literature

SARS_CoV_2 mutation literature information.

Ongoing Global and Regional Adaptive Evolution of SARS-CoV-2.

PMID: 33083804 2021 bioRxiv

Introduction: Although not considered a candidate for positive selection in our analysis due to its NCN context, ORF8 S84L is a hub in the larger epistatic network including all strongly associated residues.

Introduction: The rest of the connections of S84L are with mutations in orf1ab which, as in the case of D614G, implies uncharacterized functional links between virus-host interactions and virus replication.

TSP-based PCR for rapid identification of L and S type strains of SARS-CoV-2.

PMID: 33460733 2021 Indian journal of medical microbiology

Abstract: BACKGROUND: In the initial few months of the COVID-19 pandemic, two distinct strains of severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) were identified (L and S strain) based on a tightly linked SNP between two widely separated nucleotides at location 8782 (ORF1ab T8517C) and position 28,144 (ORF8: C251T, codon S84L).

Introduction: in February 2020, analyzing 103 complete SARS-CoV-2 genomes, have found a tightly linked SNPs between two widely separated nucleotides at location 8782 (ORF1ab T8517C) and position 28,144 (ORF8:

Ongoing global and regional adaptive evolution of SARS-CoV-2.

PMID: 34292871 2021 Proc Natl Acad Sci U S A

Result: Although not considered a candidate for positive selection in our analysis due to its NCN context, ORF8 S84L is a hub in the larger epistatic network including all strongly associated residues.

High-Throughput Next-Generation Sequencing Respiratory Viral Panel: A Diagnostic and Epidemiologic Tool for SARS-CoV-2 and Other Viruses.

PMID: 34696495 2021 Viruses

Abstract: The clade for pangolin lineage B that contains certain distant variants, including P4715L in ORF1ab, Q57H in ORF3a, and S84L in ORF8 covarying with the D614G spike protein mutation, were the most prevalent early in the pandemic in Georgia, USA.

Result: Through our Nextstrain thread, it was observed that the clade for pangolin lineage B contains certain distant variants, including P4715L in ORF1ab, Q57H in ORF 3a, and S84L in ORF8 covarying with the D614G

CRISPR-Cas12a-Based Detection for the Major SARS-CoV-2 Variants of Concern.

PMID: 34787487 2021 Microbiology spectrum

Method: MN908947); (iv) the L lineage fragment of ORF8 with mutation of S84L; and (v) the nucleoprotein (NP) gene fragment (nt 28,274 to 29,533; GenBank accession no.

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

Figure: In the countries that submitted more than 100 sequences where the proportion is different: in China, 38% SARS-CoV-2 sequences account for ORF8 (S84L), in Spain 43%, in the USA 32% and in Canada 31%.

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