Article ; Online: 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.
2020 Volume 93, Issue 1, Page(s) 499–505
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 ... ...
| 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. |
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| MeSH term(s) | Animals ; Binding Sites ; China ; Chiroptera/virology ; Communicable Disease Control ; Coronavirus/genetics ; Coronavirus Envelope Proteins/chemistry ; Coronavirus Envelope Proteins/genetics ; Gene Expression Regulation, Viral ; Host Specificity ; Humans ; Models, Molecular ; Pangolins/virology ; Phylogeny ; Polysaccharides/chemistry ; Polysaccharides/metabolism ; Protein Conformation ; SARS-CoV-2/genetics ; Spike Glycoprotein, Coronavirus/chemistry ; Spike Glycoprotein, Coronavirus/genetics |
| Chemical Substances | Coronavirus Envelope Proteins ; Polysaccharides ; Spike Glycoprotein, Coronavirus |
| Keywords | covid19 |
| Language | English |
| Publishing date | 2020-07-14 |
| Publishing country | United States |
| Document type | Journal Article |
| ZDB-ID | 752392-0 |
| ISSN | 1096-9071 ; 0146-6615 |
| ISSN (online) | 1096-9071 |
| ISSN | 0146-6615 |
| DOI | 10.1002/jmv.26261 |
| Database | MEDical Literature Analysis and Retrieval System OnLINE |
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