Theses

Page

GDCB theses dating back to 1925 can now be accessed at The ISU Digital Repository

2015

 

Student

 

Title

Program

Major Professor

MS

Mandela Magnidjem   An Empirical Investigation of the Effect of Students’ Preferred Learning Methods on Their Levels of Immersion in Serious Games (non thesis creative component) HCI Wurtele
Buyun Tang   The molecular mechanisms of brassinosteroid-regulated drought stress response in Arabidopsis thaliana Plant Biology Yin
Ellen E. Tisdale   Analysis of blood vessel tube formation using RAB and RAC fusion proteins in Zebrafish Genetics Essner

PhD

 Wei Fang   The CO2 concentrating mechanism and nitrogen starvation effects under photoautotrophic culture conditions of Chlamydomonas Reinhardtii studied by high throughput DNA sequencing technology Genetics Spalding
Gokhan Kir   Brassinosteroid regulation of plant height in maize Genetics Becraft
Jenifer Saldanha   Analysis of diverse stresses, including hypoxia, cyanide, and hypergravity in Caenorhabditis elegans MCDB Powell-Coffman
Junhui Zhou   Host target genes of the Xanthomonas Oryzae PV. Oryzae Type III effectors for bacterial blight in rice Plant Biology Yang
 

2014

 

Student Name

 

Title

Program

Major Professor

MS

Caitlin Farris   Starting Small: transcriptomics with single and small populations of cells Genetics Kuhlman/Trimarchi
Xiao Li     Genetics Schnable

PhD

Matthew Crispin   Metabolism and localization of polyketides in the genus Hypericum Genetics Wurtele
Han Gao     Genetics Spalding
Ting Li   Function and application of TAL effectors Genetics Yang
Aarthi Putarjunan   Genetic regulation of chloroplast biogenesis in Arabidopsis Genetics Rodermel
Dafang Wang     Plant Biology Peterson

2013

 

Student Name

 

Title

Program

Major Professor

PhD

Dingxia Feng   Genome-wide analyses of expression data and HIF-1 binding sites provide insights to the HIF-1 hypoxia inducible factor in Caenorhabditis elegans Genetics Powell-Coffman
Usha Muppirala   Computational prediction of RNA-protein interaction partners and interfaces Bioinformatics and Computational Biology Dobbs
Yves Sucaet   Integration of large datasets for plant model organisms Bioinformatics and Computational Biology, minor in Computer Science Wurtele
Rebecca Weeks   Inflorescence branching in maize: a quantitative genetics approach to identifying key places in the inflorescence development pathway Genetics, minor in Plant Breeding Vollbrecht
Eun Ah Ye   Investigation of Mesenchymal stem cells and the development of experimental strategies for rescuing glaucomatous eyes using a stem cell-based therapy Neuroscience Sakaguchi
Tengfei Yin   Visualization of biological data: infrastructure, design and application MCDB, minor in Statistics co-major professors: Wurtele and Cooke

2012

 

Student Name

 

Title

Program

Major Professor

MS

Andrew Foudree   A study of chloroplast biogenesis within variegated mutants of Arabidopsis Plant Biology Rodermel
Mark Stenerson   Academic game development: practices and design strategies for creating stem games Human Computer Interaction Wurtele

PhD

Hsien-chao Chou   Local assembly and pre-mRNA splicing analyses by high-throughput sequencing data Bioinformatics and Computational Biology Brendel, Honavar
Wei Li   Tassels replace upper ears1 encodes a putative transcription factor that regulates maize shoot architecture by multiple pathways Genetics Vollbrecht
Yimo Liu   Analysis of the function and the regulation of autophagy in Arabidopsis Thaliana Genetics Bassham
Micheline Ngankwimi Ngaki   FAP genes modulate fatty acid and lipid accumulation in Arabidopsis Genetics Wurtele
Margaret Pruitt   Structure-function analyses of the Tre1 G protein-coupled receptor Molecular, Cellular and Developmental Biology Coffman
Krishnakumar Sridharan   Computational analyses to identify and study cis-regulatory regions in eukaryotes Genetics Brendel, Becraft
Huaxun Ye   Essays of GMO effects on crop yields, the effects of pricing errors on implied volatilities and smoothing for seasonal time series with a long cycle Genetics Yin
Gibum Yi   Genetic regulation of Aleurone cell fate in Zea Mays Plant Biology Becraft
Kai Ying   Structural variation in the maize genome Genetics Schnable

2011

 

Student Name

 

