About: An update on the origin of SARS‐CoV‐2: Despite closest identity, bat (RaTG13) and pangolin derived coronaviruses varied in the critical binding site and O‐linked glycan residues

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About: An update on the origin of SARS‐CoV‐2: Despite closest identity, bat (RaTG13) and pangolin derived coronaviruses varied in the critical binding site and O‐linked glycan residues Goto Sponge NotDistinct Permalink

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

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	An update on the origin of SARS‐CoV‐2: Despite closest identity, bat (RaTG13) and pangolin derived coronaviruses varied in the critical binding site and O‐linked glycan residues
Creator	Arumugam, Suresh Gokul, \| Kamalraj, \| Malaiyan, Jeevan Radhakrishnan, Gomathi
Source	Medline; PMC
abstract	The initial cases of severe acute respiratory syndrome coronavirus‐2 (SARS‐CoV‐2) occurred in Wuhan, China, in December 2019 and swept the world by 23 June 2020 with 8 993 659 active cases, 469 587 deaths across 216 countries, areas or territories. This strongly implies global transmission occurred before the lockdown of China. However, the initial source's transmission routes of SARS‐CoV‐2 remain obscure and controversial. Research data suggest bat (RaTG13) and pangolin carried CoV were the proximal source of SARS‐CoV‐2. In this study, we used systematic phylogenetic analysis of Coronavirinae subfamily along with wild type human SARS‐CoV, MERS‐CoV, and SARS‐CoV‐2 strains. The key residues of the receptor‐binding domain (RBD) and O‐linked glycan were compared. SARS‐CoV‐2 strains were clustered with RaTG13 (97.41% identity), Pangolin‐CoV (92.22% identity) and Bat‐SL‐CoV (80.36% identity), forms a new clade‐2 in lineage B of beta‐CoV. The alignments of RBD contact residues to ACE2 justified? Those SARS‐CoV‐2 strains sequences were 100% identical by each other, significantly varied in RaTG13 and pangolin‐CoV. SARS‐CoV‐2 has a polybasic cleavage site with an inserted sequence of PRRA compared to RaTG13 and only PRR to pangolin. Only serine (Ser) in pangolin and both threonine (Thr) and serine (Ser) O‐linked glycans were seen in RaTG13, suggesting that a detailed study needed in pangolin (Manis javanica) and bat (Rhinolophus affinis) related CoV.
has issue date	2020-07-14(xsd:dateTime)
bibo:doi	10.1002/jmv.26261
bibo:pmid	32633815
has license	no-cc
sha1sum (hex)	453ba2461bfb376912ab7e7002bd49b0648a1e02
schema:url	https://doi.org/10.1002/jmv.26261
resource representing a document's title	An update on the origin of SARS‐CoV‐2: Despite closest identity, bat (RaTG13) and pangolin derived coronaviruses varied in the critical binding site and O‐linked glycan residues
has PubMed Central identifier	PMC7361880
has PubMed identifier	32633815
schema:publication	J Med Virol
resource representing a document's body	covid:453ba2461bfb376912ab7e7002bd49b0648a1e02#body_text
is schema:about of	named entity 'systematic' named entity 'areas' named entity 'varied' named entity 'China' named entity 'clustered' named entity 'site' named entity 'SARS-CoV-2' named entity 'CASES' named entity 'BETA-COV' named entity 'BINDING' named entity 'CLADE' named entity 'PRR' named entity 'NEW' named entity 'SEVERE ACUTE RESPIRATORY SYNDROME CORONAVIRUS' named entity 'ACE2' named entity 'NEEDED' named entity '2019' named entity 'IDENTITY' named entity 'RECEPTOR' named entity 'INITIAL' named entity 'OCCURRED' named entity '993' named entity 'WORLD' named entity 'initial' named entity 'glycan' named entity 'pangolin' named entity 'PRR' named entity 'routes' named entity 'SARS-CoV' named entity 'residues' named entity 'residues' named entity 'SARS-CoV-2' named entity 'pangolin' named entity 'clade' named entity 'wild type' named entity 'Coronavirinae' named entity 'RBD' named entity 'SARS-CoV-2' named entity 'proximal' named entity 'MERS-CoV' named entity 'SARS-CoV-2' named entity 'SARS-CoV-2' named entity 'SARS-CoV-2' named entity 'glycan' named entity 'binding site' named entity 'pangolin' named entity 'vaccine' named entity 'amino acid sequences' named entity 'Wuhan seafood market' named entity 'SARS-CoV-2' named entity 'MERS-CoV' named entity 'SARS-CoV-2' named entity 'adaptive function' named entity 'CoV' named entity 'ACE2' named entity 'glycan' named entity 'glycan' named entity 'protein' named entity 'receptor' named entity 'bat' named entity 'bat' named entity 'SARS-CoV' named entity 'spike protein' named entity 'CoV' named entity 'O-linked' named entity 'viruses' named entity 'bat' named entity 'pangolin' named entity 'β-CoV' named entity 'SARS-CoV-2' named entity 'Malayan pangolin' named entity 'SARS-CoV-2' named entity 'Manis javanica' named entity 'pangolin' named entity 'O-linked' named entity 'glycan' named entity 'bat'

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