Digital Commons Network^™

Complete Genome Sequence Of Noncytopathic Bovine Viral Diarrhea Virus 1 Contaminating A High-Passage Rk-13 Cell Line, Bora Nam, Ganwu Li, Ying Zheng, Jianqiang Zhang, Kathleen M. Shuck, Peter J. Timoney, Udeni B. R. Balasuriya

Maxwell H. Gluck Equine Research Center Faculty Publications

A high-passage rabbit kidney RK-13 cell line (HP-RK-13[KY], originally derived from the ATCC CCL-37 cell line) used in certain laboratories worldwide is contaminated with noncytopathic bovine viral diarrhea virus (ncpBVDV). On complete genome sequence analysis, the virus strain was found to belong to BVDV group 1b.

Novel Human Abcc9/Sur2 Brain-Expressed Transcripts And An Eqtl Relevant To Hippocampal Sclerosis Of Aging, Peter T. Nelson, Wang-Xia Wang, Bernard R. Wilfred, Angela Wei, James Dimayuga, Qingwei Huang, Eseosa T. Ighodaro, Sergey C. Artiushin, David W. Fardo

Sanders-Brown Center on Aging Faculty Publications

ABCC9 genetic polymorphisms are associated with increased risk for various human diseases including hippocampal sclerosis of aging. The main goals of this study were 1 > to detect the ABCC9 variants and define the specific 3′ untranslated region (3′UTR) for each variant in human brain, and 2 > to determine whether a polymorphism (rs704180) associated with risk for hippocampal sclerosis of aging pathology is also associated with variation in ABCC9 transcript expression and/or splicing. Rapid amplification of ABCC9 cDNA ends (3′RACE) provided evidence of novel 3′ UTR portions of ABCC9 in human brain. In silico and experimental studies were performed focusing on …

Economic Impact Of Net Carbon Payments And Bioenergy Production In Fertilized And Non-Fertilized Loblolly Pine Plantations, Prativa Shrestha, George A. Stainback, Puneet Dwivedi

Forestry and Natural Resources Faculty Publications

Sequestering carbon in forest stands and using woody bioenergy are two potential ways to utilize forests in mitigating emissions of greenhouse gases (GHGs). Such forestry related strategies are, however, greatly influenced by carbon and bioenergy markets. This study investigates the impact of both carbon and woody bioenergy markets on land expectation value (LEV) and rotation age of loblolly pine (Pinus taeda L.) forests in the southeastern United States for two scenarios—one with thinning and no fertilization and the other with thinning and fertilization. Economic analysis was conducted using a modified Hartman model. The amount of carbon dioxide (CO_{2 …}

Insecticides Promote Viral Outbreaks By Altering Herbivore Competition, Huipeng Pan, Evan L. Preisser, Dong Chu, Shaoli Wang, Qingjun Wu, Yves Carriére, Xuguo Zhou, Youjun Zhang

Entomology Faculty Publications

While the management of biological invasions is often characterized by a series of single-specieg decisions, invasive species exist within larger food webs. These biotic interactions can alter the impact of control/eradication programs and may cause suppression efforts to inadvertently facilitate invasion spread and impact. We document the rapid replacement of the invasive Bemisia Middle East-Asia Minor I (MEAM1) cryptic biotype by the cryptic Mediterranean (MED) biotype throughout China and demonstrate that MED is more tolerant of insecticides and a better vector of tomato yellow leaf curl virus (TYLCV) than MEAMJ. While MEAM1 usually excludes MED under natural conditions, insecticide application …

Complete Issue Of Volume 8

Kaleidoscope

No abstract provided.

Water Expert: A Conceptualized Framework For Development Of A Rule-Based Decision Support System For Distribution System Decontamination, J. L. Gutenson, A. N. S. Ernest, J. R. Fattic, L. E. Ormsbee, A. A. Oubeidillah, X. Zhang

Civil Engineering Faculty Publications

Significant drinking water contamination events pose a serious threat to public and environmental health. Water utilities often must make timely, critical decisions without evaluating all facets of the incident. The data needed to enact informed decisions are inevitably dispersant and disparate, originating from policy, science, and heuristic contributors. Water Expert is a functioning hybrid decision support system (DSS) and expert system framework that emphasizes the meshing of parallel data structures in order to expedite and optimize the decision pathway. Delivered as a thin-client application through the user's web browser, Water Expert's extensive knowledgebase is a product of inter-university collaboration …

Population Dynamics Of Empoasca Fabae (Hemiptera: Cicadellidae) In Central Iowa Alfalfa Fields, L. A. Weiser Erlandson, John J. Obrycki

