SARS-CoV-2 lineage dynamics in England from September to November 2021: high diversity of Delta sub-lineages and increased transmissibility of AY.4.2

• Published in: BMC infectious diseases Vol. 22; no. 1; pp. 647 - 17
• Main Authors: Eales, Oliver, Page, Andrew J, de Oliveira Martins, Leonardo, Wang, Haowei, Bodinier, Barbara, Haw, David, Jonnerby, Jakob, Atchison, Christina, Ashby, Deborah, Barclay, Wendy, Taylor, Graham, Cooke, Graham, Ward, Helen, Darzi, Ara, Riley, Steven, Chadeau-Hyam, Marc, Donnelly, Christl A, Elliott, Paul
• Format: Journal Article
• Language: English
• Published: England BioMed Central Ltd 27.07.2022; BioMed Central; BMC
• Subjects: Analysis; Antibodies; Biological diversity; Clustering; Confidence intervals; COVID-19; COVID-19 - epidemiology; Delta variant; Disease transmission; England - epidemiology; Estimates; Evolution & development; Genetic diversity; Genomes; Genomics; Humans; Immunity; Infections; Infectious diseases; Mutation; Mutation rates; Normal distribution; Phylogenetics; Phylogeny; Population; Prevention; Proteins; SARS-CoV-2; SARS-CoV-2 - genetics; Severe acute respiratory syndrome; Severe acute respiratory syndrome coronavirus 2; Statistics; Surveillance; Transmission advantage; Vaccination; Vaccines; Viral diseases; Viruses; England; United Kingdom; United Kingdom > UK; COVID-19; SARS-CoV-2; Transmission advantage; Delta variant; Genetic diversity; Mutation

Since the emergence of SARS-CoV-2, evolutionary pressure has driven large increases in the transmissibility of the virus. However, with increasing levels of immunity through vaccination and natural infection the evolutionary pressure will switch towards immune escape. Genomic surveillance in regions...