Title

Program

Major Professor

MS

Elizabeth Asque   Investigations of potential roles of hypoxic response genes in Drosophila primordial germ cell development Genetics Powell-Coffman
Liping Chen   Identification and survey of pre-mRNA splicing-related proteins in 10 plant species Genetics Brendel
Xiayan Kuang
(Dr. Kuang earned his Ph.D. in Genetics at ISU in 2010)
  Computational prediction of DS Transposon insertion sites in plants using DNA structural features Bioinformatics and Computational Biology Vollbrecht/Brendel
Ho Man Tang   The Brown Midrib 2 (BM2) gene of maize encodes Methylenetetrahydrofoliate reductase Genetics Schnable

PhD

Xi Chen   The analysis of HCS1 in Arabidopsis Plant Biology Wurtele
Hsin-Kai Liao   Forward and reverse genetic approaches in Zebrafish Biochemistry, Biophysics & Molecular Biology Essner
Hong Lu   Application of comparative genomics for detection of genomic features and transcriptional regulartory elements Bioinformatics & Computational Biology Schnable
Deepak Reyon   Genome engineering using DNA-binding proteins: Zinc finger nucleases (ZFNS) and transcription activator-like effector nucleases (TALENS) Bioinformatics and Computational Biology Dobbs/Edward Yu (BBMB)
Ying Wang   Analysis of endothelial tube formation in vivo Molecular, Cellular & Developmental Biology Essner
Yang Xu   The study of the mechanism of Arabidopsis VAR2 variegation Plant Biology Rodermel
Xiang Yang   Study of ramosa1 function during maize inflorescence development Molecular, Cellular & Developmental Biology Vollbrecht

2010

Student Name

 

Title

Program

Major Professor

MS

Danielle Elizabeth Reed   Characterization of the Brown Midrib4 gene of maize (Zea Mays L.): A step towards enhancing the carbon sequestration capacity of stover Genetics Schnable

PhD

Fengli Fu   Computational approaches to understand interactions between zinc finger proteins and DNA Bioinformatics and Computational Biology Voytas
Yong Huang   An evolutionary study of human microRNAs Bioinformatics and Computational Biology Gu
Yi Jia   Analysis of differences in gene expression and the genetic and epigenetic regulation of transcript accumulation in maize Plant Biology Schnable
Sang Jin Kim   Vacuolar trafficking and vesicle fusion machineries at the Arabidopsis trans-Golgi network Genetics Bassham
Xianyan Kuang   Studies of site-specific DNA double-strand break repair in plants Genetics Peterson
Lei Li   The mechanism and network for BES1-mediated transcriptional regulation in Brassinosteroids (BR) pathway in Arabiodopsis Genetics Yin
Huiying Liu   The study of the mechanism of Arabidopsis immutans variegation Plant Biology Rodermel
Sanzhen Liu   Global patterns of mutator transposon and high-throughput strategies of gene mapping, cloining in maize Genetics Schnable
Xiayan Liu   var2 genetic suppressors Genetics Rodermel
Jisun Oh   Astrocyte-derived soluble factors promoting neuronal differentiation of adult neural progenitor cells Neuroscience & Biomedical Sciences Sakaguchi
Yuanbin Ru   The significance of splice site sequences in plant intron evolution and alternative splicing Genetics Brendel
Zhiyong Shao   Roles of C. elegans EGL-9 in HIF-1 regulation and pathogen resistance Genetics Powell-Coffman
Brandi Sigmon   Ramosa1 in the development of evolution of inflorescence architecture in grasses Genetics Vollbrecht
Xiaomin Yu   Proteomic and Transcriptiomic analysis of near-isogenic soybean lines differing in seed protein content Plant Biology Wurtele
Zhiwei Zhai   The regulation of hypoxia-inducible factor (HIF-1) and the role of HIF-1 in C. elegans longevity Molecular, Cellular, and Developmental Biology Powell-Coffman

2009

Student Name

 

Title

Program

Major Professor

MS

Li Li   Unusual patterns of genetic diversity and gene expression in the maize genome Plant Biology Schnable
Michael E. Miller   Extracting biologically relevant information from microarray data as related to nitrate response in maize roots and node development in rice Molecular, Cellular and Developmental Biology Schnable
Lixun Su   The role of the Viviparous1 (VP1) gene in anaerobic inhibition of maize embryo germination Plant Biology Becraft
Danhua Zhang   A descriptive and functional study of Zebrafish Connexin43 Molecular, Cellular and Developmental Biology Essner

