literature

SARS_CoV_2 mutation literature information.

Genome-wide identification and prediction of SARS-CoV-2 mutations show an abundance of variants: Integrated study of bioinformatics and deep neural learning.

PMID: 34812411 2021 Informatics in medicine unlocked

Result: The A23403G mutation causes a change from Aspartate (D) to Glycine (G) in protein position 614 (spike protein) which is responsible for the initial entry of the virus through the ACE2 receptor and is associated with the severity of COVID 19.

Figure: The A23403G, C3037T, C14408T, and C241T are the most widespread mutations globally.

An outbreak of SARS-CoV-2 with high mortality in mink (Neovison vison) on multiple Utah farms.

PMID: 34767598 2021 PLoS pathogens

Result: Synonymous SNPs from this Farm A isolate included C1059T, C3037T, C6336T, G12795A, C14408T, C20930T, A23064C, A23403G, G25563T, C25936T, C28887T, were also identical to those of MW474212 from a human in Washington State.

Emergence of B.1.524(G) SARS-CoV-2 in Malaysia during the third COVID-19 epidemic wave.

PMID: 34764315 2021 Scientific reports

Result: All strains clustered under this group, including those sequenced in the current study, possessed the three GISAID clade G genetic variants, C241T, C3037T, and A23403G with an additional mutation C14408T.

Result: Based on the GISAID clade assignment, the samples detected during early April 2020 (4Apr20-3-Hu/2020 and 5Apr20-64-Hu/2020), and all samples detected in October 2020 (third epidemic wave) denoted clade G (Table 1), possessed genetic variations at C241T, C3037T, and A23403G.

Result: The A23403G was encoded for substitution of aspartic acid with glycine in the S-614 (S-D614G)

Host Response to SARS-CoV2 and Emerging Variants in Pre-Existing Liver and Gastrointestinal Diseases.

PMID: 34760721 2021 Frontiers in cellular and infection microbiology

Introduction: Further, L clade evolved to V (G11083T, G26144T, NSP6-L37F + NS3-G251V) and G (C241T, C3037T, A23403G, and S-D614G); and later G clade evolved into GH (C241T, C3037T, A23403G, G25563T includes S-D614G + NS3-Q57H), GR (C241T, C3037T,

Genomic diversity of SARS-CoV-2 in Malaysia.

PMID: 34760404 2021 PeerJ

Result: Excluding the substitution at position 241 in the 5' UTR, the top three most frequent mutations were the C3037T (59.9%), C14408T (59.9%) and A23403G (D614G) (57.4%).

Result: From March to December, substitutions appeared consistently at the genomic positions C241T, C3037T, C14408T and A23403G.

Result: The second LD set comprised C3037T, C14408T and A23403G mutations in viruses isolated from March to December and involving a single synonymous and non-synonymous mutation in ORF1ab, together with a si

Transmission dynamics, clinical characteristics and sero-surveillance in the COVID-19 outbreak in a population dense area of Colombo, Sri Lanka April- May 2020.

PMID: 34748557 2021 PloS one

Table: A23403G

Analysis of 329,942 SARS-CoV-2 records retrieved from GISAID database.

PMID: 34735950 2021 Computers in biology and medicine

Abstract: Clustering results suggested that a proportion of people (2.46%) was infected with a distinct subtype of the B.1.1.7 variant, which contained four to six additional mutations (G28881A, G28882A, G28883S, A23403G, A28095T, G25437T).

Result: Four mutations were present in the cluster with 100% frequency - G28881A, G28882A, G28883C, and A23403G.

Result: Mutations found in samples uploaded mainly by Denmark and Australia formed two clusters, each containing 8 mutations (sizes regarding all studied genomes - 1.48% and 2.51%, respectively): C26735T (100%),

PMID: 34540148 2021 Iranian journal of microbiology

Table: A23403G

Detection of SARS-CoV-2 spike protein D614G mutation by qPCR-HRM analysis.

PMID: 34514180 2021 Heliyon

Result: The sequencing results showed and confirmed the HRM analysis that all samples were identified as G614 variant by the presence of missense mutation A to G at position 23403 (NCBI Reference Sequence Wuhan-Hu-1/NC_045512.2 = 23403A > G) which causes changes in the amino acid, Aspartic Acid (D) into Glycine (G) at the Spike residue 614 (D614G) (Figure 3).

Discussion: The G614 variant carried the missense mutation 23403A > G (Reference Sequence = NC_04512.2), which allowed the higher melting temperature, as Guanine (G) base needs 3 hydrogen bonds to form a base pair, whereas Adenine (A) base needs only 2 hydrogen bonds.

AutoVEM2: A flexible automated tool to analyze candidate key mutations and epidemic trends for virus.

PMID: 34512928 2021 Computational and structural biotechnology journal

Introduction: In our previous work, we found 9 candidate key mutations, including Result: For the UK, the 5 of 6 haplotypes (including H1-1-1, H1-2-1, H1-4-1, H1-4-2, and H1-4-3), which derived from H1 with previous 4 specific mutation sites (C241T, C3037T, C14408T, and A23403G), accounted for 91.95% of the population (Table 4).

Result: H1-3-2 had previous 5 specific sites (C241T, C3037T, C14408T, A23403G, and G25563T) and C1059T (Table 5, Table 6), which had a stable prevalent trend between December 01, 2020 and February 02, 2021 in the USA.

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