Entomology Faculty Publications

Adults and nymphs of Empoasca fabae Harris (Hemiptera: Cicadellidae) and adults of predatory species in the families Coccinellidae, Anthocoridae, Nabidae, Chrysopidae, and Hemerobiidae were sampled in Iowa alfalfa fields from June to September in 1999 and 2000. The relationship between each predatory taxa and E. fabae was examined using regression analysis. In 2000, all predators were found to be positively correlated with the presence of E. fabae during all periods sampled and most likely contributed to mortality. Orius insidiosus (Say) (Hemiptera: Anthoridae) was the most numerous insect predatory species; population numbers ranged from 0 to 1 and 0.1 to 3.7 …

Oswald Research And Creativity Program, Uk Office Of Undergraduate Research

Kaleidoscope

No abstract provided.

Undergraduate Awards And Honors, Uk Office Of Undergraduate Research

Kaleidoscope

No abstract provided.

Undergraduate Research And Travel Fund, Uk Office Of Undergraduate Research

Kaleidoscope

eUreKa! offers undergraduate students travel support. The purpose of this support is to help students gain experience in showcasing their work at and participating in professional conferences on a national and sometimes international level. Keep in mind that research takes place in many different forms and in all disciplines: the study of social problems, the creation of a piece of fiction or poetry, the study of a scientific theory or historic period of time, and the solution of engineering and mathematical problems all qualify as research, among many other activities.

Summer Research And Creativity Grants, Uk Office Of Undergraduate Research

Kaleidoscope

The abstracts in this section were submitted by students who received Research and Creativity Awards for the summer of 2009. Many are not final reports because the projects were still in process when the submissions were due. Rather, they are progress reports. However, these abstracts provide a clear and wonderfully diverse picture of the broad range of scholarly activities being undertaken by undergraduates at the University of Kentucky.

Beckman Scholar 2008-09, Clay Turner

Kaleidoscope

No abstract provided.

Beckman Scholar 2008-09, Lesley Mann

Kaleidoscope

No abstract provided.

Beckman Scholars Program, Uk Office Of Undergraduate Research

Kaleidoscope

No abstract provided.

Insights Into Alzheimer’S Disease: The Levels Of Signaling Proteins In Brain Of Control Subjects Versus Brain From Subjects With Mild Cognitive Impairment, Georgianne F. Tiu

Kaleidoscope

The purpose of this study was to measure the expression levels of key signaling proteins in brain tissue from subjects with mild cognitive impairment (MCI) compared to control subjects. MCI is considered to be the beginning phase of Alzheimer’s disease (AD). Tumor necrosis factor alpha (TNF-α), nuclear factor kappa beta (NF-κβ), phospho Bad (pBad), and ubiquitin C-terminal hydrolase-L1 (UCH-L1) are four of the proteins that were investigated. Trends of either decreases or increases in protein expression levels in MCI vs. control brain were investigated. Western blot analysis was used in order to identify these trends. These signaling protein levels are …

Development Of Transgenic Lines To Support Plant Cell Biology Research, Kristin Kopperud

Kaleidoscope

Viruses pose a threat to humans in a variety of ways — from direct infection to imposing devastating effects on the agriculture industry. Prevention of such infection requires knowledge of the mechanisms of viral infection, both in animal- and plant-infecting species. The goal of this project was to identify plant factors that interact with viral proteins in the course of infection leading to disease. Sonchus yellow net virus (SYNV) and Potato yellow dwarf virus (PYDV) were used to test the hypothesis that the viruses utilize different subsets of host factors in order to infect Nicotiana benthamiana, despite both being …

The Agricultural Footprints On The Environment, Philip Houtz

Kaleidoscope

Industrialized agricultural systems have given America a convenient and affordable means to supply a surplus of food products to its citizens. Transgenic technology, synthesized fertilizers, advanced pesticides, concentrated animal feeding operations (CAFOs), and the use of farm machinery have all contributed to humanity’s ability to feed the world’s rapidly growing population. However, the energy-intensive food operation of today may not be as ideal as we assume. Fossil fuels are burned to meet the energy requirements for the continual production of large quantities of fertilizer and to keep farm machines operational. Fertilizer and pesticide runoff from farmland ultimately drains into rivers …

Welcome From The President, Lee T. Todd Jr.

Kaleidoscope

No abstract provided.

Front Matter

Kaleidoscope

No abstract provided.