PhD

Heather Babka   Acetyl-CoA in Plant Biology Genetics Wurtele
Antony Chettoor   Regulation of aleurone cell fate determinants in Zea mays Plant Biology Becraft
Suh-Yeon Choi   Metabolomic and transcriptomic analysis of polyhydroxybutyrate (PHB) accumulating Arabidopsis and switchgrass: Unveiling metabolic consequences of bioplastic accumulation in plant plastids Genetics Wurtele
Deqiang Duanmu   Putative inorganic carbon transport and accumulation systems associated with the CO2 concentrating mechanism in Chlamydomonas reinhartii Molecular, Cellular and Developmental Biology Spalding
Ramesh Koukuntla   Suppressor TRNA mediated gene therapy Genetics Link
Haining Lin   Insights into the rice and Arabidopsis genomes: intron fates, paralogs, and lineage-specific genes Bioinformatics and Computational Biology Buell & Gu, Co-major Profs.
Ruth Anne Swanson Wagner   Analysis of differences in gene expression and the genetic regulation of transcript accumulation in maize inbred and hybrid lines Genetics Schnable
Kent Vander Velden   Modeling Biochemical Network for synthetic biology and understanding Bioinformatics and Computational Biology Reilly & Honavar, Co-major Profs.
Chuanhe Yu   Genome rearrangement induced by Ac/Ds transposable element in plants Genetics Peterson
Yi Zhang   Hypoxia-inducible factor regulatory networks and their roles in aging in C. elegans Molecular, Cellular and Developmental Biology Powell-Coffman

2008

Student Name

 

Title

Program

Major Professor

MS

Keri Davis   Identification of genes involved in germ cell programmed cell death in Drosophila melanogaster  Genetics Coffman
Joonbae Seo   Molecular genetics studies of bZIP transcription factor, TRAB1, and MYB transcription factor, ME97, on the Viviparous 1 promoter in Zea mays Plant Biology Becraft
Xiaofei Yu   Mechanisms of BES1-regulated gene expression downstream of brassinosteroid signaling in Arabidopsis thaliana Molecular, Cellular and Developmental Biology Yin

PhD

You Hi   LTR retrotransposons in plants: mechanisms of targeted integration and applications in plant genome engineering Molecular, Cellular and Developmental Biology Voytas
Matthew Lee Hillwig   Understanding biological activity of Hypericum species through metabolomics studies Plant Physiology Wurtele
Parijat Juvale   Deciphering Proteolytic Processing of Carbonic Anhydrase1 from Chlamydomonas ReinhardtII Plant Biology Spalding
Angela Kamps   Studies of cell migration and programmed cell death: characterization and analysis of scattershot, a mutation disrupting germ cell migration and programmed cell death in Drosophila melanogaster Molecular, Cellular and Developmental Biology Coffman
Jie Li   Data integration for biological network databases: MetNetDB labeled graph model and graph matching algorithm Bioinformatics and Computational Biology Wurtele
Nguyen Phan   Functional characterization of Arabidopsis sorting nexin AtSNX2b Genetics Bassham
Jeffry Sander   Characterization and design of C2H2 zinc finger proteins as custom DNA binding domains Bioinformatics and Computational Biology Dobbs
Michael Terribilini   Computational analysis and prediction of protein-RNA interactions Bioinformatics and Computational Biology Dobbs
Lankun Wu   Constituents and receptor-mediated calcium signalling underlying bioactivities of Echinacea Plant Biology Wurtele

2007

Student Name

 

Title

Program

Major Professor

MS

Dana Z. Awwad   Interleukin-15 and Alpha(1,3) Galactosyl-expressing vaccine combination therapy for melanoma Genetics Link
Lisa Borsuk   (non thesis) Bioinformatics and Computational Biology Schnable
Robert Alfred Dick   Factors that affect targeting of TY5 retrotransposon in Saccharomyces Cerevisiae Genetics Voytas
Li Fan   Map based candidate gene cloning and functional analysis of genes involved in VLCFAs synthesis Genetics Schnable
Justin Schares   Sequencing and distribution analysis of dissociation transposon events throughout the Zea Mays genome Genetics Vollbrecht
Julie D. Uhl   Characterization of three-spot, a gene involved in germ cell migration of Drosophila melanogaster Molecular, Cellular and Developmental Biology Coffman
Ying Zheng   Functional divergence after gene duplication and sequence-structure relationship: A case-study of G-protein alpha subunits Bioinformatics and Computational Biology Gu

