Evaluation of the clinical and analytical performance of the Seegene allplex SARS-CoV-2 variants I assay for the detection of variants of concern (VOC) and variants of interests (VOI).
Result: Alpha S contains the 69/70 and Y144 deletions in the N-terminal domain (NTD), P681H and T716I mutations in the S1/S2 cleavage site, the S982A mutation in the heptad repeat 1 (HR1) site and the D1118H mutation in between HR1 and HR2.
SARS-CoV-2 Delta (B.1.617.2) Variant: A Unique T478K Mutation in Receptor Binding Motif (RBM) of Spike Gene.
AutoVEM2: A flexible automated tool to analyze candidate key mutations and epidemic trends for virus.
PMID: 34512928
2021
Computational and structural biotechnology journal
Result: Among the 17 sites, 11 caused amino acid changes, of which 5 mutation sites were located on the S protein (including N501Y, P681H, T716I, S982A, and D1118H) (Table 3).
Table: 716T>I
In vitro selection of Remdesivir resistance suggests evolutionary predictability of SARS-CoV-2.
Method: We used the following amino acids replacements and deletions in Spike for each lineage-based COG-UK defined changes for each lineage; Beta (B1.351; L18F, D80A, D215G, R246L, K417N, E484K, N501Y, A701V), Gamma (P.1; L18F, T20N, P26S, D138Y, R190S, K417T, E484K, N501Y H655Y, T1027I), Alpha (B.1.1.7; Delta69-70, D144, PMID: 34536797
2021
Virology
Result: Mutations apparently contributing to the reduction of plasma recognition of the B.1.1.7 Spike are the DeltaY144 deletion in the NTD, P681H and T716I near the S1/S2 cleavage site.
Emergence of SARS-CoV-2 Variant B.1.575.2, Containing the E484K Mutation in the Spike Protein, in Pamplona, Spain, May to June 2021.
PMID: 34495709
2021
Journal of clinical microbiology
Introduction: The B.1.575.1 sublineage was classified in the Phylogenetic Assignment of Named Global Outbreak (PANGO) lineage system as a Spanish sublineage of B.1.575 with spike mutations P681H, S494P, and T716I, and the B.1.575.2 sublineage, whose main characteristic is the presence of the E484K spike mutation, also originated in Spain.
Result: Among the common substitutions present in these lineages, four occurred in the spike protein (S494P, D614G, P681H, and T716I).
Evolution, Mode of Transmission, and Mutational Landscape of Newly Emerging SARS-CoV-2 Variants.
Result: Any of H655Y, P681H, A701V, or T716I might directly impact the efficiency of viral entry into host cells.
Result: Whereas sites S/655 and S/681 are also detectably evolving under positive selection in at least one of the lineage specific datasets, S/655, S/681, A/701, and S/716 are all detectably evolving under positive selection in the March and April 2021 global SARS-CoV-2 datasets; important additional indicators that are consistent with the H655Y, P681H, A701V, and T716I mutations being adaptive.
Result: Whereas some V2 and V3 sequences had, by March 2021, independently acquired the signature V1 mutations, P681H and T716I
SARS_CoV_2 mutation literature information.
PMID: 
2021
Journal of clinical virology
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