Kidney-Specific Reduction Of Oxidative Phosphorylation Genes Derived From Spontaneously Hypertensive Rat, Jason A. Collett, Jiffin K. Paulose, Vincent M. Cassone, Jeffrey L. Osborn

Biology Faculty Publications

Mitochondrial (Mt) dysfunction contributes to the pathophysiology of renal function and promotes cardiovascular disease such as hypertension. We hypothesize that renal Mt-genes derived from female spontaneously hypertensive rats (SHR) that exhibit hypertension have reduced expression specific to kidney cortex. After breeding a female Okamoto-Aoki SHR (SAP = 188mmHg) with Brown Norway (BN) males (SAP = 100 and 104 mmHg), hypertensive female progeny were backcrossed with founder BN for 5 consecutive generations in order to maintain the SHR mitochondrial genome in offspring that contain over increasing BN nuclear genome. Mt-protein coding genes (13 total) and nuclear transcription factors mediating Mt-gene transcription …

Prospecting For Energy-Rich Renewable Raw Materials: Agave Leaf Case Study, Kendall R. Corbin, Caitlin S. Byrt, Stefan Bauer, Seth Debolt, Don Chambers, Joseph A. M. Holtum, Ghazwan Karem, Marilyn Henderson, Jelle Lahnstein, Cherie T. Beahan, Antony Bacic, Geoffrey B. Fincher, Natalie S. Betts, Rachel A. Burton

Horticulture Faculty Publications

Plant biomass from different species is heterogeneous, and this diversity in composition can be mined to identify materials of value to fuel and chemical industries. Agave produces high yields of energy-rich biomass, and the sugar-rich stem tissue has traditionally been used to make alcoholic beverages. Here, the compositions of Agave americana and Agave tequilana leaves are determined, particularly in the context of bioethanol production. Agave leaf cell wall polysaccharide content was characterized by linkage analysis, non-cellulosic polysaccharides such as pectins were observed by immuno-microscopy, and leaf juice composition was determined by liquid chromatography. Agave leaves are fruit-like--rich in moisture, …

Genome-Wide Profiling Of Parp1 Reveals An Interplay With Gene Regulatory Regions And Dna Methylation, Narasimharao Nalabothula, Taha Al-Jumaily, Abdallah M. Eteleeb, Robert M. Flight, Shao Xiaorong, Hunter Moseley, Eric C. Rouchka, Yvonne N. Fondufe-Mittendorf

Molecular and Cellular Biochemistry Faculty Publications

Poly (ADP-ribose) polymerase-1 (PARP1) is a nuclear enzyme involved in DNA repair, chromatin remodeling and gene expression. PARP1 interactions with chromatin architectural multi-protein complexes (i.e. nucleosomes) alter chromatin structure resulting in changes in gene expression. Chromatin structure impacts gene regulatory processes including transcription, splicing, DNA repair, replication and recombination. It is important to delineate whether PARP1 randomly associates with nucleosomes or is present at specific nucleosome regions throughout the cell genome. We performed genome-wide association studies in breast cancer cell lines to address these questions. Our studies show that PARP1 associates with epigenetic regulatory elements genome-wide, such as active histone …

The 133-Kda N-Terminal Domain Enables Myosin 15 To Maintain Mechanotransducing Stereocilia And Is Essential For Hearing, Qing Fang, Artur A. Indzhykulian, Mirna Mustapha, Gavin P. Riordan, David F. Dolan, Thomas B. Friedman, Inna A. Belyantseva, Gregory I. Frolenkov, Sally A. Camper, Jonathan E. Bird

Physiology Faculty Publications

The precise assembly of inner ear hair cell stereocilia into rows of increasing height is critical for mechanotransduction and the sense of hearing. Yet, how the lengths of actin-based stereocilia are regulated remains poorly understood. Mutations of the molecular motor myosin 15 stunt stereocilia growth and cause deafness. We found that hair cells express two isoforms of myosin 15 that differ by inclusion of an 133-kDa N-terminal domain, and that these isoforms can selectively traffic to different stereocilia rows. Using an isoform-specific knockout mouse, we show that hair cells expressing only the small isoform remarkably develop normal stereocilia bundles. However, …

The C-Terminal Domain (Ctd) Of Human Dna Glycosylaseneil1 Is Required For Forming Berosome Repair Complex With Dna Replication Proteins At The Replicating Genome: Dominant Negative Function Of The Ctd, Pavana M. Hegde, Arijit Dutta, Shiladitya Sengupta, Joy Mitra, Sanjay Adhikari, Alan E. Tomkinson, Guo-Min Li, Istvan Boldogh, Tapas K. Hazra, Sankar Mitra, Muralidhar L. Hegde

