Principles for developing core genome multilocus sequence typing systems

Simple item page
dc.contributor.authorBarker, Dillon Oliver Reese
dc.contributor.supervisorThomas, James E.
dc.contributor.supervisorTaboada, Eduardo N.
dc.date.accessioned2018-05-11T19:33:14Z
dc.date.available2018-05-11T19:33:14Z
dc.date.issued2018
dc.degree.levelMastersen_US
dc.description.abstractCore genome multilocus sequence typing is a next generation typing method for the long-term tracking of pathogenic bacteria. Although such methods provide the very high discriminatory power required by public health agencies, they are prone to difficulties relating to data loss intrinsic to current DNA sequencing technologies. This thesis describes a framework for developing conservative, but powerful core genome multilocus sequencing systems. To this end, I developed a prototype scheme for Campylobacter jejuni consisting of 697 core genome loci identified through the analysis of 5,693 C. jejuni whole genome sequences. I surveyed the extent of missing data in the dataset, and studied optimizing number of genes to include in such a scheme. Using the information learned in the survey of missing data, I developed a system for predicting unknown alleles from core genome typing data. The principles learned through my research can be applied to develop robust methods of pathogen surveillance.en_US
dc.embargoNoen_US
dc.identifier.urihttps://hdl.handle.net/10133/5101
dc.language.isoen_USen_US
dc.proquest.subject0715en_US
dc.proquest.subject0410en_US
dc.proquest.subject0307en_US
dc.proquestyesYesen_US
dc.publisherLethbridge, Alta. : Universtiy of Lethbridge, Department of Biological Sciencesen_US
dc.publisher.departmentDepartment of Biological Sciencesen_US
dc.publisher.facultyArts and Scienceen_US
dc.relation.ispartofseriesThesis (University of Lethbridge. Faculty of Arts and Science)en_US
dc.subjectCampylobacter jejunien_US
dc.subjectDiagnostic microbiology -- Techniqueen_US
dc.subjectPathogenic microorganisms -- Identificationen_US
dc.subjectPathogenic microorganisms -- Type specimensen_US
dc.subjectGene mappingen_US
dc.subjectcore genome multilocus sequencingen_US
dc.subjectmolecular typingen_US
dc.subjectpathogenic bacteria trackingen_US
dc.titlePrinciples for developing core genome multilocus sequence typing systemsen_US
dc.typeThesisen_US
Files
Original bundle
Now showing 1 - 1 of 1
Thumbnail Image
Name:
BARKER_DILLON_MSC_2018.pdf
Size:
1.25 MB
Format:
Adobe Portable Document Format
Description:
MSc Thesis
Download
License bundle
Now showing 1 - 1 of 1
Thumbnail Image
Name:
license.txt
Size:
3.25 KB
Format:
Item-specific license agreed upon to submission
Description:
Download
Collections
Arts and Science, Faculty of
University of Lethbridge Theses