Identification and 
functional
 characterization of highly conserved DNA
 sequences in Poxvirus genomes


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dc.contributor.authorSadeque, Aliya Mehreen
dc.contributor.supervisorUpton, Christopher
dc.date.accessioned2010-01-04T16:20:51Z
dc.date.available2010-01-04T16:20:51Z
dc.date.copyright2009en
dc.date.issued2010-01-04T16:20:51Z
dc.degree.departmentDepartment of Biochemistry and Microbiology
dc.degree.levelMaster of Science M.Sc.en
dc.description.abstractThe focus of this dissertation is the use of bioinformatics in the identification of highly conserved sequences among a set of poxvirus genomes and the subsequent functional analysis of the conserved functions of these sequences. A novel algorithm, Java Pattern Finder, which identifies sequences of a user-specified length that are conserved with a user-specified number of allowed differences, was used to identify near-perfectly conserved sequences among a set of poxvirus genomes. A scoring method was established to quantify the degree of conservation of these sequences and used to show that the 11 most conserved sequences were significantly more conserved than control sequences. Functional analysis showed that explanations such as low codon degeneracy or the presence of conserved promoter elements partially – but not fully – accounted for the conservation observed in these sequences, suggesting that these highly conserved regions may have novel functions in the poxvirus genome that have yet to be uncovered.en
dc.identifier.urihttp://hdl.handle.net/1828/2027
dc.languageEnglisheng
dc.language.isoenen
dc.rightsAvailable to the World Wide Weben
dc.subjectPoxvirusen
dc.subjectBioinformaticsen
dc.subject.lcshUVic Subject Index::Sciences and Engineering::Chemistry::Biochemistryen
dc.subject.lcshUVic Subject Index::Sciences and Engineering::Biology::Microbiologyen
dc.titleIdentification and 
functional
 characterization of highly conserved DNA
 sequences in Poxvirus genomes
en
dc.typeThesisen

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