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Author:

Buboltz, Anne M

Title:

MOLECULAR EVOLUTION OF VIRULENCE AND ANTIGENIC DIVERSITY IN BORDETELLA BRONCHISEPTICA

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

comparative genomics
Bordetella
bronchiseptica
phylogenetics
mlst

File:

Download AnneBuboltz_11-24-08_thesis.pdf

Committee Members:

Eric Thomas Harvill, Committee Chair/Co-Chair
Avery August, Committee Member
Peter John Hudson, Committee Member
Kenneth Charles Keiler, Committee Member
Kathleen Postle, Committee Member

Author:

Kvikstad, Erika Marit

Title:

Mechanisms Of Insertion And Deletion Mutations: Rate Variation, Context Specificity, And Impact On Primate Sex Chromosome Evolution

Graduate Program:

Genetics

Keywords:

indels
mutagenesis
comparative genomics
molecular evolution
biostatistics

File:

Download KvikstadEM_thesis_072009.pdf

Committee Members:

Kateryna Dmytrivna Makova, Dissertation Advisor/Co-Advisor
Kateryna Dmytrivna Makova, Committee Member
Ross Cameron Hardison, Committee Chair/Co-Chair
Anton Nekrutenko, Committee Member
Stephen Wade Schaeffer, Committee Member
Francesca Chiaromonte, Committee Member
Webb Colby Miller, Committee Member

Author:

Zou, Jizhong

Title:

Cis-elements for Notch-dependent expression and autoregulation of Drosophila AP-2 in developing leg and antenna

Graduate Program:

Biochemistry, Microbiology, and Molecular Biology

Keywords:

comparative genomics
Drosophila
enhancer
Notch signaling
leg development
transcription factor AP-2

File:

Download ZouThesisFinalHQ.pdf

Committee Members:

David Scott Gilmour, Committee Member
Ross Cameron Hardison, Committee Member
Zhi Chun Lai, Committee Member
Pamela J Mitchell, Committee Chair/Co-Chair
Kyung An Han, Committee Member

Author:

Nam, Jongmin

Title:

Evolution of two gene families controlling the fundamental processes of eukaryotic development: MADS-box gene family and homeobox gene family

Graduate Program:

Biology

Keywords:

MADS-box gene
Homeobox gene
Molecular evolution
comparative genomics
functional differentiation

File:

Download etd.pdf

Committee Members:

Masatoshi Nei, Committee Chair/Co-Chair
Hong Ma, Committee Member
Claude W De Pamphilis, Committee Member
David Michael Geiser, Committee Member

Author:

Harris, Robert S.

Title:

Improved Pairwise Alignmnet of Genomic DNA

Graduate Program:

Computer Science and Engineering

Keywords:

comparative genomics
homology search
BLAST
local alignment
sequence alignment

File:

Download ThesisFinal.pdf

Committee Members:

Webb Colby Miller, Committee Chair/Co-Chair
Padma Raghavan, Committee Member
Francesca Chiaromonte, Committee Member
Raj Acharya, Committee Member

Author:

Ma, Zhaorong

Title:

Functional and Evolutionary Genomics of Plant Small RNAs

Graduate Program:

Integrative Biosciences

Keywords:

genomics
small RNAs
microRNAs
comparative genomics
evolutionary genomics
targeted enrichment
targeted genomic enrichment

File:

Download Zhaorong_Ma_final_dissertation.pdf

Committee Members:

Michael Axtell, Dissertation Advisor/Co-Advisor
Michael Axtell, Committee Chair/Co-Chair
Claude Walker Depamphilis, Committee Member
Naomi S Altman, Committee Member
Ross Cameron Hardison, Committee Member

Author:

Benson, Christopher

Title:

Genomic and transcriptomic insight into the evolution and breeding of turfgrass species, Poa annua and Bouteloua dactyloides

Graduate Program:

Plant Biology

Keywords:

Poa annua
turfgrass
genetics
genomics
polyploidy
sequencing
breeding
annual bluegrass
annual meadowgrass
pistil smut
Bouteloua dactyloides
Buffalograss
Salmacisia buchloëana
the genome balance hypothesis
dioecy
tilletia
golf
putting green
homoeolog
polyploid plasticity hypothesis
chromosome modification
chromosome restructuring
fractionation
retrotransposon
synteny
RNA-seq
comparative genomics
pan-genome
transposable element
host manipulation
amphihapoid
haploid plants
allotetraploid
DNA methylation
Poa infirma
Poa supina

File:

Download Benson_dissertation.pdf

Committee Members:

Sally Mackenzie, Major Field Member
David Huff, Chair & Dissertation Advisor
Claude Depamphilis, Outside Field Member
Gary Felton, Outside Unit Member
Teh-Hui Kao, Program Head/Chair

Author:

Martinez, Emma

Title:

Phenotypic and genetic analyses of the lettuce bacterial leaf spot pathogen, Xanthomonas hortorum pv. vitians, and the development of a rapid detection technique

Graduate Program:

Plant Pathology

Keywords:

Plant pathology
bacteriology
plant disease
bioinformatics
comparative genomics
bacterial taxonomy
disease detection

File:

Download Martinez_neeRosenthal_Dissertation_Final_Draft_2.pdf

Committee Members:

Carolee Bull, Chair & Dissertation Advisor
Beth Gugino, Major Field Member
German Sandoya, Special Member
Maria Del Mar Jimenez Gasco, Program Head/Chair
Istvan Albert, Outside Unit Member
Emily Weinert, Outside Field Member

Author:

Stankiewicz, Kathryn

Title:

Coral biology and evolution through the lens of genomics and population genetics

Graduate Program:

Biology

Keywords:

genomics
bioinformatics
corals
population genetics
hybridization
recombination
comparative genomics
Delta K
STRUCTURE

File:

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Committee Members:

David Toews, Major Field Member
Istvan Albert, Outside Unit & Field Member
Iliana Baums, Major Field Member & Dissertation Advisor
Todd Lajeunesse, Chair of Committee
Stephen Wade Schaeffer, Professor in Charge/Director of Graduate Studies