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: L18F
Genomic Surveillance of SARS-CoV-2 Lineages Indicates Early Circulation of P.1 (Gamma) Variant of Concern in Southern Brazil.
Result: From the two specimens assigned as a P.1.1 sublineage by Pangolin, the specimen 76_LABRESIS presented all the 22 P.1 lineage-defining mutations while the 77_LABRESIS specimen lacked the T733C, C21614T (L18F), and G22132T (R190S) mutations.
Table: L18F
Evolutionary history of the SARS-CoV-2 Gamma variant of concern (P.1): a perfect storm.
PMID: 35266951
2022
Genetics and molecular biology
Introduction: Currently, the WHO has identified the Gamma lineage (B.1.1.28.1, P.1 or Gamma; Nextstrain clade 20J/V3) with the following key S mutations: L18F, T20N, P26S, D138Y, R190S, K417T, E484K, N501Y, D614G, H655Y, T1027I, and V1176F.
Table: L18F
Antibody escape and global spread of SARS-CoV-2 lineage A.27.
Result: L18F is present in the VOCs B.1.351 and P.1, the L452R substitution is found in high frequencies in B.1.617.2 and related AY lineages, and N501Y is known from B.1.1.7, B.1.351 and P.1.
Result: Both regions are targets for neutralizing antibodies and L18F and L452R have been previously associated with antibody escape and L452R additionally with increased infectivity.
Result: The L18F amino acid substitution is found within the first of five loops of the NTD supersite and the
Table: L18F
Discussion: L18F lies within the first of five loops of the NTD supersite and could contribute to the escape from antibody-mediated immunity as previously suggested.
SARS-CoV-2 Beta and Delta variants trigger Fc effector function with increased cross-reactivity.
Method: For ELISA, ADCP and ADCD assays, SARS-CoV-2 original and Beta variant full spike (L18F, D80A, D215G, K417N, E484K, N501Y, D614G, A701V, 242-244 del), RBD original and Beta (K417N, E484K and N501Y,
Result: an NTD mAb for which neutralization and binding are escaped by Beta (L18F, D80A, D215G, and 242-244 del), showed ADCC activity against the original variant but not Beta RBD (Figure 3B).
In silico analysis of mutant epitopes in new SARS-CoV-2 lineages suggest global enhanced CD8+ T cell reactivity and also signs of immune response escape.
PMID: 35149224
2022
Infection, genetics and evolution
Result: We observed that the nsSNVs P80R, A701V, K417N, K417T, L18F, and R246I had greater antigenicity scores in regard to the REF sequence.
Table: L18F
Whole genome sequence analysis showing unique SARS-CoV-2 lineages of B.1.524 and AU.2 in Malaysia.
Result: Taken together, the missense mutations, L18F, N501Y, A701V and G1223C seem to have increased the binding affinity of the spike protein, whereas mutations D80A, D215G, K417N, N439K, E484K and A688S had the opposite effect.
Genomic surveillance reveals the detection of SARS-CoV-2 delta, beta, and gamma VOCs during the third wave in Pakistan.
Emergence in southern France of a new SARS-CoV-2 variant harbouring both N501Y and E484K substitutions in the spike protein.
PMID: 34722330
2021
Frontiers in cellular and infection microbiology
Figure: The S protein of N501Y.V1 include nine mutations (HV69-70 del, 144 del, N501Y, D614G, P681H, T716I, S982A, and D1118H), N501Y.V2 include ten mutations (L18F, D80A, D215G, 242-244 del, R246I, K417N, E484K, N501Y, D614G and A701V) and N501Y-V2 RBD include D614G
In vitro selection of Remdesivir resistance suggests evolutionary predictability of SARS-CoV-2.
Method: We used the following amino acids replacements and deletions in Spike for each lineage-based COG-UK defined changes for each lineage; Beta (B1.351; L18F, D80A, D215G, R246L, K417N, E484K, N501Y, A701V), Gamma (P.1; L18F, T20N, P26S, D138Y, R190S, K417T, E484K, N501Y H655Y, T1027I), Alpha (B.1.1.7; Delta69-70, D144,
ViMRT
SARS_CoV_2 mutation literature information.
PMID: 
2022
Journal of virological methods
