literature

Phylogeography of SARS-CoV-2 pandemic in Spain: a story of multiple introductions, micro-geographic stratification, founder effects, and super-spreaders.

PMID: 32935498 2020 Zoological research

Result: The most frequent haplogroups in Spain were A2a5 (n=354; 38.4% of Spanish haplotypes; diagnostic variants: C241T-C3037T-C14408T-A20268G-A23403G), A2a4 (n=72; 7.8%; diagnostic variants: C241T-C3037T-C14408T-A23403G plus characteristic MNP: GGG28881AAC), A2a10 (n=26; 2.8%; diagnostic variants: C241T-C3037T-C14408T-A23403G-C29144T), B3a (n=278; 30.2%; diagnostic variants: C8782T-

PMID: 32941419 2020 PLoS computational biology

Result: These SNVs include C8782T and T28144C and correspond to hotspot sites 6 and 17 respectively.

Reinfection with SARS-CoV-2 and Failure of Humoral Immunity: a case report.

PMID: 32995830 2020 medRxiv

Result: The InCoV139-March sequence (Genbank: MT252824) shares the canonical mutations (C8782T and T28144C) which define clade 19B and distinguish it from the original clade 19A, Wuhan-Hu-1 reference strain (Genbank: NC_045512.2).

Characterization of local SARS-CoV-2 isolates and pathogenicity in IFNAR(-/-) mice.

PMID: 33015402 2020 Heliyon

Table: C8782T

Molecular epidemiology of the first wave of severe acute respiratory syndrome coronavirus 2 infection in Thailand in 2020.

PMID: 33024144 2020 Scientific reports

Result: Type S was detected during the early period of the outbreak, and it has nucleotide substitutions at position 8,782 in ORF1ab (C8782T) and 28,144 (T28144C) in ORF8.

Genomic exploration light on multiple origin with potential parsimony-informative sites of the severe acute respiratory syndrome coronavirus 2 in Bangladesh.

PMID: 33163695 2020 Gene reports

Discussion: In another study by, the most common variants were reported in ORF1ab (C8782T), ORF8 (T28144C) and N gene (C29095T).

Decoding Asymptomatic COVID-19 Infection and Transmission.

PMID: 33179934 2020 The journal of physical chemistry letters

Introduction: Mutation 11083G>T was also detected in a commutation record [8782C>T, 11083G>T, 28144T>C] in Yunnan, China 1 day earlier than Chongqing's sequence, which indicates that the true ancestor of 11083G>T might have o

Introduction: Mutation 11083G>T-(L37F) first appeared in the United States on January 22, 2020 in Arizona in a 26-year-old male with comutations [8782C>T, 11083G>T, 28144T>C, 29095C>T], which is the descendant of [8782C>T, 11083G>T, 28144T>C] found in China.

Analysis of genomic distributions of SARS-CoV-2 reveals a dominant strain type with strong allelic associations.

PMID: 33184173 2020 Proc Natl Acad Sci U S A

Result: For example, in type II signature SNVs C8782T and T28144C that were also used to define the S and L type of SARS-CoV-2, these two SNVs (i.e., S type) first coappeared in strain MT291826 on December 30, 2019, and the coefficient of allelic association is R2 = 0.987.

Analysis of Indian SARS-CoV-2 Genomes Reveals Prevalence of D614G Mutation in Spike Protein Predicting an Increase in Interaction With TMPRSS2 and Virus Infectivity.

PMID: 33329480 2020 Frontiers in microbiology

Method: We have used Nextstrain year-letter clade nomenclature that started with 19A and 19B branched by C8782T and T28144C nucleotide changes and was initially prevalent in Asia during initial outbreak.

The Novel Coronavirus Enigma: Phylogeny and Analyses of Coevolving Mutations Among the SARS-CoV-2 Viruses Circulating in India.

PMID: 33496683 2020 JMIR bioinformatics and biotechnology

Discussion: Few infrequent mutations at position 1059 T>A (T85I) in NSP2 and 8782 C>T (S76S) in NSP4 observed here have also been reported to be prevalent in other countries.