2016-2017 EBS EDGE Award Winners
Pharmacology, Jutkiewicz Lab
Biological Chemistry, Trievel Lab
Human Genetics, Kalantry Lab
Microbiology & Immunology, Lauring Lab
Cell & Developmental Biology, Wellik Lab
Molecular & Integrative Physiology, Moenter Lab
Biomedical Engineering, Kripfgans Lab
2014 EBS EDGE Award Winners
William Law is a PhD student in the Department of Human Genetics and is performing his thesis research in the laboratory of Anthony Antonellis. The major focus of Bill’s research is to identify regulatory variation important for the development and diseases of the peripheral nervous system. Bill has developed a very clever and efficient pipeline that computationally predicts transcriptional regulatory elements that harbor common single-nucleotide polymorphisms (SNPs). He is then functionally evaluating the regulatory activity of the major and minor SNP alleles in Schwann cells, motor neurons, and muscle cells. Bill’s efforts have already revealed a handful of regulatory SNPs that he is characterizing more deeply by deleting them in cultured cells using CRISPR/Cas9 technology; he has already successfully deleted two regions using this approach. Bill’s research will have major implications for determining the etiology of peripheral nerve disease. Indeed, results will allow us to assess each identified SNP as a genetic modifier of inherited peripheral neuropathy, which displays a high degree of unexplained clinical severity.
Kathryn Livingston is a PhD candidate in the Department Pharmacology working with Dr. John Traynor. Kathryn’s thesis work is to explore the nature of an allosteric binding site on the mu-opioid receptor, a G protein coupled receptor. This novel site is distinct from the orthosteric site where traditional opioid drugs and endogenous opioid peptides bind. Using cell cultures and purified proteins Kathryn has described a potential mechanism of allosteric modulation that may be generally applicable to other G protein coupled receptors. Kathryn’s work could identify a novel target for pain relieving drugs that might avoid the tolerance and dependence issues
associated with long term opioid therapy.
Mary McCarthy is a PhD candidate in the Department of Microbiology & Immunology, working with Jason Weinberg, MD. Mary’s thesis research is focused on studies of adenovirus pathogenesis, examining interactions between viral infection and host immune responses that contribute to the control of viral infection but also to host damage. Mary has successfully established a mouse model of adenovirus myocarditis, an important cause of human disease that has previously been difficult to study. Her work examines critical host factors such as interferon gamma and the immunoproteasome, defining ways in which those factors contribute to the pathogenesis of adenovirus myocarditis in an effort to establish them as novel therapeutic targets.
Datta Mellacheruvu is progressing towards a PhD in Bioinformatics under the guidance of Dr. Alexey Nesvizhskii. His research is focused on the development of bioinformatics tools for reconstruction of protein-protein interaction networks. The analysis of protein complexes and interaction networks, and their dynamic behavior are of central impor-tance in biological research. Affinity purification coupled with mass spectrometry (AP-MS) technology is now widely used for protein interaction analysis. Datta’s work addresses the critical need for robust computational methods and tools for AP-MS data. The computational tools developed by Datta, most notably the Contaminant Repository for Affinity Purification (www.crapome.org), are already used extensively by hundreds of laboratories worldwide.
Erin Miller is a pursuing her PhD in the Department of Biological Chemistry with Dr. Patrick O’Brien. Her research is focused on the question of how DNA glycosylases recognize damaged bases in the genome. This is a key question to understanding how cells avoid somatic mutations that can arise from endogenous and exogenous sources of DNA damage. Erin has determined the kinetic mechanism of AlkA, an enzyme that recognizes a wide range of alkylated bases. Comparison of different enzymes that independently evolved to repair alkylated DNA reveals some interesting similarities and differences, helping to explain why organisms require multiple enzymes for repair of alkylation damage.
Maeran Uhm is a PhD candidate in the Department of Molecular & Integrative Physiology working with Dr. Alan Saltiel in the Life Sciences Institute. Maeran has contributed to understand the molecular mechanisms of the non-canonical IKK kinases, IKK and TBK1 in regulating energy homeostasis in adipose tissue. Her research revealed that elevated levels of these two enzymes in obese adipose tissue reduced the ability of fat cells to respond to catecholamines, “fat-burning” hormones generated by the activation of sympathetic nervous system and in turn reduced energy expenditure. She is also currently focusing on the role of these kinases in the regulation of glucose transport in response to the hormone insulin by targeting an evolutionarily conserved tethering complex called the exocyst. Her research will provide new insights into the molecular events underlying insulin resistance in Type 2 diabetes.
Qi Xiao is a PhD candidate in the Cell and Developmental Biology graduate program working with Dr. Cheng-Yu Lee in the Life Sciences Institute. Qi’s thesis research explores the role of cellular memory in regulating the functional capability of neural stem cells to generate a requisite number of progeny through the production of progenitor cells during brain development. Qi identified and characterized Klumpfuss, one of the four key transcription factors that are required for maintaining the functional identity of neural stem cells that reproducibly generate progenitor cells. She also discovered a highly conserved DNA modifying enzyme that is required for Klumpfuss, as well as three other transcription factors, to maintain the functional identity of neural stem cells that are capable of generating progenitor cells. Lastly, in collaboration with a post-doctoral fellow in the Lee lab, she uncovered an evolutionarily conserved mechanism that maintains the cellular memory of neural stem cells to generate progenitor cells. Qi’s thesis work provides a road map that will allow other researchers to unravel the role of cellular memory in maintains stem cell functions in higher organisms.
