期刊
VIRUS EVOLUTION
卷 7, 期 2, 页码 -出版社
OXFORD UNIV PRESS
DOI: 10.1093/ve/veab051
关键词
SARS-CoV-2; phylogenetics; molecular epidemiology; phylogeography; transmission lineages
类别
资金
- Clarendon Fund
- Department of Zoology of the University of Oxford
- WT fellowship [204311/Z/16/Z]
- MRC-FAPESP [MR/S0195/1, 18/14389-0]
- Branco Weiss Fellowship
- EU grant [874850]
- WT Collaborators Award [206298/Z/17/Z]
- Leverhulme Trust ECR Fellowship [ECF-2019-542]
- Oxford Martin School
- NIH Global Health Equity Scholars award [FIC D43TW010540]
This study provides a detailed description of the genomic epidemiology of SARS-CoV-2 in Ecuador, revealing patterns of multiple international importations and differences in transmission dynamics across key provinces. The results show that transmission lineages were mostly introduced before non-pharmaceutical interventions were implemented, with varying degrees of persistence and national dissemination.
Characterisation of severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) genetic diversity through space and time can reveal trends in virus importation and domestic circulation and permit the exploration of questions regarding the early transmission dynamics. Here, we present a detailed description of SARS-CoV-2 genomic epidemiology in Ecuador, one of the hardest hit countries during the early stages of the coronavirus-19 pandemic. We generated and analysed 160 whole genome sequences sampled from all provinces of Ecuador in 2020. Molecular clock and phylogeographic analysis of these sequences in the context of global SARS-CoV-2 diversity enable us to identify and characterise individual transmission lineages within Ecuador, explore their spatiotemporal distributions, and consider their introduction and domestic circulation. Our results reveal a pattern of multiple international importations across the country, with apparent differences between key provinces. Transmission lineages were mostly introduced before the implementation of non-pharmaceutical interventions, with differential degrees of persistence and national dissemination.
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