PhD

Troy Brady   The role of the integrase c-terminus in replication and targeted integration of the yeast retrotransposon Ty5 Molecular, Cellular and Developmental Biology Voytas
Jun Cao   Genetic Dissection of the RF2A-Mediated Fertility Restoration Pathway in Maize Genetics Schnable
Ling Guo   Bioinformatics in maize genome research Bioinformatics and Computational Biology Schnable
Matthew M. Harper   Stem cells as neuroprotective vectors for retinal disease Neuroscience Sakaguchi
Lakshminarasimhan Krishnaswamy   Genome rearrangement at reversed-ends Ds element in Arabidopsis Plant Physiology Peterson
Jae-Hyung Lee   Analysis of protein-RNA and protein-peptide interactions in Equine Infectious Anemia Virus (EIAV) infection Bioinformatics and Computational Biology Dobbs
Shayani Pieris   A study of the impact of mazie SBE I on the alpha-polyglucan produced in Synechocystis sp. strain PCC 6803 Plant Physiology Spalding
Michael Sparks   Computational annotation of eukaryotic gene structures: algorithms development and software systems Bioinformatics and Computational Biology Brendel
Matthew D. Wilkerson   Genesis of gene structures and computational analysis of U12-type introns Bioinformatics and Computational Biology Brendel
Yukiko Yamada   Deciphering molecular mechanisms that regulate programmed cell death of primorial germ cells in Drosophila melanogaster Molecular, Cellular and Developmental Biology Coffman

2006

Student Name

 

Title

Program

Major Professor

MS

Jeffrey James Orasky   Influence of extracellular matrix molecules on the adhesion, proliferation, and differentiation of murine retinal and brain progenitor cells in vitor Neuroscience Sakaguchi
Yanling Wei   The roles of aldehydedehydrogenases (ALDHS) in acetyl-coa biosynthesis and root elongation in Arabidopsis Genetics Schnable

PhD

Sara Belliveau McMaken   Genetic analysis of potential regulators of HIF-1 in C. elegans Molecular, Cellular and Developmental Biology Powell-Coffman
Junbiao Dai   Controlled integration of the Ty5 retrotransposon in saccharomyces ceverisiae Molecular, Cellular and Developmental Biology Voytas
Fang Fang   Bayesian recombination detection modeling and application Bioinformatics and Computational Biology Dorman, Dobbs Co-maj
Aigen Fu   The mechanism of Arabidopsis immutans variegation Genetics Rodermel
Jin Li   Functional characterization of the RAD51 genes in Zea Mays and their roles in MU Transposition Genetics Schnable
Ling Li   The analysis of global gene expression related to starch, lipid and protein composition Genetics Wurtele
Wieslawa Izabela Mentzen   From pathway to regulon in Arabidopsis Bioinformatics and Computational Biology Wurtele; Gu Co-major
Jelena (Marka) Ostojic   Neuroglobin and cytoblobin distribution patterns in human and canine eye Neuroscience Sakaguchi
Hongtao Qin   Neuronal functions of AHR1, the caenorhabditis/elgans homolog of the aryl hydrocarbon receptor Genetics Powell-Coffman
Jessica Ann Schlueter   The paleopolyploid nature of the soybean genome: Duplicate gene identification, regional sequence characterization and expression studies Genetics Shoemaker
Shannon D. Schlueter   Plant genome informatics: Evaluation and analysis of genomic DNA features involved in the transcriptional processing of protein coding genes Bioinformatics and Computational Biology Brendel
Chuan Shen   Studies of hypoxia response and regulation of hypoxia-inducible factor HIF-1in Caenorhabditis elegans Toxicology Powell-Coffman
Yan Xiong   Function of autophagy in development and abiotic stress tolerance in Arabidopsis thaliana Plant Physiology Bassham

2005

Student Name

 

Title

Program

Major Professor

MS

Eric Thomas Weatherford (zoology program)   Angiotensin II and its direct effects on rat neutrophils Other Enger

PhD

Xueyuan Cao   Functional crinkly4 gene familiy in Arabidopsis thaliana and vivaparous 1 promoter in om Zea Mays Molecular, Cellular and Developmental Biology Becraft
James Daniel Cheaney (zoology program)   Problem-based learning in an on-line biotechnology course Other Ingebritsen
Yan Fu   Analysis of the maize (Zea Mays L) genome using molecular, genetic and computational approaches Genetics Schnable
Ericka Ruth Havecker   Characterization of the sireviruses: a unique group of TY1/Copia Ltr retrotransposons in plants Genetics Voytas
Marna Darlene Yandeau Nelson   The effects of transmodifers and tandem duplications of meiotic recombination in maize Genetics Schnable
Bing-Bing Wang   Genome-wide analysis of splicing related genes and alternative splicing in plants Genetics Brendel
Yingjun Wang   CO2 concentrating mechanism and signal transduction pathway associated with limiting CO2 acclimation in Chlamydomonas reinhardtii Plant Physiology Spalding
Fei Yu   The mechanism of Var2 leaf variegation Plant Physiology Rodermel
Feng Zhang   Organ-specific regulation and molecular evolution of the maize pericarp color1 gene Genetics Peterson
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