Evaluating the use of whole genome sequencing for the investigation of a large mumps outbreak in Ontario, Canada
Autor: | C. Y. Seo, Sarah E. Wilson, Patrick Stapleton, Snehal Patel, S. Bolotin, T. Harris, Shelley L. Deeks, Alireza Eshaghi, Lee W. Goneau, Jonathan B. Gubbay |
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Jazyk: | angličtina |
Rok vydání: | 2019 |
Předmět: |
0301 basic medicine
Viral epidemiology Genotype lcsh:Medicine Genome Viral Mumps virus Biology medicine.disease_cause Article Virus Disease Outbreaks 03 medical and health sciences 0302 clinical medicine medicine Humans Clade lcsh:Science Mumps Genotyping Phylogeny Ontario Genetics Whole genome sequencing Multidisciplinary Whole Genome Sequencing Transmission (medicine) lcsh:R Outbreak United States 030104 developmental biology Viral infection RNA Viral lcsh:Q 030217 neurology & neurosurgery |
Zdroj: | Scientific Reports, Vol 9, Iss 1, Pp 1-11 (2019) Scientific Reports |
ISSN: | 2045-2322 |
Popis: | In 2017 Ontario experienced the largest mumps outbreak in the province in 8 years, at a time when multiple outbreaks were occurring across North America. Of 259 reported cases, 143 occurred in Toronto, primarily among young adults. Routine genotyping of the small hydrophobic gene indicated that the outbreak was due to mumps virus genotype G. We performed a retrospective study of whole genome sequencing of 26 mumps virus isolates from early in the outbreak, using a tiling amplicon method. Results indicated that two of the cases were genetically divergent, with the remaining 24 cases belonging to two major clades and one minor clade. Phylogeographic analysis confirmed circulation of virus from each clade between Toronto and other regions in Ontario. Comparison with other genotype G strains from North America suggested that the presence of co-circulating major clades may have been due to separate importation events from outbreaks in the United States. A transmission network analysis performed with the software program TransPhylo was compared with previously collected epidemiological data. The transmission tree correlated with known epidemiological links between nine patients and identified new potential clusters with no known epidemiological links. |
Databáze: | OpenAIRE |
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