literature

SARS_CoV_2 mutation literature information.

Expansion of L452R-Positive SARS-CoV-2 Omicron Variant, Northern Lombardy, Italy.

PMID: 33788923 2022 Clinical infectious diseases

Abstract: Certain viral lineages bearing spike mutations, defined in part by L452R, S13I, and W152C, comprised 54.4% of the total sequences from January, compared to 15.7% in November.

Misidentification of the SARS-CoV-2 Mu variant using commercial mutation screening assays.

PMID: 35194675 2022 Archives of virology

Introduction: Any other mutation combination or the absence of any mutations required the use of a second rRT-PCR mutation assay, Allplex SARS-CoV-2 Variants II Assay (Seegene, Korea), which screens for the mutations K417N, K417T, L452R, and W152C.

Introduction: Following the scheme described above, in August 2021, we detected three strains that presented K417N, N501Y, and E484K mutations but did not present delH69/V70, W152C, K417T, L452R, or V1176F mutations.

Impact of new variants on SARS-CoV-2 infectivity and neutralization: A molecular assessment of the alterations in the spike-host protein interactions.

PMID: 35194576 2022 iScience

Abstract: The substitutions T478K and L452R in the Delta variant enhance associations with ACE2, whereas P681R promotes recognition by proteases, thus facilitating viral entry.

In silico investigations of heparin binding to SARS-CoV-2 variants with a focus at the RBD/ACE2 interface.

PMID: 35194375 2022 Process biochemistry (Barking, London, England)

Abstract: Herein, using the molecular docking and interaction energy analysis, we showed that N501Y, L452R-E484Q, and

Method: Different three-dimensional structures of the RBD variants namely, K417N, K417T, E484K, E484Q, L452R, N501Y, L452R-E484Q, K417N-E484K-N501Y, and K417T-E484K-N501Y were modeled using the BuildModel module of FoldX.

The effect of the E484K mutation of SARS-CoV-2 on the neutralizing activity of antibodies from BNT162b2 vaccinated individuals.

PMID: 35183387 2022 Vaccine

Method: 1.617.2, which possesses the L452R and E484Q mutations) (Delta) strains.

Discussion: Moreover, it has been reported that the Delta variant, which harbors the L452R mutation, causes a lower cellular immunity response among Asians who have human leukocyte antigen HLA-A24.

Emergence in southern France of a new SARS-CoV-2 variant harbouring both N501Y and E484K substitutions in the spike protein.

PMID: 35178586 2022 Archives of virology

Introduction: Subsequent detection of three mutations in the spike gene in a qPCR assay to screen for variants, as performed routinely in France in cases of SARS-CoV-2 positivity, revealed an atypical combination with L452R negativity, E484K positivity, and E484Q negativity (Pentaplex assay, ID solutions, Grabels, France), which did not correspond to the pattern of the Delta variant, which was associated with almost all SARS-CoV-2 infections at that time (Table 1).

Introduction: Thus, the IHU variant could be distinguished in qPCR screening assays from the Delta variant (L452R positive) and the Omicron variant (L452R negative and negative for S gene detection by the TaqPath

Real-Time RT-PCR Allelic Discrimination Assay for Detection of N501Y Mutation in the Spike Protein of SARS-CoV-2 Associated with B.1.1.7 Variant of Concern.

PMID: 35170989 2022 Microbiology spectrum

Introduction: This lineage is characterized by several S gene SNPs, including L452R, T478K, E484Q, D614G, and P681R.

Discussion: In another assay, the RT-PCR multiplex targets include L452R, a SNP in the S gene that is characteristic of the B.1.617.2 (Delta) variant.

Discussion: Other SNP assays have been developed for important S gene SNPs that characterize VOCs, including E484K (P.1, B.1.351), K417N/T (P.1, B.1.351), and L452R (B.1.617.2).

Structural basis for SARS-CoV-2 Delta variant recognition of ACE2 receptor and broadly neutralizing antibodies.

PMID: 35169135 2022 Nature communications

Introduction: The Delta variant harbors multiple mutations in S protein, including two substitutions (L452R and T478K) in the RBD, the D614G substitution, a cluster of mutations in the N-terminal domain (NTD), and two more substitutions near the furin cleavage site and in the heptad repeat 1 (HR1).

Method: Specifically, recombinant plasmids coding Beta-RBD (the K417N, E484K, and N501Y mutations) or Delta-RBD (the L452R and T478K mutations) were made based on the plasmid pcDNA3.4-SARS-2-RBD by using

LY-CoV1404 (bebtelovimab) potently neutralizes SARS-CoV-2 variants.

PMID: 33972947 2022 bioRxiv

Abstract: In pseudovirus neutralization studies, LY-CoV1404 retains potent neutralizing activity against numerous variants including B.1.1.7, B.1.351, B.1.617.2, B.1.427/B.1.429, P.1, B.1.526, B.1.1.529, and the BA.2 subvariant and retains binding to spike proteins with a variety of underlying RBD mutations including K417N, L452R, E484K, and N501Y.

Neutralizing antibody responses elicited by SARS-CoV-2 mRNA vaccination wane over time and are boosted by breakthrough infection.

PMID: 35166573 2022 Science translational medicine

Introduction: The recently emerged Delta (B.1.617.2) variant is characterized by additional NTD alterations together with crucial RBD mutations (L452R and T478K).

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