revealed' named entity 'METHOD' named entity 'SARS-COV-2' named entity 'COME' named entity 'MAY BE' named entity 'FEBRUARY' named entity 'HOST RANGE' named entity 'ANCESTOR' named entity 'CELLULAR' named entity 'RELATED' named entity 'SAMPLES' named entity 'CROSS' named entity 'ANALYZED' named entity 'NOVEMBER' named entity 'TIP' named entity '2019' named entity 'MOTIF' named entity 'TRANSMISSION' named entity 'REANALYZED' named entity 'TIME' named entity 'HAVE' named entity 'COMMON' named entity 'explore' named entity 'pangolins' named entity 'animal' named entity 'responsible' named entity 'Our' named entity 'evolutionary history' named entity 'gene' named entity 'proteolytic cleavage' named entity 'coronavirus' named entity 'severe acute respiratory syndrome coronavirus 2' named entity 'phylogenetic' named entity 'recent common ancestor' named entity 'genomes' named entity 'virus' named entity 'SARS-CoV-2' named entity 'COVID-19' named entity 'host range' named entity 'genome sequence' named entity 'spike protein' named entity 'phylogenetic analysis' named entity 'Belgium' named entity 'pangolins' named entity 'coronavirus' named entity 'bat' named entity 'SARS-CoV-2' named entity 'severe acute respiratory syndrome coronavirus 2' named entity 'coronavirus' named entity 'MERS-CoV' named entity 'coronaviruses' named entity 'genomes' named entity 'phylogenetic analyses' named entity 'Clade' named entity 'posterior probability' named entity 'SARS-CoV-2' named entity 'palm civets' named entity 'MAFFT' named entity 'phylogenetic' named entity 'genetic divergence' named entity 'genomes' named entity 'split network' named entity 'National Natural Science Foundation' named entity 'phylogenetic analyses' named entity 'phylogeny' named entity 'coronavirus' named entity 'Prof.' named entity 'Clade'

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