Abstract: METHODS: RT-PCR primers and four sloppy molecular beacon (SMB) probes were designed to amplify and detect the SARS-CoV-2 N501Y (A23063T) and E484K (G23012A) mutations and their corresponding wild typ
Discussion: In designing this assay, we took advantage of the fact that the N501Y mutation is common to the three major SARS-CoV-2 variants of concern.
Discussion: Thus, this assay has the potential for relatively inexpensive high throughput testing for rapid identification of N501Y variants.
Discussion: Thus, we expect that our assay should continue to be able to identify N501Y variants even if additional mutations develop near this primary mutation once the specific Tm signatures of each new genotype are characterized.
Transmission, infectivity, and antibody neutralization of an emerging SARS-CoV-2 variant in California carrying a L452R spike protein mutation.
Method: SARS-CoV-2 spike mutants (D614G, D614G+W152C, D614G+L452R, and D614G+N501Y) were cloned using standard site-directed mutagenesis and PCR.
Discussion: Notably, our findings reveal that the infectivity of L452R pseudoviruses was higher than D614G, but slightly reduced compared to that of N501Y pseudoviruses in 293T cells and human airway lung organoids.
Discussion: Thus, whether the L452R-carrying B.1.427/B.1.429 will continue to remain the predominant circulating strain in California, or whether it will eventually be replaced by the N501Y and E484K substitutions in the spike protein.
PMID: 33774075
2021
Journal of virological methods
Abstract: N501Y was found in 206 (27.4 %) of the samples: 94 (28.2 %) men and 112 (26.85 %) women (p = 0.73).
Abstract: In order to discriminate N501Y variants quickly, a single nucleotide polymorphism (SNP) discrimination assay was designed and validated.
Abstract: The N501Y mutation in SARS-CoV-2 variants found in several strains from the UK, South Africa and Brazil has been linked to increased transmission.
Introduction: All three have the N501Y mutation, which is involved in the receptor-binding mechanism and may have clinical impacts.
Introduction: In order to achieve a faster and cheaper method a new one-step variant discrimination real time PCR (VD RT-PCR) assay to detect the N501Y SARS-CoV-2 mutation was designed and developed, and then assayed in clinical samples.
Method: A
Mutational analysis of structural proteins of SARS-CoV-2.
Method: Three separate structures of RBD with a point mutation, each namely S477N, V483A, and N501Y were created.
Result: Another was in the case of the docked structure of N501Y-RBD: ACE-2 interaction, T500 of S protein failed to form H bond with Y41 of ACE-2 and showed only hydrophobic interaction.
Result: Further, Q498 (S) generated an additional hydrophobic interaction with L45 (ACE-2) in the docked structure of N501Y-RBD: ACE
Discussion: Both the variants carry N501Y mutation lying in the RBD region of S protein.
SARS-CoV-2 spike variants exhibit differential infectivity and neutralization resistance to convalescent or post-vaccination sera.
Introduction: Additional mutations in spike, three amino acid deletions and seven missense mutations, including N501Y in RBD, make B.1.1.7 more infectious than the wild-type or the D614G strain.
Introduction: Both wild-type and the UK-N501Y pseudoviruses were efficiently neutralized by tested sera.
Introduction: Early reports have indicated that while the N501Y
Table: N501Y
Figure: Pseudoviruses displaying wild-type or mutant SARS-CoV-2 spike from UK-N50Y or SA-N501Y/K417N/E484K variants were used in neutralization assays.
Characterisation of B.1.1.7 and Pangolin coronavirus spike provides insights on the evolutionary trajectory of SARS-CoV-2.
Introduction: The spike mutations observed in current variants can be broadly divided into three categories based on their locations: N-terminal domain (NTD) mutations including deletions found in both B.1.1.7 and B.1.351; receptor binding domain (RBD) mutations including N501Y (B.1.1.7, B.1.351 and P.1) and E484K (B.1.351 and P.1); and stalk/S2 mutations including P681H proximal to the polybasic S1/S2 cleavage site (B.1.1.7).
Discussion: Thus far, studies have focussed on the contribution made by RBD mutations, and with good reason; N501Y and E484K have been implicated in increased ACE2 affinity and escape from anti- PMID: 33791722
2021
medRxiv
Result: Three of the analyzed sequences showed the aminoacid changes T183I, A890D, I1412T, P323L, L493F, N501Y, T553I, A570D, D614G, P681H, T716I, S982A, D1118H, Q27, R52I, Y73C, D3L, R203K, G204R and S235F placing them in the B.1.1.7 lineage.
Infection- and vaccine-induced antibody binding and neutralization of the B.1.351 SARS-CoV-2 variant.
Introduction: The B.1.351 RBD contains three mutations (K417N, E484K and N501Y) which reduces antibody binding.
Introduction: The B.1.351 viral variant contains the following amino acid mutations within the viral spike protein: L18F, D80A, D215G, deletion at positions 242-244 (L242del, A243del, and L244del), K417N, E484K, N501Y, and D614G.
Introduction: The emerging B.1.351 SARS-CoV-2 variant includes three mutations within the receptor-binding domain (
Structure-Function Analyses of New SARS-CoV-2 Variants B.1.1.7, B.1.351 and B.1.1.28.1: Clinical, Diagnostic, Therapeutic and Public Health Implications.
Abstract: While the N501Y mutation was observed in all three lineages, the 501Y.V1 and P.1 accumulated a different set of mutations in the Conclusion: As shown here, the N501Y mutation in all three variants may enhance ACE2 affinity but might not confer antibody resistance individually or neutralizing effects by convalescent plasma and vaccine sera.
Conclusion: The N501Y mutation, in particular, leads to stronger interaction with human ACE2 compared to its wildtype, although other co-occurring mutations along with N501Y might have a different overall effect.
Introduction: Another variant from Brazil (known as VOC202101/02 in UK), identified first in Japanese travelers from Brazil, shows seventeen unique mutations including the N501Y and E484K mutations.
SARS-CoV-2 Variant of Concern 202012/01 Has about Twofold Replicative Advantage and Acquires Concerning Mutations.
Discussion: Importantly, the L18F mutation has also expanded in the South African strain 501Y.V2 defined by three spike mutations K417N, E484K, N501Y (thus sharing with the VOC strain spike mutation N501Y).
Discussion: In Brazil, in strain P.1 defined by three spike mutations K417T, E484K, N501Y (differing from the South African strain 501Y.V2 by substitution <
Discussion: In addition to double deletion 69-70HV, substitution N501Y in the RBD of spike is considered the most important VOC mutation.
SARS_CoV_2 mutation literature information.
PMID: 
2021
medRxiv
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