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Theses/Dissertations from 2020

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Analysis of transcription factor FOXO in the regulation of stress, aging, and neuromuscular tissue homeostasis in Drosophila melanogaster, Allison Birnbaum

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Analysis of MTORC2 in regulating aging, metabolism and cardiac disease in Drosophila melanogaster, Kai Chang

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Understanding the molecular mechanisms regulating the early placental development using Next-Generation Sequencing (NGS) datasets, Ashish Jain

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Forward and reverse genetic studies of Brassinosteroids signaling, Hao Jiang

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Mechanistic dissection of stress mitigation imparted by the maize epidermis, Colton McNinch

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Beyond knockouts: Applying precision genome editing for conditional mutagenesis innovation in zebrafish, Maira Pedroso de Almeida

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Genome-wide discovery of gene regulatory networks in the midgestation mouse placenta, Rebekah Starks

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The impact of Terminal Inverted Repeat (TIR) transposable elements on plant genomes, Weijia Su

Theses/Dissertations from 2019

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Algorithms for synteny-based phylostratigraphy and gene origin classification, Zebulun Arendsee

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An analysis of the ramosa1 pathway in Zea mays utilizing CRISPR/Cas9 knockouts, Ryan James Arndorfer

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Development and utilization of genome editing tools in maize, sorghum and rice, Si Nian Char

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Deciphering the receptor kinase FERONIA: Functions and underlying mechanisms, Hongqing Guo

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Contribution of a low-CO2-inducible plasma membrane protein, LCI1, to the CO2 concentrating mechanism in Chlamydomonas reinhardtii, Alfredo Kono

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The retinal immune response to injury and protein misfolding: Insights from models of traumatic brain injury, Parkinson’s disease, and prion disease., Najiba Mammadova

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Applications of machine learning to solve biological puzzles, Carla M. Mann

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Three-dimensional scaffolds as platforms for development of cell-based strategies for central nervous system rescue and repair, Bhavika Bhupendra Patel

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Interrogating the development of Enteric Nervous System in zebrafish using transcriptomics, Sweta Roy-Carson

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Application of precise genome editing tools in the zebrafish model to elucidate protein function with regards to developmental phenotypes, Jordan Michael Welker

Theses/Dissertations from 2018

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Multi-omics reveal nuanced pathways in placental development, Majd Abdulghani

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Identification and functional analysis of LCI15, a suppressor of the air dier phenotype of LCIB mutants in Chlamydomonas reinhardtii, Soujanya Akella

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Evolution of Tektin and ODF3 family genes and the role of gene duplication in the specialization of motile ciliary structures in the polychaete Platynereis dumerilii, Benjamin Bastin

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Gene editing of rice miRNA and argonaute genes, Honghao Bi

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The use of bioinformatics and current genome editing tools in investigating zebrafish RB1-deficient brain tumors, Jeffrey Allen Haltom

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Analysis of G-quadruplexes as environmental sensors: Novel statistical models and computational algorithms enable interpretation of complex gene expression patterns for maize under salt stress conditions, Mingze He

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Experimental and computational methods to assign gene function to maize genes, Wimalanathan Kokulapalan

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The identification of developmental mechanisms and signatures of mature retinal neurons through single cell transcriptomics, Lauren Ann Laboissonniere

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From the fish tank to the human gut: Characterization of the role of kita and ano1 ICC markers in regulation of intestinal motility in zebrafish, Kevin Natukunda

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To grow or survive: Plants modulate Brassinosteroid-regulated transcription factor BES1 during drought to balance growth and stress responses, Trevor Nolan

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Using zebrafish to elucidate the epigenetic mechanisms controlling neurogenesis and brain tumorigenesis, Laura Schultz

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A tale of regulation: Analysis of the role of SnRK1 and glutathione in autophagy in Arabidopsis thaliana, Junmarie Soto-Burgos

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The Power of GWAS: Leveraging Genome Wide Association Studies to identify novel regulators of autophagy in Drosophila melanogaster, Axelle Weeger

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Using zebrafish to iterate and expand the precision genome writing toolbox, Wesley Wierson

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Functions and mechanisms of AP2/ERF and MYB family transcription factors in Brassinosteroid-regulated plant growth and stress responses, Zhouli Xie

Theses/Dissertations from 2017

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Rational design and validation of DNA fragments for gene assembly based on thermodynamics, Bhagyashree Shreekant Birla

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Developing an integrated system for biological network exploration, Jennifer Chang

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Functions and mechanism of WRKY transcription factors in Brassinosteroid-regulated plant growth and stress response, Jiani Chen

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Insights into retinal cell fate determination in vertebrates using transcriptomic profiling and genome editing, Rebecca Chowdhury

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The genomic evolution of H1 influenza A viruses from swine detected in the United States between 2009 and 2016, Shibo Gao

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Genetic regulation of aleurone development in Zea mays, Bryan Christopher Gontarek

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Filarial nematode exosome-like vesicles (ELVs): Functional significance and control relevance, Hiruni Harischandra

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The asymmetric cell division machinery in early annelid embryogenesis: Maternal and embryonic contributions, Aron Nakama

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Interaction between regulation of autophagy, stress responses and growth in Arabidopsis thaliana, Yunting Pu

Theses/Dissertations from 2016

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Molecular Characterization of Short and Long Term Iron Stress Responses in Soybean, Leorrie Ann Atencio

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The function and regulation of CIA5/CCM1 in Chlamydomonas reinhardtii, Bo Chen

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Fishing for answers: Isolating enteric neurons and identifying putative ENS mutants, Margaret Leigh Kline

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Relationships of brassinosteroid signaling with knox and wab1 genes on maize plant architecture, Andree Sunanjaya Kusnandar

