literature

SARS_CoV_2 mutation literature information.

Emergence of Progressive Mutations in SARS-CoV-2 From a Hematologic Patient With Prolonged Viral Replication.

PMID: 35308337 2022 Frontiers in microbiology

Result: Analysis of minority variants population revealed the presence of mutations T95I and S494L as viral subpopulations with a frequency <25%.

Result: Specifically, two events related to the emergence and re-emergence of three changes (T95I, S494L, and Delta143/144 or Delta143/145) were identified in virus from samples from days 128 and 237.

Result: Supplementary Figure S5 showed the 7 amino acid changes in the Spike of virus detected in the last sample: S12F, T95I, L141F, E484Q, S494L, D614G, and I770V.

Tracking SARS-CoV-2 variants by entire S-gene analysis using long-range RT-PCR and Sanger sequencing.

PMID: 35304093 2022 Clinica chimica acta; international journal of clinical chemistry

Result: Almost all Delta variants analyzed in this study were estimated AY.29 sub-lineage because of detection of the S:T95I and S:G142D mutations.

SARS-CoV-2 spike E156G/Delta157-158 mutations contribute to increased infectivity and immune escape.

PMID: 35296517 2022 Life science alliance

Abstract: We confirmed the presence of E156G/Delta157-158 from cases concurrently screened, in addition to other circulating spike (S1) mutations such as T19R, T95I, L452R, E484Q, and D614G.

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(-)

Analysis of SARS-CoV-2 variants B.1.617: host tropism, proteolytic activation, cell-cell fusion, and neutralization sensitivity.

PMID: 35293847 2022 Emerging microbes & infections

Introduction: Mutation sites involved in the B.1.617 sub-lineages include T19R, T95I, G142D, E154K, F157del, R158del, L452R, T478K, E484Q, D614G, P681R, D950N, Q1071H, and H1101D.

Result: Although the viral infectivity for other species did not change over 4-fold among B.1.617 sub-lineages, the L452R+T478K, L452R+E484Q, T95I

Fusogenicity and neutralization sensitivity of the SARS-CoV-2 Delta sublineage AY.4.2.

PMID: 35290827 2022 EBioMedicine

Abstract: The AY.4.2 spike displays three additional mutations (T95I, Y145H and A222V) in the N-terminal domain when compared to the original Delta variant (B.1.617.2) and remains poorly characterized.

Introduction: Of note, most AY.4.2 sequences (93%) now include the T95I mutation in the NTD of the spike, a substitution that was rarely observed in the original Delta B1.617.2 lineage, but which gradually appeared and is now present in 40% of Delta sequences on GISAID.

Introduction: The T95I substitution was previously detected in the close B.1.617.1 lineage (also termed Kappa).

Method: The T95I, Y145H and

PMID: 34121839 2021 Bioinformatics and biology insights

Abstract: Although huge number of mutations are detected (more than 70 in Asia) by regions, according to bioinformatics tools, some of them which are G75V (isolated from North America), T95I (isolated from South Korea), G143V (isolated from North America), M177I (isolated from Asia), L293M (isolated from Asia), P295H (isolated from Asia), T393P (isolated from Europe), P507S (isolated from Asia), and D614G (isolated from all regions) (These color used only make correct) predicted a damage to spike' protein structure.

Result: As in Table 5, Threonine (T) changes to Isoleucine (I) at different positions such as T22I

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

PMID: 34399188 2021 Journal of autoimmunity

Abstract: Furthermore, five key mutations (T95I, A222V, G142D, R158G, and K417N) were significantly more prevalent in the Delta Plus than in the Delta variant.

Abstract: Signature mutations in Spike (G142D, A222V, and T95I) existed at a more significant percentage in the

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.

Detection and characterization of the SARS-CoV-2 lineage B.1.526 in New York.

PMID: 34373458 2021 Nature communications

Abstract: The most common sets of spike mutations in this lineage (now designated as B.1.526) are L5F, T95I, D253G, E484K or S477N, D614G, and A701V.

Method: Human plasma samples were assayed for neutralization activity against lentiviruses pseudotyped with SARS-CoV-2 spike containing a 21-amino acid cytoplasmic tail deletion and either D614G or mutations corresponding to lineage B.1.526 (v.1: L5F, T95I, D253G, E484K, D614G, and A701V; v.

SARS-CoV-2 Spike Mutations, L452R, T478K, E484Q and P681R, in the Second Wave of COVID-19 in Maharashtra, India.

PMID: 34361977 2021 Microorganisms

Result: Specific mutations such as T95I, H1101D and D1153Y were found in a proportion of B.1.617.1.

Modelling conformational state dynamics and its role on infection for SARS-CoV-2 Spike protein variants.

PMID: 34351895 2021 PLoS computational biology

Result: For example, the Indian variant B.1.617.2 (also known as Delta), contains a core number of mutations in Spike (G142D, E154K, L452R, E484Q, D614G, P681R, Q1071H) but also additional sub-strain variations (T95I, H1101D or V382L).

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