Result: (iv) Temporal trends of the NSP2 variant T85I (Figure 5D) and the ORF3a variant Q57H were distinct on different continents.
Result: Fifteen variants with the prevalence >5% were identified, including (i) four variants in nucleocapsid: S194L (6.29%), R203K (28.45%), G204R (28.13%), and A220V (25.96%); (ii) four variants in spike: L18F (12.08%), A222V (26.14%), S477N (6.62%), and D614G (93.88%); (iii) two variants in NSP2: T85I
Evidence of Severe Acute Respiratory Syndrome Coronavirus 2 Reinfection After Recovery from Mild Coronavirus Disease 2019.
5Result: Four additional substitutions (VAF, 79.4%-92.1%) that are almost always accompanied by S D614G (5'UTR 241C>T [VAF, 79.4%], nsp3 F106F [VAF, 88.7%], P323L [VAF, 92.1%], and ORF3a Q57H [VAF, 80.0%]) were also detected in the viral genome from the second infection, which suggests the majority of viral genome in the second infection was clade ""G."" We also found that 9 variants (ie, nsp1 R124C, nsp2 T85I, nsp3 L744F, nsp3 <
Genetic conservation of SARS-CoV-2 RNA replication complex in globally circulating isolates and recently emerged variants from humans and minks suggests minimal pre-existing resistance to remdesivir.
Result: These seven frequencies varied by region: T85I and Q57H (nsp2) were the most frequent in US; I120F (nsp2) in OC; and R203K and G204R (N protein) in LA, AF and OC; P323L (nsp12) and D614G (S protein) were highly frequent in all regions.
Discussion: Although the dN/dS values were positive for T85I, I120F, G614, L323, Q57H, G204R and S477N, only F120 and L323 presented statistical signific
Variant analysis of SARS-CoV-2 genomes in the Middle East.
Introduction: Furthermore, the US SARS-CoV-2 strains that have 1059C>T-(T85I), 14408C>T-(P323L), 23403A>G-(D614G), 25563G>T-(Q57H), 28144T>C-(L84S), 28881G>A-(R203K), 28882G>A-(R203K), and 28883G>C-(G204R) mutations may become more infectious in the United States.
Result: 2 still indicates that 1059C>T-(T85I) is an infectivity-strengthening mutatio
Comparative Genomics and Integrated Network Approach Unveiled Undirected Phylogeny Patterns, Co-mutational Hot Spots, Functional Cross Talk, and Regulatory Interactions in SARS-CoV-2.
Result: Mutation L37F (Nsp6) and T85I (Nsp2) were also highly conserved and thus could profoundly damage the function of the respective protein.
Result: Out of 14 high-frequency SNPs, only 9 mutations (Nsp2 [T85I], Nsp3 [S1103P], Nsp6 [L37F], Nsp12 [P324L], Nsp13 [P409L and Y446C], S [D614G], Orf3a [Q577H], an
The extent of molecular variation in novel SARS-CoV-2 after the six-month global spread.
PMID: 33677109
2021
Infection, genetics and evolution
Abstract: Interestingly, subclade 2B with the amino acid changes at nsp2 T85I, Spike D614G, and ORF3a Q57H was firstly reported on March 4, 2020 in United States of America, becoming the most frequent sub-haplogroup in the world (36.21%) and America (45.81%).
Result: Remarkably, among the subclades in clade 2, sub-haplogroup 2B variants (Spike D614G, ORF3a Q57H, and nsp2 T85I) distributed quickly, and then dominated in this continent.
Result: Subclade 2B with the amino acid changes at nsp2&nb
SARS_CoV_2 mutation literature information.
PMID: 
2021
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