Researchers study the spatial distribution of SARS-CoV-2 Omicron BA.1 variant in England medrxivpreprint UniofOxford SARSCoV2 COVID19 Omicron BA1 Variant
By Pooja Toshniwal PahariaJan 9 2023Reviewed by Aimee Molineux In a recent study posted to the medRxiv* preprint server, researchers performed a genomic assessment of severe acute respiratory syndrome coronavirus 2 Omicron variant’s BA.1 subvariant transmission in England.
The team analyzed 48,615 genomes of BA.1 from samples obtained that represented 313 LTLAs , with anonymized epidemiological and human mobility data aggregated at a sub-city level. Statistical modelling was performed to explore the effects of altered COVID-19 prevalence on travel connectivity between main travelling hubs of England. To evaluate Omicron importation timing and subvariant transmission dynamics, phylodynamic assessments were performed for 1,15,622 genomes of Omicron BA.
Genetics & Genomics eBook Compilation of the top interviews, articles, and news in the last year. Download a free copy The dispersal history of identified subvariants was reconstructed based on spatial phylogeographic methods. Generalized linear modelling was performed for quantitative assessment of the role of epidemiological, mobility-associated, and demographic factors on BA.1 transmission in England and to assess their relationship with Omicron movement in LTLAs.
The size of variant transmission was overdispersed, with the eight largest transmission lineages accounting for >60% of Omicron genomes in England. Most of the large variant transmissions were estimated to have occurred between November 5 and 13, 2021. Importation timing was the main factor affecting the lineage transmission size. Local viral movements in Greater Manchester and Greater London comprised 60% and 90% of all movements from November to December 2021, respectively.
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