Interaction Analysis of the Spike Protein of Delta and Omicron Variants of SARS-CoV-2 with hACE2 and Eight Monoclonal Antibodies Using the Fragment Molecular Orbital Method.
PMID: 35312321
2022
Journal of chemical information and modeling
Introduction: The S protein mutations in the alpha variant are DeltaH69/DeltaV70, Delta144/144, N501Y, A570D, D614G, P681H, T716I, S982A, and D1118H.
Clinico-Genomic Analysis Reiterates Mild Symptoms Post-vaccination Breakthrough: Should We Focus on Low-Frequency Mutations?
Design of SARS-CoV-2 Variant-Specific PCR Assays Considering Regional and Temporal Characteristics.
PMID: 35285246
2022
Applied and environmental microbiology
Result: As a result, for the Alpha variant, we identified nine mutations in the spike gene: S:Delta69/70, S:Delta144, S:N510Y, S:A570D, S:D614G, S:P681H, S:T716I, S:S982A, and S:D1118H.
Result: For the Alpha variant, we found three acceptable mutations, S:A570D, S:T716I
SARS-CoV-2 infection after vaccination in Italian health care workers: a case report.
PMID: 35283546
2022
National Academy science letters. National Academy of Sciences, India
Abstract: Their genotyping performed on RNA extracts highlighted the presence of del69/70, N501Y, A570D, and 1841A > G (D614G) sequence variants, all indicative of VOC 202012/01-lineage B.1.1.7, suggesting a common source of infection.
Result: The genotyping performed first by Real-time PCR and then confirmed by direct sequencing proved the presence of del69/70, N501Y, A570D, and 1841A > G (D614G) variants, indicative of VOC 202,012/01-lineage B.1.1.7, in all samples suggesting a common source of infection.
Figure: Sections from the electropherograms showing the 69/70, N501Y, A570D, and D614G (a.
SARS-CoV-2 Mutations and Their Impact on Diagnostics, Therapeutics and Vaccines.
Discussion: In another study that used engineered rescued viruses derived from the USA_WA1/2020 strain, the hamster model appeared useful to detect weak fitness advantages and increases in transmissibility of viruses that carry the N501Y and A570D spike mutations.
A SARS-CoV-2 Wuhan spike virosome vaccine induces superior neutralization breadth compared to one using the Beta spike.
Method: Pre-fusion spike protein ectodomain DNA constructs were designed containing the following mutations compared to the Wuhan variant (Wuhan Hu-1; GenBank: MN908947.3): deletion of H69, V70 and Y144, N501Y, A570D, D614G, P681H, T716I, S982A and D1118H in Alpha; L18F, D80A, D215G, L242H, R246I, K417N, E484K, N501Y, D614G and A701V in Beta;
A screening strategy for identifying the dominant variant of SARS-COV-2 in the fifth peak of Kurdistan- Iran population using HRM and Probe-based RT-PCR assay.
PMID: 35271889
2022
Journal of virological methods
Table: A570D
Mass Screening of SARS-CoV-2 Variants using Sanger Sequencing Strategy in Hiroshima, Japan.
Method: The initial checkpoint was set at nucleotide position nt23063 and if we found mutation from adenine (A) to thymine (T) at nt23063, further identification was done as follows: double mutation of A23063T (referred to N501Y) and C23271A (referred to A570D) for B.1.1.7 (Alpha), G23013A (referred to E484K) and A23063T for B.1.351 (Beta) and triple mutation of G23012A, A23063T and C23525T (referred to H655Y) for P.1 (Gamma).
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: Using data analysis and protein structure network modeling of MD simulations, residues that exhibit long-distance coupling with the RBD opening, including sites harboring functional mutations D614G and A570D, which points to the important role of the D614G variant in modulating allosteric communications in the S protein.
SARS_CoV_2 mutation literature information.
PMID: 
2022
Journal of chemical information and modeling
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