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dc.contributor.supervisor Thomas, James E.
dc.contributor.supervisor Taboada, Eduardo N.
dc.contributor.author Hetman, Benjamin M.
dc.contributor.author University of Lethbridge. Faculty of Arts and Science
dc.date.accessioned 2016-05-24T17:36:07Z
dc.date.available 2016-05-24T17:36:07Z
dc.date.issued 2016
dc.identifier.uri https://hdl.handle.net/10133/4486
dc.description.abstract Interpreting microbial whole genome sequencing data remains an ongoing challenge in the fields of public health and epidemiology. For this thesis, 274 isolates of the human bacterial pathogen Campylobacter jejuni were selected for sequencing on the basis of their genotype and sampling metadata. A novel core genome typing method revealed that the genomic signal of bacterial isolates is not always concordant with their underlying epidemiology. To systematically examine this relationship, I developed an analytical model for quantifying the epidemiological similarity of bacterial isolates based on their sampling metadata, allowing for direct comparison to their genomic similarities. Applying this model to my dataset highlighted certain genotypes that were present throughout several diverse ecologies in disproportionately high amounts. A competitive recovery experiment revealed that particular genotypes seen in high prevalence in national and international repositories display preferential growth under laboratory conditions, providing evidence for systematic bias in infectious disease surveillance systems. en_US
dc.language.iso en_CA en_US
dc.publisher Lethbridge, Alta : University of Lethbridge, Dept. of Biological Sciences en_US
dc.relation.ispartofseries Thesis (University of Lethbridge. Faculty of Arts and Science) en_US
dc.subject bacterial isolates en_US
dc.subject Campylobacter jejuni en_US
dc.subject disease surveillance systems en_US
dc.subject systemic bias en_US
dc.subject whole genome sequence en_US
dc.title Development of a quantitative model for comparing the genomic and epidemiological signal of foodborne pathogens : improving the application of whole-genome sequencing to infectious disease epidemiology en_US
dc.type Thesis en_US
dc.publisher.faculty Arts and Science en_US
dc.publisher.department Department of Biological Sciences en_US
dc.degree.level Masters en_US
dc.proquest.subject 0410 en_US
dc.proquest.subject 0715 en_US
dc.proquest.subject 0766 en_US
dc.proquestyes Yes en_US
dc.embargo No en_US


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