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.
Identification of a novel SARS-CoV-2 variant with a truncated protein in ORF8 gene by next generation sequencing.
Method: All other plasmids expressing spike protein mutants such as pcDNA 3.1 bs(-) T19R, pcDNA 3.1 bs(-) T95I, pcDNA 3.1 bs(-) E156G/Delta157-158, pcDNA 3.1 bs(-) L452R, pcDNA 3.1 bs(-) E484Q, pcDNA 3.1 bs(-) E156G/Delta157-158/L452R, pcDNA 3.1 bs(-) E156G/Delta157-158/E484Q, pcDNA 3.1 bs(-) E156G/Delta157-158/L452R/E484Q, and pcDNA 3.1 bs(-) ICS-05 were generated using site-directed mutagenesis by PCR using the pcDNA 3.1 bs(-) spike D614G plasmid as the template.
RT-LAMP assay for rapid detection of the R203M mutation in SARS-CoV-2 Delta variant.
Introduction: Delta variants have a number of characteristic mutations in their spike protein, including single-nucleotide polymorphisms (SNPs) resulting in T19R, R158G, L452R, T478 K, D614G, P681R, and D950N, which are usually chosen as the detection targets of the molecular diagnostics for Delta genotyping.
Analysis of SARS-CoV-2 variants B.1.617: host tropism, proteolytic activation, cell-cell fusion, and neutralization sensitivity.
Figure: Data show the neutralization ID50 ratio of each variant, compared with the D614G reference strain.
Figure: Fluorescence signals of GFP were normalized to the signal of the D614G reference strain after 1 h of co-incubation; values shown indicate means +- SEMs.
Figure: Neutralization activities of from animals immunized with D614G and other SARS-CoV-2 variants.
Figure: Normalized ID50 ratios compared to D614G reference strain are shown.
Figure: Normalized chemiluminescence signals (in RLUs) of target cells were calculated compared with the D614G reference strain.
Figure: Ratios of infectivity compared with the D614G reference strain were shown.
Figure: Reduced differences (compared with the D614G r
Fusogenicity and neutralization sensitivity of the SARS-CoV-2 Delta sublineage AY.4.2.
Introduction: The spike protein of Delta contains 9 mutations, when co
Method: The D614G spike plasmid was generated by introducing the mutation into the Wuhan reference strain via Q5 site-directed mutagenesis (NEB).
Result: As previously reported, the D614G and Alpha spike variants were less fusogenic than the Delta spike (Figure 2a, b, Figure S2).
Result: We previously reported using this assay that the spike protein of Alpha had the highest affinity to ACE2, followed by Delta and then by D614G.
Result: We thus analyzed the fusogenic activity of the AY.4.2 spike and compared it to the D614G, Alpha and Delta spikes.
Design of SARS-CoV-2 Variant-Specific PCR Assays Considering Regional and Temporal Characteristics.
PMID: 35285246
2022
Applied and environmental microbiology
Result: As a result, for the Alpha variant, we identified nine mutations in the spike gene: S:Delta69/70, S:Delta144, S:N510Y, S:A570D, S:D614G, S:P681H, S:T716I, S:S982A, and S:D1118H.
Result: For the Delta variant, we identified seven mutations: S:T19R, S:Delta156/157, S<
SARS-CoV-2 Mutations and Their Impact on Diagnostics, Therapeutics and Vaccines.
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,
The SARS-CoV-2 Alpha variant exhibits comparable fitness to the D614G strain in a Syrian hamster model.
Introduction: Experimental data from human lung epithelium and animal models revealed that the D614G substitution increased virus infectivity and transmissibility as compared to an original D614 strain.
Introduction: From January 2020, viruses carrying the spike D614G mutation emerged in several countries.
Introduction: In June, D614G SARS-CoV-2 lineage B.1 became the dominant form of circulating virus worldwide and replaced the initial SARS-CoV-2 strains related to the outbreak in Wuhan, China.
Method: To quantify D614:G614 ratios using a previous
Discussion: Some recent studies regarding transmissibility of Alpha variant or Alpha-like viruses showed a fitness advantage of these viruses on strains carrying D614G spike mutation in the hamster model.
SARS_CoV_2 mutation literature information.
PMID: 
2022
National Academy science letters. National Academy of Sciences, India
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