Comparative genomics, evolutionary epidemiology, and RBD-hACE2 receptor binding pattern in B.1.1.7 (Alpha) and B.1.617.2 (Delta) related to their pandemic response in UK and India.
PMID: 35427787
2022
Infection, genetics and evolution
Abstract: First, we served comparative genomics, such as genome sequence submission patterns, mutational landscapes, and structural landscapes of significant mutations (N501Y, D614G, L452R, E484Q, and P681R).
Abstract: The structural pattern was analyzed in the N501Y, D614G L452R, E484Q, and P681R mutations.
Result: Again, like the previous point AA mutation, we also evaluated the D614G mutation, which was identified as the B.1.1.7 variant.
Result: In the D614G structure, the amino acid changed from Asp614 Gly.|mg
Prolonged shedding of infectious viruses with haplotype switches of SARS-CoV-2 in an immunocompromised patient.
PMID: 35430092
2022
Journal of infection and chemotherapy
Conclusion: When haplotype 1 was compared with Wuhan-Hu-1/2019 (GenBank accession number; MN908947), it had ten non-synonymous (ORF1a:Q2702H and S2981F, ORF1b:P314L, T1404 M, P1567L, and R2684I, S gene:D614G, N gene:R203K, G204R, and M234I) and five synonymous mutations.
Role of the Microbiome in the Pathogenesis of COVID-19.
PMID: 35433495
2022
Frontiers in cellular and infection microbiology
Abstract: Soon after the first outbreak due to the wild-type strain in December 2019, a genetic variant D614G emerged in late January to early February 2020 and became the dominant genotype worldwide.
Conclusion: The two most commonly occurring mutations, Spike_D614G and Nsp12_P314L, were structurally modeled, which showed that these mutations had the potential to enhance viral entry and replication, respectively.
Introduction: Among these, the D614G clade was the most common and was first found in late January 2020 in China, according to a study conducted by.
Introduction: Earliest samples from the USA appeared to have been derived from China and belonged to basal or L84S
Table: D614G
Antigenicity comparison of SARS-CoV-2 Omicron sublineages with other variants contained multiple mutations in RBD.
Abstract: Among them, D614G, B.1.640.1, and B.1.630 formed a cluster, C.1.2 and B.1.640.2 formed a cluster, and BA.1, BA.2, and BA.3 formed a cluster.
Result: Among them, the D614G immunized serum had the strongest neutralization protection to the original
Table: D614G
Discussion: AM180 and 9G11 lost neutralizing activity to the other seven variants except for D614G, presumably due to the E484 mutation.
Discussion: Among them, D614G, B.1.640.1, and B.1.630 formed a cluster, C.1.2 and B.1.640.2 formed a cluster, and BA.1, BA.2, and BA.3 formed a cluster.
Discussion: Our data indicated that D614G, Alpha, Delta, and Mu were similar in immunogenicity, and these sera had significantly reduced protection against Omicron sublineages (Figure S1).
Characteristic analysis of Omicron-included SARS-CoV-2 variants of concern.
Discussion: In July 2020, a strain with the spike protein D614G mutation was discovered in Europe and subsequently became the main form of the virus pandemic.
Discussion: In the Alpha and Omicron strains, two key deletions, H60V70, are on the epitope, which can affect the immune escape of the S protein (Figure 4F), whereas N501Y and D614G have almost no effect on the antigen score, and the P681 mutation slightly reduces the epitope score and may have a certain impact.
Discussion: The RBD regions of Alpha, Beta, Delta, and Omicron strains are more exposed, and the junction between the variants S protein and the virion has a prominent structure, which may be caused by the D614G mutation.
The twin-beginnings of COVID-19 in Asia and Europe-one prevails quickly.
Abstract: The first wave is a group of four mutations (C241T, C3037T, C14408T and A23403G [this being the amino acid change D614G]; all designated 0 to 1 below).
Abstract: This DG (D614G) group, fixed at the start of the pandemic, is the foundation of all subsequent waves of strains.
Safety and Immunogenicity of Inactivated COVID-19 Vaccines Among People Living with HIV in China.
Discussion: However, the GMT for the delta variant was significantly lower than the GMT for the D614G variant in PLWH, which is consistent with Chang Liu's finding that mRNA vaccines induced an antibody response to some variants, but the neutralization of the delta variant was reduced.
Discussion: SARS-CoV-2 IgG concentrations and neutralizing antibody titers against the D614G and delta variants also declined significantly in PLWH compared to HDs.
Discussion: The D614G and delta variants harbor mutations in the RBD, so neutralizing titers to the pseudotyped virus may better show the immune response to the two variants elicited by vaccination than titers of S-RBD-IgG.
Discussion: The positive rates of neut
Biomechanical Dependence of SARS-CoV-2 Infections.
Abstract: Given the recent data highlighting the importance of alternative virulent strains, we included both the native strain identified in early 2020 and an early S protein variant (D614G) that was shown to increase the viral infectivity markedly.
Abstract: Our results show that cells on softer and sparser scaffolds, closer resembling younger lungs, exhibit higher infection rates by the WT and D614G variant.
RBD-mRNA vaccine induces broadly neutralizing antibodies against Omicron and multiple other variants and protects mice from SARS-CoV-2 challenge.
Abstract: The vaccine induced durable antibodies that potently neutralized prototypic strain and B.1.1.7 lineage variant pseudoviruses containing N501Y or D614G mutations alone or in combination with a N439K mutation (B.1.258 lineage), with a L452R mutation (B.1.427 or B.1.429 lineage), or a L452R-E484Q double mutation (B.1.617.1 variant), although neutralizing activity against B.1.1.7 lineage variant containing 10 amino acid changes in the S protein was slightly reduced.
SARS-CoV-2 mutations acquired during serial passage in human cell lines are consistent with several of those found in recent natural SARS-CoV-2 variants.
PMID: 35474907
2022
Computational and structural biotechnology journal
Introduction: For example, the D614G and P681R mutations in the spike protein were associated with increased viral replication in human lung epithelial cells and enhanced viral pathogenicity, respectively.
Discussion: Following the noticeable increase in the D614G mutation in April 2020, the Omicron variant has acquired over 30 mutations, including those found in the Alpha, Beta, Gamma, and Delta variants.
Discussion: However, in this experiment, key natural mutations such as D614G were not observed, which could be due to the specific host cells used or the in vitro culture system.
SARS_CoV_2 mutation literature information.
PMID: 
2022
Infection, genetics and evolution
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