Li, Y.-T. et al. (2022) Lineage BA.2 dominated the Omicron SARS-CoV-2 epidemic wave in the Philippines. Virus Evolution, 8(2), veac078. (doi: 10.1093/ve/veac078) (PMID:36090771) (PMCID:PMC9452094)
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Abstract
The Omicron SARS-CoV-2 variant led to a dramatic global epidemic wave following detection in South Africa in November, 2021. The Omicron lineage BA.1 was dominant and responsible for most SARS-CoV-2 outbreaks in countries around the world during December 2021-January 2022, whilst other Omicron lineages including BA.2 accounted for the minority of global isolates. Here, we describe the Omicron wave in the Philippines by analysing genomic data. Our results identify the presence of both BA.1 and BA.2 lineages in the Philippines in December 2021, before cases surged in January 2022. We infer that only lineage BA.2 underwent sustained transmission in the country, with an estimated emergence around November 18th, 2021 [95% highest posterior density: November 6-28th], whilst despite multiple introductions BA.1 transmission remained limited. These results suggest the Philippines was one of the earliest areas affected by BA.2, and reiterate the importance of whole-genome sequencing for monitoring outbreaks.
Item Type: | Articles |
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Additional Information: | The work is supported by the UK Research and Innovation Global effort on COVID-19 (MR/V035444/1) and Wellcome (207569/Z/17/Z). JH is funded by the Medical Research Council (MC_UU_12014/12). |
Status: | Published |
Refereed: | Yes |
Glasgow Author(s) Enlighten ID: | Daldry, Mr Simon and Brunker, Dr Kirstyn and Hughes, Dr Joseph and Hampson, Professor Katie and Li, Mr Yao-Tsun |
Authors: | Li, Y.-T., Polotan, F. G. M., Sotelo, G. I. S., Alpino, A. P. A., Dolor, A. Y. M., Tujan, M. A. A., Gomez, M. R. R., Onza, O. J. T., Chang, A. K. T., Bautista, C. T., Carandang, J. C., Yangzon, M. S. L., Pangilinan, E. A. R., Mantaring, R. J. Q., Telles, A. J. E., Egana, J. M. C., Endozo, J. J. S., Cruz, R. P. S., Tablizo, F. A., Yap, J. M. C., Maralit, B. A., Ayes, M. E. C., de la Paz, E. M. C., Saloma, C. P., Lim, D. R., Dancel, L. L. M., Uy-Lumandas, M., Medado, I. A. P., Dizon, T. J. R., Hampson, K., Daldry, S., Hughes, J., and Brunker, K. |
College/School: | College of Medical Veterinary and Life Sciences > School of Biodiversity, One Health & Veterinary Medicine |
Journal Name: | Virus Evolution |
Publisher: | Oxford University Press |
ISSN: | 2057-1577 |
ISSN (Online): | 2057-1577 |
Published Online: | 19 August 2022 |
Copyright Holders: | Copyright © 2022 The Authors |
First Published: | First published in Virus Evolution 8(2): veac078 |
Publisher Policy: | Reproduced under a Creative Commons License |
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