Mutation rate of SARS-CoV-2 and emergence of mutators during experimental evolution.
PMID: 35419205
2022
Evolution, medicine, and public health
Result: Nonetheless, among these, we report the mutations H655Y (present in the variant of concern Gamma, lineage P.1, originated in Brazil, and Omicron, lineage BA.1), D215G (present in the variant of concern Beta, lineage B.1.351, first identified in South Africa) and D253G (found in lineage B.1.426, mostly detected in the USA).
Longitudinal analysis of SARS-CoV-2 spike and RNA-dependent RNA polymerase protein sequences reveals the emergence and geographic distribution of diverse mutations.
PMID: 34801754
2022
Infection, genetics and evolution
Result: first detected in New York (L5F, T95I, D253G; E484K or S477N; D614G, and A701V), appear together consistent
Figure: 1 associated with the Iota variant of interest are L5F, D253G, E484K, S477N, D614G, A701V).
Discussion: Several variants observed in the N-terminal domain and the signal peptide (L18F, Y144del, and D253G) have also been shown to decrease the effectiveness of antibodies.
Haplotype distribution of SARS-CoV-2 variants in low and high vaccination rate countries during ongoing global COVID-19 pandemic in early 2021.
PMID: 34848355
2022
Infection, genetics and evolution
Result: Haplotype 2B containing the mutations at nsp12 P323L, Spike D614G, ORF3a Q57H, and nsp2 I85I emerged post 6-month spread, evolved into five sub-haplotypes, such as additional mutations at nsp3 K837N, spike protein D80A and D215G in sub-haplotype 2B_1, spike L5F, T95I, D253G in sub-haplotype 2B_4, and
Table: D253G
Efficacy of mRNA, adenoviral vector, and perfusion protein COVID-19 vaccines.
Result: Two other closely studied spike substitutions, E484K and L452R, were not notably enriched among vaccine breakthrough cases, and the D253G substitution was modestly depleted.
Discussion: In contrast, several substitutions were estimated to be less likely to appear in vaccine breakthrough samples, including nucleocapsid mutation P199L (detected in B.1.2, B.1.526, and B.1.596; odds ratio of 0.5; 95% credible interval of 0.24-0.88), and spike mutation D253G (detected in B.1.526; odds ratio of 0.5; 95% credible interval of 0.23-0.89).
Discussion: The spike D253G substitution has been implicated in MAb evasion, and
Discriminatory Weight of SNPs in Spike SARS-CoV-2 Variants: A Technically Rapid, Unambiguous, and Bioinformatically Validated Laboratory Approach.
Introduction: The Iota variant has six mutations on the spike gene (L5F, T95I, D253G, E484K, D614G, and A701V), whilst the Lambda variant is characterized by seven mutations on the same gene (G75V, T76I, del246/252, L452Q, F490S, D614G, and T859N).
Evaluation of the clinical and analytical performance of the Seegene allplex SARS-CoV-2 variants I assay for the detection of variants of concern (VOC) and variants of interests (VOI).
Result: The same phenotype is applicable to most of its mutations, with the exception of D253G substitution in the NTD, which showed a modest ~1.2-fold decrease in binding.
Serum Neutralizing Activity of mRNA-1273 against SARS-CoV-2 Variants.
SARS_CoV_2 mutation literature information.
PMID: 
2022
Evolution, medicine, and public health
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