literature

SARS_CoV_2 mutation literature information.

The fatty acid site is coupled to functional motifs in the SARS-CoV-2 spike protein and modulates spike allosteric behaviour.

PMID: 34934478 2021 Computational and structural biotechnology journal

Introduction: A distribution of conformations taken from the equilibrium simulations of the locked form of the unglycosylated and uncleaved D614G spike with LA bound was used as the starting point for the dynamical-nonequilibrium simulations.

Introduction: An analogous analysis was performed on the D614G mutant to establish whether K854 makes alternative hydrogen-bond or salt-bridge contacts across the 3 subunit interfaces (averaged over 3 x 200 ns replicates) in the absence of a partnering D614 carboxylate.

Introduction: As noted above, the response of the D614G spike to LA is also less symmetrical than the wild-type.

The Development of SARS-CoV-2 Variants: The Gene Makes the Disease.

PMID: 34940505 2021 Journal of developmental biology

Abstract: Some concerning mutations associated with an impact on viral fitness have been described in the Spike protein, such as D614G, N501Y, E484K, K417N/T, L452R, and P681R, among others.

Abstract: The first known mutation associated with higher transmissibility, D614G, was detected in early 2020.

Introduction: A new clade bearing mutation D614G, called A2a or Clade G, identified in February 2020, became the founder of the B1 lineage and spread globally.

A Conservative Replacement in the Transmembrane Domain of SARS-CoV-2 ORF7a as a Putative Risk Factor in COVID-19.

PMID: 34943191 2021 Biology

Abstract: Well-characterized mutations in the spike protein, such as D614G, N439K, Delta69-70, E484K, or N501Y, are currently defining specific variants; however, some less studied mutations outside the spike region, such as p.

Insights into the Binding of Receptor-Binding Domain (RBD) of SARS-CoV-2 Wild Type and B.1.620 Variant with hACE2 Using Molecular Docking and Simulation Approaches.

PMID: 34943225 2021 Biology

Introduction: Globally, most SARS-CoV-2 isolates have the D614G mutation.

Result: Recently, a new variant of concern, B.1.620, with 23 mutations in total, including S477N, E484K, D614G, and P681H, has been reported.

Complete genome sequencing of SARS-CoV-2 strains: A pilot survey in Palestine reveals spike mutation H245N.

PMID: 34949225 2021 BMC research notes

Introduction: All ten study genome sequences contained the spike mutation D614G which is the most prevalent mutation (90.2%) reported in 132 countries which has been shown to increase infectivity of the virus by increasing cellular transduction.

Endogenous Antibody Responses to SARS-CoV-2 in Patients With Mild or Moderate COVID-19 Who Received Bamlanivimab Alone or Bamlanivimab and Etesevimab Together.

PMID: 34956222 2021 Frontiers in immunology

Result: Antibody titers against four different SARS-CoV-2 spike versions (the full-length spike protein bearing the D614G substitution, the Spike-RBD, the RBD carrying the E484Q alteration, or the NTD) and the nucleocapsid protein (NCP) ( Table 2 ) were calculated using serum samples obtained from each cohort.

Result: Genotypic analysis of the SARS-CoV-2 virus present in baseline samples confirm absence of these SARS-CoV-2 variants in this cohort, with the majority of infecting viruses containing the D614G substitution in spike found in the B.1 pangolin lineages.

Table: D614G

Computational Saturation Mutagenesis of SARS-CoV-1 Spike Glycoprotein: Stability, Binding Affinity, and Comparison With SARS-CoV-2.

PMID: 34957216 2021 Frontiers in molecular biosciences

Introduction: We identified some target mutations D614G, N501Y, and K417N in the South Africa, United Kingdom, and Brazil variants, respectively.

Result: D614G, the dominant variant of SARS-CoV-2, corresponds to D600G but was predicted to stabilize S (G = -0.784 kcal/mol).

Table: D614G

The Impact of Mutations on the Pathogenic and Antigenic Activity of SARS-CoV-2 during the First Wave of the COVID-19 Pandemic: A Comprehensive Immunoinformatics Analysis.

PMID: 34960156 2021 Vaccines

Result: D614G (50%) and P323L (49%) mutations showed the highest frequency among the screened sequences.

Result: Among these pathogenic mutations, D614G (score = 4) in the S region has already been reported to be associated with greater infectivity.

Result: It was observed that the antigenicity of the epitope with the deleterious mutation D614G decreased.

Semi-Supervised Pipeline for Autonomous Annotation of SARS-CoV-2 Genomes.

PMID: 34960694 2021 Viruses

Abstract: We observed 3362 non-redundant sequences per protein on average within this corpus and described key D614G and N501Y variants spatiotemporally in the initial genome corpus.

Introduction: Additionally, several variants of SARS-CoV-2 genomes have emerged, including the D614G variant, which appeared earlier in the

Result: Then in mid-April 2020, the notable variant D614G (orange line) with now known increased infectivity, due to interaction with the ACE2 receptor, overtakes the ancestral reference sequence (green line) in its abundance, achieving fixation.

SARS-CoV-2 Delta Variant Displays Moderate Resistance to Neutralizing Antibodies and Spike Protein Properties of Higher Soluble ACE2 Sensitivity, Enhanced Cleavage and Fusogenic Activity.

PMID: 34960755 2021 Viruses

Introduction: However, convalescent sera from individuals infected with an early viral isolate (Wuhan-Hu-1) effectively cross-neutralized D614G.

Introduction: One of the earliest variants that is highly infectious and thus became globally dominant is B.1 (D614G).

Introduction: The spike protein of the B.1.617.2 variant contains nine substitutions and deletions compared to the early D614G variant used here as wild type (WT or D614G).

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