literature

SARS_CoV_2 mutation literature information.

Targeted Sanger sequencing to recover key mutations in SARS-CoV-2 variant genome assemblies produced by next-generation sequencing.

PMID: 35294336 2022 Microbial genomics

Abstract: We applied the primer set and wet-laboratory protocol to sequence 222 samples that were missing positions with key mutations K417N, E484K, and N501Y due to poor coverage after NGS sequencing.

Abstract: We successfully sequenced 153 samples of 222 (69 %) using Sanger sequencing and confirmed the occurrence of key beta variant mutations (K417N, E484K, N501Y) in the S genes of 142 of 153 (93 %) samples.

The SARS-CoV-2 Alpha variant exhibits comparable fitness to the D614G strain in a Syrian hamster model.

PMID: 35273335 2022 Communications biology

Introduction: In late 2020, three SARS-CoV-2 variants sharing the N501Y spike mutation located in the receptor-binding motif (RBM) emerged almost simultaneously in the United Kingdom (Alpha variant from lineage B.1.1.7; initially named VOC 202012/01), in South Africa (Beta variant from lineage B.1.351) and in Brazil (P.1 variant from lineage B.1.1.28.1).

Discussion: In another study that used engineered rescued viruses derived from the USA_WA1/2020 strain, the hamster model appeared useful to detect weak fitness advantages and increases in transmissibility of viruses that carry the N501Y and A570D spike mutations.

SARS-CoV-2 Mutations and Their Impact on Diagnostics, Therapeutics and Vaccines.

PMID: 35273977 2022 Frontiers in medicine

Introduction: According to US FDA reports, the mAb cocktail retained neutralization activity against B.1.1.7 (carrying N501Y) and B.1.617.2/AY.3 (carrying L452R + T478K).

Introduction: And cilgavimab had lower activity against N501Y+D614G mutants, including B.1.429 (carrying L452R), B.1.617.2 (carrying L452R + T478K) and B.1.351 (carrying K417N + E484K + N501Y).

Introduction: Examples include the N501Y, S477N, N439K, D364Y and E

Potential inhibitor for blocking binding between ACE2 and SARS-CoV-2 spike protein with mutations.

PMID: 35279013 2022 Biomedicine & pharmacotherapy

Abstract: In addition, GB-1 inhibited the binding between ACE2 and RBD with a single mutation (E484K or N501Y), except the K417N mutation.

Abstract: In the compositions of GB-1, glycyrrhizic acid can inhibit the binding between ACE2 and RBD with Wuhan type, except K417N-E484K-N501Y mutation.

Abstract: In this study, we discovered that GB-1, developed from Chiehyuan herbal formula which obtained from Tian Shang Sheng Mu of Chiayi Puzi Peitian Temple, can inhibit the binding between ACE2 and RBD with Wuhan type, K417N-E484K-N501Y and

Cross-Neutralizing Breadth and Longevity Against SARS-CoV-2 Variants After Infections.

PMID: 35281007 2022 Frontiers in immunology

Introduction: B.1.1.7, which was firstly detected in the United Kingdom, has an N501Y mutation in the receptor binding domain (RBD) of S protein.

Introduction: B.1.351, which was found in South Africa, has three mutations (K417N, E484K, and N501Y) in the RBD.

Introduction: Finally, B.1.1.529, which was detected in Botswana on November 11, 2021 and South Africa on November 14, 2021, has 15 mutations (G339D, S371L, S373P, S375F, K417N, N440K, G446S,

SARS-CoV-2 infection after vaccination in Italian health care workers: a case report.

PMID: 35283546 2022 National Academy science letters. National Academy of Sciences, India

Abstract: Their genotyping performed on RNA extracts highlighted the presence of del69/70, N501Y, A570D, and 1841A > G (D614G) sequence variants, all indicative of VOC 202012/01-lineage B.1.1.7, suggesting a common source of infection.

Result: The genotyping performed first by Real-time PCR and then confirmed by direct sequencing proved the presence of del69/70, N501Y, A570D, and 1841A > G (D614G) variants, indicative of VOC 202,012/01-lineage B.

Figure: Sections from the electropherograms showing the 69/70, N501Y, A570D, and D614G (a., b., c., d.) associated with SARS-CoV-2 Alfa Variant B.1.1.7.

Design of SARS-CoV-2 Variant-Specific PCR Assays Considering Regional and Temporal Characteristics.

PMID: 35285246 2022 Applied and environmental microbiology

Result: To further confirm whether the RT-qPCR results were correct, we conducted NGS analysis to examine eight mutation markers for the Alpha variant (S:Delta69/70, S:Delta144, S:N501Y, S:A570D, S:P681H, S:T716I, S:S982A, and S:D1118H) and six mutation markers for the Delta variant (S:T19R, S:Delta156/157, S:L452R,

[Detection SARS-CoV-2 (Coronaviridae: Coronavirinae: Betacoronavirus: Sarbecovirus) in children with acute intestinal infection in Nizhny Novgorod during 2020-2021].

PMID: 35293190 2022 Voprosy virusologii

Abstract: Analysis of the S-protein amino acid sequence of the strains studied showed the absence of the N501Y mutation in the 2020 samples, which is a marker for variants with a high epidemic potential, called variants of concern (VOC) according to the World Health Organization (WHO) definition (lines Alpha B.1.1.7, Beta B.1.351, Gamma P.1).

Analysis of SARS-CoV-2 variants B.1.617: host tropism, proteolytic activation, cell-cell fusion, and neutralization sensitivity.

PMID: 35293847 2022 Emerging microbes & infections

Result: Additionally, the mouse-adapted mutants N501Y, Q493K, and Q498H of the SARS-CoV-2 RBD also showed significantly increased binding affinity towards mouse ACE2.

Result: Notably, similar as K417N, N501Y, and E484K in the B.1.351 variant, RBD mutations in the B.1.617 variants also showed enhanced infectivity in mouse cells.

Neutralisation Hierarchy of SARS-CoV-2 Variants of Concern Using Standardised, Quantitative Neutralisation Assays Reveals a Correlation With Disease Severity; Towards Deciphering Protective Antibody Thresholds.

PMID: 35330908 2022 Frontiers in immunology

Table: N501Y

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