Article ; Online: Updated SARS-CoV-2 single nucleotide variants and mortality association.
2021 Volume 93, Issue 12, Page(s) 6525–6534
Abstract: ... about SARS-CoV-2 single nucleotide variants (SNVs) before June 2020, we found that the SNV clustering had ... By analyzing newly collected SARS-CoV-2 genomes and comparing them with our previous study ... subgroups of nonsynonymous SNVs and the mortality-related ones were located on the protein surface area ...
| Abstract | By analyzing newly collected SARS-CoV-2 genomes and comparing them with our previous study about SARS-CoV-2 single nucleotide variants (SNVs) before June 2020, we found that the SNV clustering had changed remarkably since June 2020. Apart from that the group of SNVs became dominant, which is represented by two nonsynonymous mutations A23403G (S:D614G) and C14408T (ORF1ab:P4715L), a few emerging groups of SNVs were recognized with sharply increased monthly incidence ratios of up to 70% in November 2020. Further investigation revealed sets of SNVs specific to patients' ages and/or gender, or strongly associated with mortality. Our logistic regression model explored features contributing to mortality status, including three critical SNVs, G25088T(S:V1176F), T27484C (ORF7a:L31L), and T25A (upstream of ORF1ab), ages above 40 years old, and the male gender. The protein structure analysis indicated that the emerging subgroups of nonsynonymous SNVs and the mortality-related ones were located on the protein surface area. The clashes in protein structure introduced by these mutations might in turn affect the viral pathogenesis through the alteration of protein conformation, leading to a difference in transmission and virulence. Particularly, we explored the fact that nonsynonymous SNVs tended to occur in intrinsic disordered regions of Spike and ORF1ab to significantly increase hydrophobicity, suggesting a potential role in the change of protein folding related to immune evasion. |
|---|---|
| MeSH term(s) | Adult ; Aged ; Aged, 80 and over ; COVID-19/mortality ; COVID-19/pathology ; Female ; Genome, Viral/genetics ; Humans ; Male ; Middle Aged ; Mutation ; Polymorphism, Single Nucleotide/genetics ; Polyproteins/genetics ; SARS-CoV-2/genetics ; SARS-CoV-2/pathogenicity ; Spike Glycoprotein, Coronavirus/genetics ; Viral Proteins/genetics ; Virulence/genetics ; Young Adult |
| Chemical Substances | ORF1ab polyprotein, SARS-CoV-2 ; Polyproteins ; Spike Glycoprotein, Coronavirus ; Viral Proteins ; spike protein, SARS-CoV-2 |
| Language | English |
| Publishing date | 2021-07-16 |
| Publishing country | United States |
| Document type | Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't |
| ZDB-ID | 752392-0 |
| ISSN | 1096-9071 ; 0146-6615 |
| ISSN (online) | 1096-9071 |
| ISSN | 0146-6615 |
| DOI | 10.1002/jmv.27191 |
| Database | MEDical Literature Analysis and Retrieval System OnLINE |
Full text online
More links
Kategorien
In stock of ZB MED Cologne/Königswinter
| Zs.A 1320: Show issues | Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (1.OG) ab Jg. 2022: Lesesaal (EG) |
Order via subito
This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.