Toxicology and Cancer Biology Faculty Publications

The human DNA glycosylase NEIL1 was recently demonstrated to initiate prereplicative base excision repair (BER) of oxidized bases in the replicating genome, thus preventing mutagenic replication. A significant fraction of NEIL1 in cells is present in large cellular complexes containing DNA replication and other repair proteins, as shown by gel filtration. However, how the interaction of NEIL1 affects its recruitment to the replication site for prereplicative repair was not investigated. Here, we show that NEIL1 binarily interacts with the proliferating cell nuclear antigen clamp loader replication factor C, DNA polymerase δ, and DNA ligase I in the absence of DNA …

Targeted Salivary Biomarkers For Discrimination Of Periodontal Health And Disease(S), Jeffrey L. Ebersole, Radhakrishnan Nagarajan, David Akers, Craig S. Miller

Center for Oral Health Research Faculty Publications

Generally, clinical parameters are used in dental practice for periodontal disease, yet several drawbacks exist with the clinical standards for addressing the needs of the public at large in determining the current status/progression of the disease, and requiring a significant amount of damage before these parameters can document disease. Therefore, a quick, easy and reliable method of assessing and monitoring periodontal disease should provide important diagnostic information that improves and speeds treatment decisions and moves the field closer to individualized point-of-care diagnostics.

OBJECTIVE: This report provides results for a saliva-based diagnostic approach for periodontal health and disease based upon …

Estimating Patient-Centered And Community-Centered Treatment Effects: Examples From Medical Care And Public Health, Glen P. Mays

Health Management and Policy Presentations

Health services researchers face growing clinical and policy imperatives for estimating how the effectiveness of medical and public health interventions vary across patients, population groups, and community settings. Recent advances in local instrumental variables estimation techniques allow for the estimation of person-specific and community-specific treatment effects in the presence of unobserved heterogeneity. This presentation explores examples from both medicine and public health following the local IV methods developed by Basu et al. (2013).

Derivation Of An Analytical Solution To A Reaction-Diffusion Model For Autocatalytic Degradation And Erosion In Polymer Microspheres, Ashlee N. Ford Versypt, Paul D. Arendt, Daniel W. Pack, Richard D. Braatz

Pharmaceutical Sciences Faculty Publications

A mathematical reaction-diffusion model is defined to describe the gradual decomposition of polymer microspheres composed of poly(D,L-lactic-co-glycolic acid) (PLGA) that are used for pharmaceutical drug delivery over extended periods of time. The partial differential equation (PDE) model treats simultaneous first-order generation due to chemical reaction and diffusion of reaction products in spherical geometry to capture the microsphere-size-dependent effects of autocatalysis on PLGA erosion that occurs when the microspheres are exposed to aqueous media such as biological fluids. The model is solved analytically for the concentration of the autocatalytic carboxylic acid end groups of the polymer chains that comprise the microspheres …

Compositional Differences In Simulated Root Exudates Elicit A Limited Functional And Compositional Response In Soil Microbial Communities, Michael S. Strickland, Rebecca L. Mcculley, Jim A. Nelson, Mark A. Bradford

Plant and Soil Sciences Faculty Publications

Inputs of low molecular weight carbon (LMW-C) to soil - primarily via root exudates- are expected to be a major driver of microbial activity and source of stable soil organic carbon. It is expected that variation in the type and composition of LMW-C entering soil will influence microbial community composition and function. If this is the case then short-term changes in LMW-C inputs may alter processes regulated by these communities. To determine if change in the composition of LMW-C inputs influences microbial community function and composition, we conducted a 90 day microcosm experiment whereby soils sourced from three different land …

Summary Of Proposed Updates To The National Health Security Preparedness Index For 2015-2016, Glen P. Mays, Michael T. Childress, Pierre Martin Dominique Zephyr, Christopher R. Bollinger, Anna Goodman Hoover

Health Management and Policy Reports

This report describes proposed updates in methodology and measures for the 2015-16 release of the National Health Security Preparedness Index

Application Of Β-Lactamase Reporter Fusions As An Indicator Of Effector Protein Secretion During Infections With The Obligate Intracellular Pathogen Chlamydia Trachomatis , Konrad E. Mueller, Kenneth A. Fields

Microbiology, Immunology, and Molecular Genetics Faculty Publications

Chlamydia spp. utilize multiple secretion systems, including the type III secretion system (T3SS), to deploy host-interactive effector proteins into infected host cells. Elucidation of secreted proteins has traditionally required ectopic expression in a surrogate T3SS followed by immunolocalization of endogenous candidate effectors to confirm secretion by chlamydiae. The ability to transform Chlamydia and achieve stable expression of recombinant gene products has enabled a more direct assessment of secretion. We adapted TEM-1 β-lactamase as a reporter system for assessment of chlamydial protein secretion. We provide evidence that this system facilitates visualization of secretion in the context of infection. Specifically, our findings …