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
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).
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.
Molecular definition of severe acute respiratory syndrome coronavirus 2 receptor-binding domain mutations: Receptor affinity versus neutralization of receptor interaction.
Assessment of the binding interactions of SARS-CoV-2 spike glycoprotein variants.
PMID: 34545316
2022
Journal of pharmaceutical analysis
Introduction: This variant is defined as lineage B.1.1.7 and has multiple spike protein amino acid deletions and mutations, such as deletion 69-70, deletion 144, and mutations N501Y, A570D, D614G, P681H, T716I, S982A, and D1118H.
Analysis of SARS-COV2 spike protein variants among Iraqi isolates.
Abstract: The most frequently mutations occurred at the D614G (87/91), followed by S982A (50/91), and A570D (48/91), respectively.
Abstract: Twenty-two distinct mutations were identified within the spike protein regions which were: L5F, L18F, T19R, S151T, G181A, A222V, A348S, L452 (Q or M), T478K, N501Y, A520S, A522V, A570D, S605A, D614G, PMID: 34801754
2022
Infection, genetics and evolution
Result: Mutations associated with the Alpha variant (H69_V70del, Y144del, N501Y, A570D, D614G, P681H, T716I, S982A, and D1118H), have quickly increased in prevalence worldwide since November.
Figure: 1 associated with the Alpha variant of concern first detected in the United Kingdom are H69_V70del, Y144del (identified as Y145del by alignment software), N501Y, A570D, D614G, P681H, T716I, S982A, and PMID: 34272947
2022
Clinical infectious diseases
Result: Filtering for more common substitutions (Supplementary Figure 1B) showed a major increase in February in changes associated with B.1.1.7 (eg, S:N501Y, S:A570D, S:T716I, S:S982A, and S:D1118H) while substitutions associated with B.1.2 declined.
A year living with SARS-CoV-2: an epidemiological overview of viral lineage circulation by whole-genome sequencing in Barcelona city (Catalonia, Spain).
Result: The D614G (96.4%) substitution was observed in most viral genomes, in addition to multiple mutations defining lineages, such as the mutation set Delta69-70, Delta144, N501Y, A570D, P681H, T716I, S982A, and D1118H for B.1.1.7 viruses.
Emergence of a novel SARS-CoV-2 Pango lineage B.1.1.526 in West Bengal, India.
PMID: 34896696
2022
Journal of infection and public health
Introduction: Along with the clade specific mutations, these variants have their own sets of characteristics mutations including several mutations in the S glycoprotein like Delta69-70, Delta144-145, N501Y, A570D, P681H, T716I, S982A, D1118H in the Alpha variant; D80A, D215G, Delta241-243, K417N, E484K, N501Y, A701V in the Beta variant; L18F, T20N, P26S, D138Y, R190S,
SARS_CoV_2 mutation literature information.
PMID: 
2022
Microbiology spectrum
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