Introduction: The D614G substitution has been shown to decrease shedding of S1 from spike on virions, consistent with increased stability of the pre-fusion conformation.
Introduction: The virus has evolved in the human host during the pandemic and we and others have demonstrated that the predominant D614G substitution, located in a monomer-monomer interface of the spike trimer, increases its propensity to adopt the open conformation that is competent to bind receptor.
Introduction: This enabled us to directly compare the pre-fusion spikes of the new variants with those of the original strain (first identified in Wuhan) and the D614G-only variant we described in previous studies, findings that agree with reports that used non-stabilised spikes.
Simultaneous detection of SARS-CoV-2 and identification of spike D614G mutation using point-of-care real-time polymerase chain reaction.
PMID: 35257681
2022
Journal of virological methods
Introduction: For the simultaneous detection of SARS-CoV-2 and its variant (D614G mutant), FAM and ROX fluorophores were attached to each probe during probe sequence design to enable target discrimination.
Introduction: In the experiment, the specificity and sensitivity of RdRp and N target primer pairs and probe sets were confirmed in the L clade, chosen to represent viruses containing the target gene without the D614G mutation.
Introduction: In this milieu, we developed a rRT-PCR detection method that simultaneously detects common SARS-CoV-2 and the SARS-CoV-2 D614 strain (a mutant with the replacement of aspartic acid with glycine at position 614 of the spike glycoprotein (S protein)), which has become a major circulating strain worldwid
Omicron variant (B.1.1.529) of SARS-CoV-2: understanding mutations in the genome, S-glycoprotein, and antibody-binding regions.
Abstract: We also evaluated mutations in the antibody-binding regions and observed some important mutations overlapping those of previous variants including N501Y, D614G, H655Y, N679K, and P681H.
Result: Mutations previously reported as important in different variants were
Discussion: The significant mutations and features are N501Y (augments the binding between of S-protein and ACE2); D614G (increase infectivity); H655Y (accelerate transmission); N679K (increase viral transmission); and P681H (enhance binding affinity of S-protein) (Table 2).
A structural dynamic explanation for observed escape of SARS-CoV-2 BA.2 variant mutation S371L/F.
Introduction: Altered closed versus open state occupancy also explains the expected S371L/F fitness cost, as a tradeoff between closed-state occupancy and infectivity was recently established via smFRET characterization of the altered conformational dynamics due to the D614G and Alpha variant mutations by Yang et al.
Introduction: provide a detailed analysis of loss of potency by evaluating vaccine/convalescent sera and therapeutic antibodies against pseudotyped viruses with D614G spike proteins harboring single point mutations from the variants of concern (VOCs).
Vaccine-Induced Antibody Responses against SARS-CoV-2 Variants-Of-Concern Six Months after the BNT162b2 COVID-19 mRNA Vaccination.
Abstract: Variants D614G, Alpha, and Eta are neutralized by sera of 100% of vaccinees, whereas neutralization of Delta is 3.8-fold reduced and neutralization of Beta is 5.8-fold reduced compared to D614G.
Introduction: We also analyzed the neutralization capacity of vaccinees' sera on two ancestral strains (Wuhan-like and D614G), three VOCs (Alpha, Beta, and Delta), and one VBM (Eta).
Figure: (a) Neutralization titers against D614G (B.1), original Wuhan-like variant (B), and Delta variant (B.1.617.2) were analyzed in microneutralization test performed in two laboratories (A and B) that use different cell lines (VeroE6-TMPRRS2 versus VeroE6), virus amounts (50 TCID50 versus 100 TCID50), incubation times (4 days versus 3 days), and reference virus strains (B.1 versus B).
Figure: (b) Comparison of MNTs performed with 3- and 4-day incubatio
Characterization of SARS-CoV-2 Variants B.1.617.1 (Kappa), B.1.617.2 (Delta), and B.1.618 by Cell Entry and Immune Evasion.
Introduction: For example, the D614G mutation, identified during the earlier stage of the pandemic, promotes spike binding to ACE2, leading to enhanced virus transmission.
Result: To further examine the biological impact of these mutations on cell entry, we produced pseudotyped virus particles containing a firefly luciferase reporter gene and expressing on their surface with the spike proteins of WT (D614G), Kappa, Delta, and B.1.618 variants.
Result: To this end, we used an SARS-CoV-2 tran
Figure: Luciferase activity was determined after 2 days of infection, and data were normalized to the WT (D614G) of the individual experiment.
Figure: This experiment was repeated twice independently, and data were normalized to the WT (D614G) of the individual experiment.
Tetra-primer ARMS-PCR combined with dual-color fluorescent lateral flow assay for the discrimination of SARS-CoV-2 and its mutations with a handheld wireless reader.
Abstract: Herein, we report a low-cost, facile, and highly sensitive diagnostic platform that can simultaneously distinguish wild-type (WT) SARS-CoV-2 and its two mutations, namely, D614G and N501Y, within 2 h.
Abstract: The WT and M viruses were indicated and were strictly discriminated by the presence of a green or red band on test line 1 for the D614G site and test line 2 for the N501Y site.
Abstract: The limits of detection (LODs) for the WT and M D614G were estimated as 78.91 and 33.53 copies per muL, respectively.
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.
Introduction: Key S mutations: L452R, D614G, P681R, +- (E484Q, Q107H,
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
Method: Finally, a 598 PCR product containing L452R, E484K/Q, T478K, and D614G were synthesized, and then sequencing was done.
Method: SARS-CoV-2 positive samples were examined for D614G, L452R, and T478K mutations by High-resolution melting analysis.
Method: SARS-CoV-2 positive samples were screened for del69-70, E484K, Method: Samples with the positive result for del69-70, E484K, E484Q, D614G, and L452R assays were considered screen-positive and collected for Sanger sequencing.
Table: D614G
A SARS-CoV-2 Wuhan spike virosome vaccine induces superior neutralization breadth compared to one using the Beta spike.
Abstract: In addition, neutralizing activity against the D614G, Alpha and Delta variants was also significantly lower after Beta spike vaccination than after Wuhan spike vaccination.
Method: Pre-fusion spike protein ectodomain DNA constructs were designed containing the following mutations compared to the Wuhan variant (Wuhan Hu-1; GenBank: MN908947.3): deletion of H69, V70 and Y144, N501Y, A570D, D614G, P681H, T716I, S982A and D1118H in Alpha; L18F, D80A, D215G, L242H,
SARS_CoV_2 mutation literature information.
PMID: 
2022
Nature communications
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