TY - JOUR
AU - Tsui, Joseph L-H
AU - McCrone, John T.
AU - Lambert, Ben C.
AU - Bajaj, Sumali
AU - Inward, Rhys
AU - Bosetti, Paolo
AU - Pena, Rosario Evans
AU - Tegally, Houriiyah
AU - Hill, Verity
AU - Zarebski, Alexander E
AU - Peacock, Thomas P
AU - Liu, Luyang
AU - Wu, Neo
AU - Davis, Megan
AU - Bogoch, Isaac I.
AU - Khan, Kamran
AU - Kall, Meaghan
AU - Abdul Aziz, Nurin Iwani Binti
AU - Colquhoun, Rachel M.
AU - O'Toole, Áine Niamh
AU - Jackson, Ben
AU - Dasgupta, Abhishek
AU - Wilkinson, Eduan
AU - De Oliveira, Tulio
AU - Connor, Thomas R.
AU - Loman, Nicholas J.
AU - Colizza, Vittoria
AU - Fraser, Christophe
AU - Volz, Erik
AU - Ji, Xiang
AU - Gutierrez, Bernardo
AU - Chand, Meera
AU - Dellicour, Simon
AU - Cauchemez, Simon
AU - Raghwani, Jayna
AU - Suchard, Marc A
AU - Lemey, Philippe
AU - Rambaut, Andrew
AU - Pybus, Oliver G
AU - Kraemer, Moritz U.G.
PY - 2023
DA - July
TI - Genomic assessment of invasion dynamics of SARS-CoV-2 Omicron BA.1
JO - Science
EP - 343
VL - 381
IS - 6655
DO - https://doi.org/10.1126/science.adg6605
AB - Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants of concern (VOCs) now arise in the context of heterogeneous human connectivity and population immunity. Through a large-scale phylodynamic analysis of 115,622 Omicron BA.1 genomes, we identified &gt;6,000 introductions of the antigenically distinct VOC into England and analyzed their local transmission and dispersal history. We find that six of the eight largest English Omicron lineages were already transmitting when Omicron was first reported in southern Africa (22 November 2021). Multiple datasets show that importation of Omicron continued despite subsequent restrictions on travel from southern Africa as a result of export from well-connected secondary locations. Initiation and dispersal of Omicron transmission lineages in England was a two-stage process that can be explained by models of the country's human geography and hierarchical travel network. Our results enable a comparison of the processes that drive the invasion of Omicron and other VOCs across multiple spatial scales.
PB - American Association for the Advancement of Science
UR - https://www.research.ed.ac.uk/en/publications/060e192b-0b1a-4f39-9a22-573c1bdef09e
KW - Coronavirus (COVID-19)
ER