Introduction: Omicron Spike was recognized less efficiently than D614G, Alpha, Beta, Gamma, and Delta Spikes.
Introduction: Plasma from vaccinated previously infected individuals recognized more efficiently all tested Spikes (D614G, Alpha, Beta, Gamma, Delta, and Omicron) than those from naive vaccinated individuals.
Method: The plasmids encoding the SARS-CoV-2 Spike variants; D614G, B.1.1.7, B.1.351, P.1 and B.1.617.2 were previously described.
Method: To produce SARS-CoV-2 pseudoviruses, 293T cells were transfected with the lentiviral vector pNL4.3 R-E- Luc (NIH AIDS Reagent Program) and a plasmid encoding for the indicated S glycoprotein (D614G, Alpha, Beta, Gam
Allosteric Determinants of the SARS-CoV-2 Spike Protein Binding with Nanobodies: Examining Mechanisms of Mutational Escape and Sensitivity of the Omicron Variant.
PMID: 35216287
2022
International journal of molecular sciences
Introduction: The detection of common mutational changes such as D614G, E484K, N501Y, and K417N that are shared among major circulating variants B.1.1.7, B.1.351, and B.1.1.28/P.1 indicated that these positions could be particularly critical for modulation of the SARS-CoV-2 S protein responses.
Introduction: The emergence of variants of concern (VOCs) with the enhanced transmissibility and infectivity profile including the D614G variant, B.1.1.7 (alpha), B.1.351 (beta), B.1.1.28/P.1 (gamma), and B.1.1.427/B.1.429 (epsilon) variants have attracted enormous attention in the scientific community and a considerable variety of the proposed mechanisms explaining functional observations from structural and biochemical perspectives.
Introduction: Using data analysis and protein struc
Rapid SARS-CoV-2 Intra-Host and Within-Household Emergence of Novel Haplotypes.
Introduction: The first mutation known to improve viral fitness was Spike D614G, which was first identified in the Alpha variant and then reached a prevalence of nearly 100% globally.
Ferristatin II Efficiently Inhibits SARS-CoV-2 Replication in Vero Cells.
Result: Due to the significant differences in the RBD proteins of the Wuhan D614G and the Omicron SARS-CoV-2 variants, the latter could not be detected in cell-based ELISA using the available anti-RBD antibody, as it was raised to the RBD of original SARS-CoV-2 strain.
Result: The detection of viral antigen in cell-base ELISA found that the IC50 values for ferristatin II were 26.5 and 40.4 microM for the Wuhan D614G and Delta viruses, respectively (Figure 2A).
Result: The quantification of the virus titers in culture media confirmed that the release of the virus from the infected cells into the culture medium was inhibited by ferristatin II, starting from 25 microM concentration, and IC50 values calculated from the reduction in TCID50 titers were 24.0 and 25.2 microM for the Wuhan PMID: 35208920
2022
Microorganisms
Discussion: Comparative genomic analysis of SARS-CoV-2 genomes revealed multiple crucial mutations to the Spike gene including K417N, K417T, E484K, N501Y, A570D, D614G, P681H, T716I, S982A and D1118H, which may aggravate the severity of SARS-CoV-2 more than the wild type variant, and potentially raise the concern of vaccine efficacy against novel strains.
Discussion: Generally, Spike D614G and ORF1b-P314L variants are consistently related and co-occur in all geographic locations with increasing fr
Whole genome sequence analysis showing unique SARS-CoV-2 lineages of B.1.524 and AU.2 in Malaysia.
Result: A separate phylogenetic analysis was conducted with neigbouring representative sequences (in Nextstrain clade tree) of African, Indonesian and Malaysian lineages (Fig 2C) with Pahang SARS-CoV-2 D614G variants genomes.
Result: Amino acid mutations in spike protein of the Pahang- D614G variant SARS-CoV-2.
Result: Based on the GISAID database analysis, there were 41 lineages of D614G variant dispersed throughout Malaysia.
Result: Evolution of D614G variant of SARS-CoV-2 in the Malaysian population.
Result: Genomes of Pahang SARS-CoV-2 D614G variants were found congregrated into African, Indonesian and Malaysian lineages (Fig 2B and 2C).
Result: In addition to D614G mutation, B.1.524 also carries PMID: 35215820
2022
Viruses
Result: One patient was infected with a SARS-CoV-2 variant reported in Belgium in March 2021, which was associated with four mutations (Q414K, N450K, D614G and T716I) and an insertion of three amino acids at position 213 (TDR) in the S gene.
Molecular and Epidemiological Characterization of Emerging Immune-Escape Variants of SARS-CoV-2.
Method: For instance, a Delta variant spike haplotype consisting of T19R, 256_258delinsG, L452R, T478K, D614G, P681R, and D950N is also assigned to another haplotype group of T19R, L452R, T478K, D614G, P681R, and D950N, which is missing a 256_258delinsG variant.
Result: At 1 week after vaccination, strong neutralization (hiVNT
Figure: Since these nAbs are treated as a cocktail, they are considered effective if the EC50 of either antibody is equivalent to or lower than that of the D614G control.
Comparison of SARS-CoV-2 Evolution in Paediatric Primary Airway Epithelial Cell Cultures Compared with Vero-Derived Cell Lines.
5Result: This strain represents an isolate from the UK's ""first wave"" and is a representative of clade B that contains the D614G mutation in Spike (Table S1)."
Result: PHE is from clade A and does not contain the D614G substitution in Spike (Supplementary Table S1).
Result: These changes included, but were not limited to, D614G in Spike; R203K and G204K in N; and an out-of-frame deletion of five nucleotides in ORF7A, leading to its premature truncation.
Discussion: Investigation of the patterns of SARS-CoV-2 genetic diversity worldwide during outbreaks has already facilitated a genetic-based nomenclature of lineages and has
SARS_CoV_2 mutation literature information.
PMID: 
2022
Diagnostic microbiology and infectious disease
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