First detection of SARS-CoV-2 lineage A.27 in Sardinia, Italy.
PMID: 35324468
2022
Annali dell'Istituto superiore di sanita
Abstract: Among the key mutations identified in the spike protein, the N501Y and the L452R deserve attention as considered likely vaccine escape mutations.
Neutralisation Hierarchy of SARS-CoV-2 Variants of Concern Using Standardised, Quantitative Neutralisation Assays Reveals a Correlation With Disease Severity; Towards Deciphering Protective Antibody Thresholds.
Result: Finally, 1/32 sequence was the Omicron strain, with the following mutations in the RBD domain: T22882G (N440K), G22898A (G446S), G22992A (S477N), C22995A (T478K), A23013C (E484A), A23040G (Q493R), G23048A (G496S), A23055G (Q498R), A23063T (N501Y), T23075C ( PMID: 35336952
2022
Viruses
Result: N501Y is present in the Alpha, Beta, and Gamma variants, and this substitution increases binding affinity to angiotensin-converting enzyme receptor 2 (ACE2), playing an essential role in the higher rate of transmission of SARS-CoV-2 variants.
Result: Figure 3 shows the most frequent amino acid substitutions in the RBD (G339D, R346K, K417N, S371L, S373P, S375F, N440K, Q498R, and N501Y).
Result: On the other hand, the prevalence of eleven substitutions (S371L, S373P, S375F, PMID: 35434713
2022
MedComm
Result: The RBD contains three mutations, which are Y449H, E484K, and N501
Result: The B.1.640.1 variant contains 22 mutations in spike protein, of which the RBD contains five mutations of R346S, N394S, Y449N, F490R, and N501Y.
Discussion: The immunogenicity of Beta, Gamma, and Mu were similar, probably because these three immunogens all contained E484K and N501Y mutations (Figure S1).
Discussion: The neutralizing activity of mAb JS016 was reduced due to the N501Y mutation in the variants.
Computer Simulations and Network-Based Profiling of Binding and Allosteric Interactions of SARS-CoV-2 Spike Variant Complexes and the Host Receptor: Dissecting the Mechanistic Effects of the Delta and Omicron Mutations.
PMID: 35457196
2022
International journal of molecular sciences
Result: Although the destabilization changes in these positions are less dramatic than for the N501Y position, we found that the reverse mutations R493Q, S496G and R498Q can result in DeltaDeltaG = 0.7-1.2 kcal/mol (Figure 4E,F).
Result: In the Omicron RBD-ACE2 complex, a considerable number of the binding interfaces (G446, Y449, F486, Y489, G496S, Q498R, T500, N501Y and Y505H) become stabilized to make strong specific interactions with ACE2 (Figure 2A).
Result: Instructively, the N501 position does not belong to strong binding energy hotspots in the native S-RBD and S<
Comparative Evaluation of Six SARS-CoV-2 Real-Time RT-PCR Diagnostic Approaches Shows Substantial Genomic Variant-Dependent Intra- and Inter-Test Variability, Poor Interchangeability of Cycle Threshold and Complementary Turn-Around Times.
Discussion: In addition, variant B.1.258.17 as the main lineage during the second wave, variant A.27 as a rare variant, with mutation N501Y, and variant B.1 (with D614G) as the first main lineage, which caused a substantial part of the first wave of infections in Europe, were included.
Mutational Effect of Some Major COVID-19 Variants on Binding of the S Protein to ACE2.
Abstract: Our calculations show that five major mutations (N501Y, E484K, L452R, T478K and K417N), first reported in Alpha, Beta, Gamma an
Introduction: As shown in Table 1, these three variants have one point in common:that is, the N501Y mutation, which was reported to accelerate the spread of virus through stronger binding with ACE2.
Introduction: We first focus on five specific mutations (N501Y, E484K, L452R, T478K and K417N) that were found in Alpha, Beta Gamma and Delta variants, and these mutations are all located on the RBDs of the SARS-CoV-2/ACE2 complex.
Characteristic analysis of Omicron-included SARS-CoV-2 variants of concern.
Result: The scores of E484K and N501Y are also relatively close, indicating that these mutations do not affect the epitope of the spike protein of the Beta strain (Figure 2E).
Discussion:
Discussion: In the Alpha and Omicron strains, two key deletions, H60V70, are on the epitope, which can affect the immune escape of the S protein (Figure 4F), whereas N501Y and D614G have almost no effect on the antigen score, and the P681 mutation slightly reduces the epitope score and may have a certain impact.
Discussion: In the Omicron variant, there are some consistent RBD mutations with previously focused variants (K417N, T478K, and N501Y).
Comparative genomics, evolutionary epidemiology, and RBD-hACE2 receptor binding pattern in B.1.1.7 (Alpha) and B.1.617.2 (Delta) related to their pandemic response in UK and India.
PMID: 35427787
2022
Infection, genetics and evolution
Discussion: N501Y, D614G L452R, and E484Q mutations are reported as significant mutations in different variants in SARS-CoV-2.
Discussion: Finally, we evaluated the comparative receptor binding (hACE2) pattern with the Wuhan strain, VOC B.1.1.7 variant (RBD N501Y mutatio
Discussion: The variant was observed with some significant mutations in spike protein.Comparative genomics assessment of these two variants has revealed specific unique mutations, such as N501Y, D614G L452R, E484Q, and P681R in the S-glycoprotein.
SARS_CoV_2 mutation literature information.
PMID: 
2022
Annali dell'Istituto superiore di sanita
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