Genomic characterization unravelling the causative role of SARS-CoV-2 Delta variant of lineage B.1.617.2 in 2nd wave of COVID-19 pandemic in Chhattisgarh, India.
Discussion: N501Y and A570D at critical RBD enhance viral interaction with ACE2 human receptor.
Discussion: N501Y, A570D, and three deletions are characteristic signature mutations of the Alpha varian
Discussion: Alpha variant B.1.1.7 was found in one case each from vaccine breakthrough, mild and dead patient category showing nonsynonymous mutations of N501Y, A570D, D614G, P681H, T716I, S982A, D1118H and three deletions of H69del, V70del, and Y144del.
Pierce into Structural Changes of Interactions Between Mutated Spike Glycoproteins and ACE2 to Evaluate Its Potential Biological and Therapeutic Consequences.
PMID: 34931119
2022
International journal of peptide research and therapeutics
Result: According to the results of the multiple sequence alignment, the mutations of the EPI_ISL_601443 variant were as follows: H69 deletion, V70 deletion, Y144 deletion, N501Y substitution, A570D substitution, D614G substitution, P681H substitution, T716I substitution, S982A substitution, and D1118H substitution.
Enhanced fitness of SARS-CoV-2 variant of concern Alpha but not Beta.
Discussion: We have shown that the molecular mechanism underlying the fitness advantage of Alpha in vivo is largely dependent on a few changes in S, including three amino acid deletions (H69, V70 and Y144) and six substitutions (N501Y, A570D, P681H, T716I, S982A and D1118H).
Developing an Amplification Refractory Mutation System-Quantitative Reverse Transcription-PCR Assay for Rapid and Sensitive Screening of SARS-CoV-2 Variants of Concern.
Result: In addition, we recently searched the two mutations A570D and T19R on the public website https://ngdc.cncb.ac.cn/ncov/lineage.
Result: The site mutations at the 1709th (position 23271 on the reference genome, A570D on the spike protein) and 56th (position 21681 on the reference genome, T19R on the spike protein) positions in the spike gene were chosen as the single targets for designing primer/probe sets for the ARMS-RT-qPCR to identify these two variants, respectively.
Result: Thus, these two unique mutations, A570D and T19R, can be considered conserved and unique in all lineages of Alpha and Delta, respectively.
Table: A570D
A short plus long-amplicon based sequencing approach improves genomic coverage and variant detection in the SARS-CoV-2 genome.
Result: Considering several parameters, including estimated informedness and amplicon lengths, we observed that the subset comprising the SNPs K417N, N439K, Y453F, S477N, T478K, E484K, N501Y, A570D, H655Y, Q677H, P681H, I692V, A701V, and716I, would lead to a test providing an acceptable compromise between informedness (0.76) and minimal amplicon length (896 bp).
Result: In fact, these mutations were characteristic of some specific variants (e.g., the A570D mutation for the Alpha variant) and, conseque
Pan-SARS neutralizing responses after third boost vaccination in non-human primate immunogenicity model.
SARS_CoV_2 mutation literature information.
PMID: 
2022
Microbial pathogenesis
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