Different mutations in SARS-CoV-2 associate with severe and mild outcome.

International Journal of Antimicrobial Agents
Ádám NagyBalázs Győrffy

Abstract

Genomic alterations in a viral genome can lead to either better or worse outcome and identifying these mutations is of utmost importance. Here, we correlated protein-level mutations in the SARS-CoV-2 virus to clinical outcome. Mutations in viral sequences from the GISAID virus repository were evaluated by using "hCoV-19/Wuhan/WIV04/2019" as the reference. Patient outcomes were classified as mild disease, hospitalization and severe disease (death or documented treatment in an intensive-care unit). Chi-square test was applied to examine the association between each mutation and patient outcome. False discovery rate was computed to correct for multiple hypothesis testing and results passing FDR cutoff of 5% were accepted as significant. Mutations were mapped to amino acid changes for 3,733 non-silent mutations. Mutations correlated to mild outcome were located in the ORF8, NSP6, ORF3a, NSP4, and in the nucleocapsid phosphoprotein N. Mutations associated with inferior outcome were located in the surface (S) glycoprotein, in the RNA dependent RNA polymerase, in ORF3a, NSP3, ORF6 and N. Mutations leading to severe outcome with low prevalence were found in the ORF3A and in NSP7 proteins. Four out of 22 of the most significant mutation...Continue Reading

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Citations

Feb 13, 2021·Pathogens·Alejandro Flores-AlanisRosario Morales-Espinosa
Apr 3, 2021·Journal of Biomolecular Structure & Dynamics·Neha PeriwalVikas Sood
Mar 27, 2021·Environmental Microbiology·Ruibang LuoAntoine Danchin
May 1, 2021·Epidemiology and Infection·Parinita Majumdar, Sougata Niyogi
Jul 3, 2021·Journal of Clinical Medicine·Thi Loi DaoPhilippe Gautret
Aug 18, 2021·Briefings in Functional Genomics·Ranjeet MauryaRajesh Pandey
Aug 26, 2021·Communications Biology·Florian A JochheimPatrick Cramer
Oct 12, 2021·International Journal of Immunopathology and Pharmacology·Gabriela Athziri Sánchez-ZunoJosé Francisco Muñoz-Valle

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Datasets Mentioned

BETA
MN908947

Software Mentioned

R
GISAID

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