literature

SARS_CoV_2 mutation literature information.

Evolutionary analysis of the Delta and Delta Plus variants of the SARS-CoV-2 viruses.

PMID: 34399188 2021 Journal of autoimmunity

Introduction: According to the United States (US) Center for Disease Control (CDC), signature Spike mutations in the aggregated Delta and Delta Plus variant include T19R, (V70F*), T95I, G142D, E156-, F157-, R158G, (A222V*), (W258L*), (K417N*), L452R

Figure: Prevalence of five key mutations (T95I, G142D, R158G, L452R, T478K, and K417N) at different time points in Delta variant (n = 600) sequences and Delta Plus variant (n = 200) sequences.

Controversy surrounding the Sputnik V vaccine.

PMID: 34399368 2021 Respiratory medicine

Introduction: Delta variant shows four key mutations in sequence encoding S protein: L452R, T478K, D614G, P681R.

Characterization of SARS-CoV-2 worldwide transmission based on evolutionary dynamics and specific viral mutations in the spike protein.

PMID: 34419160 2021 Infectious diseases of poverty

Table: T478K

Community-level SARS-CoV-2 sequence diversity revealed by wastewater sampling.

PMID: 34438144 2021 The Science of the total environment

Abstract: We identify four signature mutations in the surface glycoprotein (spike) gene that are associated with the following variants of interest or concern, VOI or VOC (listed in parenthesis): S477N (B.1.526, Iota), T478K (B.1.617.2, Delta), D614G (present in all VOC as of May 2021), and H655Y (P.1, Gamma).

Result: Four mutations in the spike gene were detected that are present in one or more variants of interest (VOI) or variants of concern (VOC), which are listed in parenthesis: S477N (B.1.526, Iota), T478K (B.1.617.2, Delta), D614G (present in all VOC as of May 2021), Table: T478K

Emergence and spread of the potential variant of interest (VOI) B.1.1.519 of SARS-CoV-2 predominantly present in Mexico.

PMID: 34448936 2021 Archives of virology

Abstract: In the present work, we report the identification of a potential variant of interest, harboring the mutations T478K, P681H, and T732A in the spike protein, within the newly named lineage B.1.1.519, that rapidly outcompeted the preexisting variants in Mexico and has been the dominant virus in the country during the first trimester of 2021.

Introduction: A phylogenomic analysis of genomic sequences using the Nextstrain tool showed that the viruses in the lineage B.1.1.519 (B.1.1.1.222+T478K+P681H+T732A) group independently of the lineage B.1.1.222 sequences, strongly suggesting that this variant should be classified as a variant of interest (VOI).

Introduction: A striking observation was the detection of the B.1.1.519 lineage in the

Monitoring SARS-CoV-2 Populations in Wastewater by Amplicon Sequencing and Using the Novel Program SAM Refiner.

PMID: 34452511 2021 Viruses

Result: T478K and L452R each have lineage associations.

Result: Sequences from the RBD amplicon matched reference sequence, lineages B.1.1.7 with '1501T(N501Y) 1709A(A570D)', P.1 with '1250C(K417T) 1450A(E484K) 1501T(N501Y)', or had the single variations of T478K or L452R (Supplementary 11).

Result: These differences were more pronounced with covariants with relatively low abundance, such as is seen with 3-30 RBD samples, where one detects T478K and the other does not (Figure 5).

Delta spike P681R mutation enhances SARS-CoV-2 fitness over Alpha variant.

PMID: 34462752 2021 bioRxiv

5Result: Delta spike has accumulated mutations T19R, G142D, E156G, F157-R158 deletion, L452R, T478K, D614G, P681R, and D950N, among which P681R is located at a furin cleavage site (PRRAR S with P681 underlined and "" "" indicating furin cleavage) that is absent in other group 2B coronaviruses."

Result: Within the RBD, the Alpha RBD has a N501Y mutation, whereas Delta RBD has L452R and T478K muta

Evolution, Mode of Transmission, and Mutational Landscape of Newly Emerging SARS-CoV-2 Variants.

PMID: 34465019 2021 mBio

Table: T478K

Impact of temperature on the affinity of SARS-CoV-2 Spike glycoprotein for host ACE2.

PMID: 34478710 2021 The Journal of biological chemistry

Result: S1), notably mutations L452R (8.8%), E484K (7.7%), T478K (5.9%), S477N (2.2%), and N439K (1.2%), which are also found in other various VOCs and were shown to either increase infectivity or promote the evasion of antibody responses.

Crucial Mutations of Spike Protein on SARS-CoV-2 Evolved to Variant Strains Escaping Neutralization of Convalescent Plasmas and RBD-Specific Monoclonal Antibodies.

PMID: 34484190 2021 Frontiers in immunology

Figure: Eight mutations (Y453F, L455F, F456L, A475V, A475S, T500S, N501Y, and Y505H) were in the RBD and hACE2 interaction region (RBD/hACE2); 10 mutations (V367I, V382L, R408G, N438K, L452Q, S477N, T478K, E484Q, S494P, and A520S) were in the RBD region but no

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