literature

SARS_CoV_2 mutation literature information.

Role of the Microbiome in the Pathogenesis of COVID-19.

PMID: 35433495 2022 Frontiers in cellular and infection microbiology

Introduction: High-frequency co-occurring mutations (R203K and G204R) contributed to decreasing structural flexibility.

Table: G204R

Prolonged shedding of infectious viruses with haplotype switches of SARS-CoV-2 in an immunocompromised patient.

PMID: 35430092 2022 Journal of infection and chemotherapy

Conclusion: When haplotype 1 was compared with Wuhan-Hu-1/2019 (GenBank accession number; MN908947), it had ten non-synonymous (ORF1a:Q2702H and S2981F, ORF1b:P314L, T1404 M, P1567L, and R2684I, S gene:D614G, N gene:R203K, G204R, and M234I) and five synonymous mutations.

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: 35388091 2022 Scientific reports

Table: G204R

The dynamics of circulating SARS-CoV-2 lineages in Bogor and surrounding areas reflect variant shifting during the first and second waves of COVID-19 in Indonesia.

PMID: 35341058 2022 PeerJ

Result: Unique changes were found in Indonesian lineages belonging to B.1.1.398 (N_G204R and N_R203K), B.1.470 (NSP_12_P227L) and B.1.466.2 (S_N439K and NSP6_L75F) lineages.

Isolation and Genomic Characterization of SARS-CoV-2 Omicron Variant Obtained from Human Clinical Specimens.

PMID: 35336868 2022 Viruses

Introduction: Omicron has posed a serious public health concern due to the mutations/deletions associated with increased binding affinity to ACE2 (S:Q498R and S:N501Y), increased transmissibility (S:H655Y, S:N679K, and S:P681H), increased viral load (N:R203K and N:G204R), innate immune evasion (ORF1a:L3674-, ORF1a:S3675-, and ORF1a:G3676), and S-gene target failure (S:H69-).

SARS-CoV-2 Omicron variant: Immune escape and vaccine development.

PMID: 35317190 2022 MedComm

Introduction: These include T9I in the envelope (E) protein, D3G, Q19E, and A63T in the membrane (M) protein, and a number of deletions (E31-, R32-, S33-) and substitutions (P13L, R203K, and G204R) in the nucleocapsid (N) protein.

Impaired detection of omicron by SARS-CoV-2 rapid antigen tests.

PMID: 35187580 2022 Medical microbiology and immunology

Introduction: P13L, DEL31/33, R203K and G204R, and the additional mutation S413R is present in BA.2 (Suppl.

Result: The expanded omicron isolate (GISAID 7808190; BA.1 sublineage) carries the expected P13L, del31/33, R203K and G204R mutations.

A Detailed Overview of Immune Escape, Antibody Escape, Partial Vaccine Escape of SARS-CoV-2 and Their Emerging Variants With Escape Mutations.

PMID: 35222380 2022 Frontiers in immunology

Method: Simultaneously, some mutations such as R203K and G204R are too noted in the Omicron variant.

Genomic Diversity of SARS-CoV-2 in Algeria and North African Countries: What We Know So Far and What We Expect?

PMID: 35208920 2022 Microorganisms

Abstract: Phylogenetic analysis of SARS-CoV-2 genomes revealed the existence of eleven GISAID clades with GR (variant of the spike protein S-D614G and nucleocapsid protein N-G204R), GH (variant of the ORF3a coding protein ORF3a-Q57H<

Result: The time course of the phylogenetic analysis and clade distribution showed that clades G (Variant S-D614G), GH (Variant ORF3a-Q57H) and GR (Variant N-G204R) were the most prevalent in the first and second waves of viral introductions.

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