2013 EBS EDGE Award Winners
Sara Bondi Cassidy
Sara Bondi Cassidy is a PhD candidate in the Department of Microbiology & Immunology, working with Dr. Mary O'Riordan. Sara's thesis research explores fundamental aspects of cell biology that influence the interaction of microbial pathogens with their host during infection. Sara discovered a novel role for the cell death regulator, caspase-7, in protecting host cells from membrane damage caused by bacterial pore-forming proteins. Membrane damage by pore-forming proteins is common in many different diseases, including infection, autoimmunity and Alzheimer's, and can exacerbate disease symptoms. Sara's studies have implicated caspase-7 and its targets in membrane repair, revealing new potential targets for therapeutics to minimize cellular damage associated with disease-associated pathology. Sara will begin a postdoctoral position with Dr. Julie Segre at the National Institutes of Health in Bethesda, MD in August 2013 studying the biology of the skin microbiome.
Shanshan Cheng is pursuing her Ph.D. studies in Bioinformatics and Computational Biology under the mentorship of Professor Charles L. Brooks III from the Department of Chemistry and Biophysics Program. Her thesis work centers on characterizing structural properties of viral coat proteins that form the protective shell of viruses, with a focus on delineating features that are exclusive to the virosphere and on structural motifs that determine the size of the assembled architecture. Ms. Cheng's research will aid the rational design of anti-viral drugs that specifically target the pathogen, as well as provide insights on physical principles underpinning successful synthetic maneuvers of the viral templates in various nanotechnology applications.
Jacob Higgins is a PhD candidate in the department of Human Genetics and is doing his dissertation work in the laboratory of Dr. Diane Robins. The focus of Jake's research is on how multiple oncogenic pathways interact with the androgen receptor to determine the initiation and progression of prostate cancer. These studies use bioinformatic tools applied to mouse tumor models to identify key differences between latent and aggressive disease, and cell culture experiments to elucidate mechanisms underlying these differences. Ultimately this molecular characterization may reveal novel biomarkers for disease prognosis and new targets for disease treatment.
Chase Weidmann is progressing towards a PhD in Biological Chemistry under the guidance of Dr. Aaron Goldstrohm. Chase has contributed to the understanding of PUF proteins, a family of RNA binding proteins that regulate genes. His research uncovered new types of switches that turn genes off and regulate the activity of the founding PUF protein, Pumilio. This research will help understand the nature of how RNA-binding proteins like Pumilio act to control protein expression, a major factor in cancer and disease. His work will also advance the engineering of PUFs as therapeutics that regulate genes with adverse effects.
2012 EBS EDGE Award Winners
Luqia Hou is a PhD candidate in the department of Molecular & Integrative Physiology working in Dr. Jose Jalife's laboratory. His research focus is on determining molecular mechanism of ventricular fibrillation and developing novel cell therapy for myocardial infarction. In a neonatal rat cardiomyocytes monolayer model, he described the role of hERG, a repolarizing potassium channel, in controlling frequency and stability of reentry arrhythmia. And by transferring three genes into cardiac fibroblasts, he made these cells excitable, coupled with host cardiomyocytes and restored electrical impulse propagation.
Di Ma' is a PhD candidate in the Cell and Developmental Biology graduate program working with Dr. Jiandie Lin in the Life Sciences Institute. In her thesis work, she discovered novel mechanisms that link the biological clock to autophagy regulation, fatty liver disease, and cholesterol homeostasis. Di uses a combination of mouse genetics and biochemical approaches to dissect the pathways that interface circadian timing and metabolism.
Jennifer Gehret McCarthy
Jennifer Gehret McCarthy is pursuing her PhD in the Department of Biological Chemistry with mentoring by Dr. Janet Smith. The focus of her research is the production of terminal alkenes in biosynthesis of natural products and hydrocarbons mediated by a recently discovered sulfotransferase-thioesterase bifunctional enzyme. Her structural and enzymatic studies will aid in developing the enzymes as chemical tools to produce new natural products or to produce hydrocarbons for biofuel. Jennifer will begin a postdoctoral position with Dr. Susan Buchanan at the National Institutes of Health in Bethesda, MD in January 2013.
2011 EBS EDGE Award Winners
Matthew Avenarius' thesis work has provided important insight into molecular mechanisms of sensory cell development and function and the genetic etiology of human hearing loss. In his thesis work with David Kohrman (Depts. Otolaryngology and Human Genetics) he showed roles for the Grxcr genes in sensory cell maturation using mouse mutants, in controlling the organization and polarity of stereocilia, the actin filament-rich structures critical for mechanotransduction and hearing. In January, 2012, Matthew began a postdoctoral position with Dr. Peter Gillespie at the Oregon Health and Science University.
Tien-Huei Hsu is a PhD candidate in the Department of Microbiology and Immunology working with Dr. Kathy Spindler. Her research focus is on determining host components that are involved in mouse adenovirus type 1 (MAV-1) infection. She uses comparison studies with infection-resistant and susceptible mice, as well as an unbiased genetic approach to identify and investigate the contribution of host factors. The title of her dissertation is "Contribution of Host Factors to Mouse Adenovirus Type 1 Pathogenesis".
Dave Pai is pursuing a PhD in Biological Chemistry with mentoring by David Engelke. The focus of his dissertation research is the spatial organization of genes in nuclei. Orderly storage of genetic information is essential for its efficient and regulated retrieval, and the specific positioning of genes allows this retrieval to be ordered into pathways. Dave employs molecular genetics and biochemical techniques to investigate the mechanism of three-dimensional localization of specific genes within the nucleus and the consequences of this organization on controlling RNA synthesis.