literature

SARS_CoV_2 mutation literature information.

Genomics and epidemiology of a novel SARS-CoV-2 lineage in Manaus, Brazil.

PMID: 33688664 2021 medRxiv

Introduction: Lineage P.1 contains 10 new amino acid mutations in the virus spike protein (L18F, T20N, P26S, D138Y, R190S, K417T, E484K, N501Y, H655Y, T1027I) compared its immediate ancestor (B.1.1.28).

Neutralising antibody escape of SARS-CoV-2 spike protein: Risk assessment for antibody-based Covid-19 therapeutics and vaccines.

PMID: 33724631 2021 Reviews in medical virology

Table: T1027I

Antibody evasion by the P.1 strain of SARS-CoV-2.

PMID: 33852911 2021 Cell

Method: The P.1 virus used in these studies contained the following mutations: L18F, T20N, P26S, D138Y, R190S,

Result: Compared to the Wuhan sequence, P.1 contains the following mutations: L18F, T20N, P26S, D138Y, and R190S in the NTD; K417T, E484K, and N501Y in the RBD; D614G and H655Y at the C terminus of S1; and T1027I and V1176F in S2.

Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil.

PMID: 33853970 2021 Science (New York, N.Y.)

Introduction: Lineage P.1 contains 10 lineage-defining amino acid mutations in the virus spike protein (L18F, T20N, P26S, D138Y, R190S, K417T, E484K, N501Y, H655Y, and T1027I) compared with its immediate ancestor (B.1.1.28).

A Potential SARS-CoV-2 Variant of Interest (VOI) Harboring Mutation E484K in the Spike Protein Was Identified within Lineage B.1.1.33 Circulating in Brazil.

PMID: 33919314 2021 Viruses

Introduction: The VOC P.1, first described in January 2021, displayed an unusual number of lineage-defining mutations in the S protein (L18F, T20N, P26S, D138Y, R190S, K417T, E484K, N501Y, H655Y, T1027I) and its emergence was associated with a second COVID-19 epidemic wave in the Amazonas state.

Mutation Signatures and In Silico Docking of Novel SARS-CoV-2 Variants of Concern.

PMID: 33925854 2021 Microorganisms

Result: The BR-VOC is highly mutated in the S-gene resulting in 12 aa substitutions in the S-protein including L18F, T20N, P26S, D138Y, R190S, K417T, E484K, N501Y, D614G, H655Y, T1027I, and V1176F.

SARS-CoV-2 gene content and COVID-19 mutation impact by comparing 44 Sarbecovirus genomes.

PMID: 33976134 2021 Nature communications

Result: For example, the B.1.1.7 lineage includes mutations C5388A (orf1ab:A1708D) in a string of 7 perfectly conserved amino acids in a well-conserved region of nsp3, C14676T, a synonymous change in a large SCE in RdRp (situated between two conserved structures predicted by RNAz so possibly part of a containing structure too large for the prediction algorithm), T24506G (spike:S982A) in an extremely well-conserved region of S2, a three-nucleotide mutation at position 28280 (nucleocapsid:D3L) which weakens the initiation context of ORF9b, and C27972T (

E484K as an innovative phylogenetic event for viral evolution: Genomic analysis of the E484K spike mutation in SARS-CoV-2 lineages from Brazil.

PMID: 34044192 2021 Infection, genetics and evolution

Result: Lineage-defining mutations as S:K471T, S:N501Y, S:T1027I, N:P80R, Nsp6:S106-107del, Nsp6:F108del, and NS8:E92K were found only in the P.1 group and reported for all 19 P.1 sequences.

Table: T1027I

SARS-CoV-2 Brazil variants in Latin America: More serious research urgently needed on public health and vaccine protection.

PMID: 34109031 2021 Annals of medicine and surgery (2012)

Introduction: These mutations are L18F, T20N, P26S, D138Y, R190S, D614G H655Y, T1027I, and V1176F.

Analysis of SARS-CoV-2 variant mutations reveals neutralization escape mechanisms and the ability to use ACE2 receptors from additional species.

PMID: 34166623 2021 Immunity

Method: The variant P.1 (GISAID: EPI_ISL_792681) was constructed with 12 mutations including L18F, T20N, P26S, D138Y, R190S, K417T, E484K, N501Y, D614G, H655Y, T1027I and V1176F.

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