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Dynamic self-assembling DNA nanosystems: design and engineering, Divita Mathur

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The development of tools for transposon somatic mutagenesis in zebrafish, Joshua Mauldin

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TNO1 & VPS45: SNARE-associated proteins required for plant growth, Rahul Roy

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Scalable and reproducible genome analysis in the age of next-generation genome sequencing, Daniel Scott Standage

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Microscopic characterization of a transposon-induced male-sterile, female-sterile mutant in Glycine max L., Katherine A. Thilges

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Microscopic characterization of a transposon-induced male-sterile, female-sterile mutant in Glycine max L., Katherine A. Thilges

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Analysis of the induction of autophagy during ER stress and the vesicle fusion machinery at the trans-Golgi network in Arabidopsis thaliana, Xiaochen Yang

Theses/Dissertations from 2015

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Analysis of cytokinin-induced maize leaf developmental changes and interacting genetic modifiers, James Francis Cahill

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Computational prediction, experiment design and statistical validations of non-coding regulatory RNA, Hyejin Cho

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The CO2 concentrating mechanism and nitrogen starvation effects under photoautotrophic culture conditions of Chlamydomonas reinhardtii studied by high throughput DNA sequencing technology, Wei Fang

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Analysis of the role of RNS2 and autophagy in the turnover of ribosomal RNA in Arabidopsis thaliana, Brice Edward Floyd

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A clade-specific Arabidopsis gene connects primary metabolism and senescence, Dallas Christopher Jones

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Regulation of shoot development in maize via brassinosteroid signaling, Gokhan Kir

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Analyses of diverse stresses, including hypoxia, cyanide, and hypergravity in Caenorhabditis elegans, Jenifer N. Saldanha

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Modeling pediatric brain and central nervous system cancer in zebrafish, Staci Lyn Solin

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Functional and genomic analyses of the maize yabby transcription factors drooping leaf1 and drooping leaf2, Joshua Strable

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The molecular mechanisms of brassinosteroid-regulated drought stress response in Arabidopsis thaliana, Buyun Tang

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Analysis of blood vessel tube formation using Rab and Rac fusion proteins in zebrafish, Ellen Elizabeth Tisdale

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Host target genes of the Xanthomonas oryzae pv. oryzae type III effectors for bacterial blight in rice, Junhui Zhou

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Mechanisms and impact of alternative transposition-induced segmental duplications, Tao Zuo

Theses/Dissertations from 2014

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Metabolism and localization of polyketides in the genus Hypericum, Matthew Charles Crispin

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Starting small: Transcriptomics with single and small populations of cells, Caitlin Farris

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TALE activation and functional analysis of endogenous genes in Chlamydomonas reinhardtii, Han Gao

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Function and application of TAL effectors, Ting Li

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Genetic and gene expression diversity among maize inbreds, Xiao Li

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Genetic regulation of chloroplast biogenesis in Arabidopsis, Aarthi Putarjunan

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The impact of Ac/Ds alternative transposition on the maize genome, Dafang Wang

Theses/Dissertations from 2013

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Genome-wide analyses of expression data and HIF-1 binding sites provide insights to the HIF-1 hypoxia-inducible factor in Caenorhabditis elegans, Dingxia Feng

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Computational prediction of RNA-protein interaction partners and interfaces, Usha Muppirala

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Integration of large datasets for plant model organisms, Yves Sucaet

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Inflorescence branching in maize: A quantitative genetics approach to identifying key players in the inflorescence development pathway, Rebecca Lynne Weeks

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Visualization of biological data: Infrastructure, design and application, Tengfei Yin

Theses/Dissertations from 2012

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Local assembly and pre-mRNA splicing analyses by high-throughput sequencing data, Hsien-chao Chou

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A study of chloroplast biogenesis within variegated mutants of Arabidopsis, Andrew Alexander Foudree

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Analysis of the function and the regulation of autophagy in Arabidopsis thaliana, Yimo Liu

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Tassels replace upper ears1 encodes a putative transcription factor that regulates maize shoot architecture by multiple pathways, Wei Li

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FAP genes modulate fatty acid and lipid accumulation in Arabidopsis, Micheline Ngankwimi Ngaki

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Structure-function analyses of the Tre1 G protein-coupled receptor, Margaret Marie Pruitt

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Computational analyses to identify and study cis-regulatory regions in eukaryotes, Krishnakumar Sridharan

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Academic game development: practices and design strategies for creating STEM games, Mark Edwin Stenerson

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Transcriptional mechanisms of brassinosteroid regulated plant growth and stress responses, Huaxun Ye

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Genetic regulation of aleurone cell fate in Zea mays, Gibum Yi

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Structural Variation in the Maize Genome, Kai Ying

Theses/Dissertations from 2011

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Investigations of potential roles of hypoxic response genes in Drosophila primordial germ cell development, Elizabeth M. Asque

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Identification and survey of pre-mRNA splicing-related proteins in 10 plant species, Liping Chen

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The analysis of HCS1 in Arabidopsis, Xi Chen

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Computational prediction of Ds transposon insertion sites in plants using DNA structural features, Xianyan Kuang

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Application of comparative genomics for detection of genomic features and transcriptional regulatory elements, Hong Lu

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In search for maize florigen, Xin Meng

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Genome engineering using DNA-binding proteins: zinc finger nucleases (ZFNs) and transcription activator-like effector nucleases (TALENs), Deepak Reyon

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The brown midrib 2 (bm2) gene of maize encodes methylenetetrahydrofolate reductase, Ho Man Tang

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Study of RAMOSA1 function during maize inflorescence development, Xiang Yang

Theses/Dissertations from 2010

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Computational approaches to understand interactions between zinc finger proteins and DNA, Fengli Fu

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An evolutionary study of human microRNAs, Yong Huang