literature

SARS_CoV_2 mutation literature information.

Clinical Evaluation of a Fully-Automated High-Throughput Multiplex Screening-Assay to Detect and Differentiate the SARS-CoV-2 B.1.1.529 (Omicron) and B.1.617.2 (Delta) Lineage Variants.

PMID: 35337015 2022 Viruses

4Method: By using this approach, we generated two Omicron ""specific"" targets (A67V + DEL69/70; and P681H + N679K)."

4Method: For the furin-cleavage-site, probe-4 (""P681H"") also covers N679K with an LNA-base."

7Fig

Mutational cascade of SARS-CoV-2 leading to evolution and emergence of omicron variant.

PMID: 35367284 2022 Virus research

Abstract: Mutational analysis detected 18,261 mutations in the omicron variant, majority of which were non-synonymous mutations in spike (A67, T547K, D614G, H655Y, N679K, P681H, D796Y,

Result: The majority of spike protein mutations encompass A67, T547K, D614G, H655Y, N679K, P681H, D796Y, N856K, Q954H, which are reported in all the omicron genomes analysed (table 3).

Table: N679K

SARS-CoV-2 BA.1 variant is neutralized by vaccine booster-elicited serum, but evades most convalescent serum and therapeutic antibodies.

PMID: 35380448 2022 Science translational medicine

Result: We compared the neutralization titers of these serum samples against pseudoviruses bearing spike proteins from the following variants: D614G, Omicron (A67V, del69-70, T95I, del142-144, Y145D, del211, L212I, ins214EPE, G339D, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493R, G496S, Q498R,

Emergence and phenotypic characterization of the global SARS-CoV-2 C.1.2 lineage.

PMID: 35396511 2022 Nature communications

Method: The SARS-CoV-2 Wuhan-1 spike, cloned into pCDNA3.1, was mutated using the QuikChange Lightning Site-Directed Mutagenesis kit (Agilent Technologies) and NEBuilder HiFi DNA Assembly Master Mix (NEB) to include D614G (wild-type) or lineage defining mutations for Beta (L18F, D80A, D215G, 241-243del, K417N, E484K, N501Y, D614G and A701V), Delta (T19R, 156-157del, R158G, L452R, T478K, D614G, P681R and D950N

Pathogenicity of SARS-CoV-2 Omicron (R346K) variant in Syrian hamsters and its cross-neutralization with different variants of concern.

PMID: 35405385 2022 EBioMedicine

Method: On deep sequencing following amino acid changes were found in the isolate.(NSP5_P132H,Spike_T95I,Spike_K417N,Spike_S373P,Spike_Q493R,Spike_N969K, Spike_H655Y,Spike_N856K,N_R203K,Spike_S371L,NSP3_A1892T,

PMID: 35433495 2022 Frontiers in cellular and infection microbiology

Table: N679K

Antigenicity comparison of SARS-CoV-2 Omicron sublineages with other variants contained multiple mutations in RBD.

PMID: 35434713 2022 MedComm

Table: N679K

Occurrence of a novel cleavage site for cathepsin G adjacent to the polybasic sequence within the proteolytically sensitive activation loop of the SARS-CoV-2 Omicron variant: The amino acid substitution N679K and P681H of the spike protein.

PMID: 35436320 2022 PloS one

Result: However, CatG cleaved SARS-CoV-2 N679K P681R (Omicron) peptide with a substrate turnover rate of approximately 20%.

Result: In a first set of investigat

Discussion: Furthermore, the increased turnover capacity of furin and the fact that furin (CatG) controlled the processing of SARS-CoV-2 N679K P681R (Omicron) peptide in contrast to NE, indicate to target furin and, most likely, CatG with selective protease inhibitors as a logical consequence to interfere with the priming of the S protein.

Divergent SARS-CoV-2 Omicron-reactive T and B cell responses in COVID-19 vaccine recipients.

PMID: 35113647 2022 Science immunology

Method: The omicron variant contained the following spike mutations: A67VS, del69-70, T95I, G142-, del143-144, Y145D, del211, L212I, ins215EPE, G339D, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493R, G496S, Q498R, N501Y, Y505H, T547K, D614G,

Memory B cell repertoire from triple vaccinees against diverse SARS-CoV-2 variants.

PMID: 35090164 2022 Nature

Method: In additional to the reported mutations (A67V, Delta69-70, T95I, G142D, Delta143-145, Delta211, L212I, ins214EPE, G339D, S371L, S373P, S375F, K417N, N440K, G446S, S477N, T478K, E484A, Q493R, G496S, Q498R, N501Y, Y505H, T547K, D614G,

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