Figure: Taiwanese strains are located in 4 different clades I, II, III and IV, including (B) and clade I with ORF8-L84S, (C) clade II with ORF3a-G251V, (D) clade IV with ORF1ab-V378I, and (E) clade III with S-D614G.
Discussion: Moreover, these 5 genomes were phylogenetically designated to a clade harbouring the ORF1ab-V378I mutation, which is different from the 3 previously reported clades ORF8-L84S, ORF3a-G251V and S-D614G
Mortality in COVID-19 disease patients: Correlating the association of major histocompatibility complex (MHC) with severe acute respiratory syndrome 2 (SARS-CoV-2) variants.
PMID: 32693089
2020
International journal of infectious diseases
Abstract: Assuming the ORF8 (L84S) mutation is biologically significant, selective pressure from MHC class II alleles may select for viral varients and subsequently shape the quality and quantity of cellular immune responses aginast SARS-CoV-2.
Introduction: For MHC class I, starting with a peptide with the mutation site in the middle (flanked by seven amino acid residues to the left and right, resulting in a 15mer peptide) for ORF8 (L84S) (GNYTVSCLPFTINCQ and GNYTVSCSPFTINCQ) and for ORF3a (G251V) (VQIHTIDGSSGVVNP and VQIHTIDVSSGVVNP), we tested all possible combinations of length from 8 to 14 residues for MHC class I binding, For MHC class II, starting with a peptide with 33 residues with the mutation site in the middle for ORF8 (
Variant analysis of SARS-CoV-2 genomes.
PMID: 32742035
2020
Bulletin of the World Health Organization
Abstract: We identified six major clades, (that is, basal, D614G, L84S, L3606F, D448del and G392D) and 14 subclades.
5Result: Other two major clades are called ""S,"" named after the mutation in ORF8 L84S (Ceraolo and Giorgi,), also characterized by a silent C8782T genomic mutation, and ""V,"" from
Introduction: According to data from the public database of the Global Initiative on Sharing All Influenza Data (GISAID), three major clades of SARS-CoV-2 can be identified (Forster et al.,), that have been subsequently named as clade G (variant of the spike protein S-D614G), clade V (variant of the ORF3a coding protein NS3-G251), and clade S (variant ORF8-L84S).
Table: L84S
Characterizing SARS-CoV-2 mutations in the United States.
Introduction: Based on genotyping results, top eight missense mutations (i.e., 14408C>T-(P323L), 23403A>G-(D614G), 25563G>T-(Q57H), 1059C>T-(T85I), 28144T>C-(L84S), 17858A>G-(Y541C), 17747C>T-(P504L), and 27964C>T-(S24L)) are identified, in addition to three synonymous mutations (i.e., 3037C>T-(F106F), 8782C>T-(
BioAider: An efficient tool for viral genome analysis and its application in tracing SARS-CoV-2 transmission.
PMID: 32904401
2020
Sustainable cities and society
Introduction: In addition, the non-synonymous substitutions of ORF3a-G251V and ORF8-L84S both cause the changes of amino acid (aa) polarity, which may affect the conformation of the protein and lead to function alteration.
Introduction: Recently, 7 substitution hotspots in SARS-CoV-2, ORF1ab-G10818T (ORF1ab-L3606F), ORF1ab-C8517T, ORF3a-G752T (ORF3a-G251V) S-A1841G (D614G), G171T (Q57H), ORF8-T251C (ORF8-L84S) and N-GGG608_609_610AAC (N-RG203_204KR) have been
Characterization of local SARS-CoV-2 isolates and pathogenicity in IFNAR(-/-) mice.
Result: The change of amino acid L84S in ORF8 has been observed among the viral samples of more than 12 countries.
Discussion: SARS-CoV-2 genome sequences available at the public database of the Global Initiative on Sharing All Influenza Data (GISAID) till 02-10-2020 classifies the variants into several clades like (i) L-original lineage, (ii) G-variant of spike protein causing D614S mutation, (iii) S- variant ORF8 responsible for L84S mutation, (iv) V- variant of the ORF3a coding protein N3S responsible for G251V mutation, (v) GH- a G derivative characterized by ORF3a: Q57H mutation, (vi) GR- PMID: 33072699
2020
Frontiers in public health
Introduction: The genetic variants are located in the nucleotide positions 23,403, 26,144, and 28,144 based on the reference sequence NC_045512.2, and the variant's name is represented by a capital letter that corresponds to the amino acid substitution product of the SNP G: Spike:D614G, V: NS3:G251V, S: ORF8:L84S, respectively, and O for other strains that keep some of the nucleotide as the reference strain on that genome position that cannot be assigned to the previous described clades.
SARS_CoV_2 mutation literature information.
PMID: 
2020
Emerging microbes & infections
Browser Board
Co-occurred Entities
Filtrator
ViMRT