Digital Commons Network^™

Sequencing Of The Sea Lamprey (Petromyzon Marinus) Genome Provides Insights Into Vertebrate Evolution, Jeramiah J. Smith, Shigehiro Kuraku, Carson Holt, Tatjana Sauka-Spengler, Ning Jiang, Michael S. Campbell, Mark D. Yandell, Tereza Manousaki, Axel Meyer, Ona E. Bloom, Jennifer R. Morgan, Joseph D. Buxbaum, Ravi Sachidanandam, Carrie Sims, Alexander S. Garruss, Malcolm Cook, Robb Krumlauf, Leanne M. Wiedemann, Stacia A. Sower, Wayne A. Decatur, Jeffrey A. Hall, Chris T. Amemiya, Nil R. Saha, Katherine M. Buckley, Jonathan P. Rast, Sabyasachi Das, Masayuki Hirano, Nathanael Mccurley, Peng Guo, Nicolas Rohner, Clifford J. Tabin, Paul Piccinelli, Greg Elgar, Magali Ruffier, Bronwen L. Aken, Stephen M.J. Searle, Matthieu Muffato, Miguel Pignatelli, Javier Herrero, Matthew Jones, C. Titus Brown, Yu-Wen Chung-Davidson, Kaben G. Nanlohy, Scot V. Libants, Chu-Yin Yeh, David W. Mccauley, James A. Langeland, Zeev Pancer, Bernd Fritzsch, Pieter J. De Jong, Baoli Zhu, Lucinda L Fulton, Brenda Theising, Paul Flicek, Marianne E. Bronner, Wesley C. Warren, Sandra W. Clifton, Richard K. Wilson, Weiming Li

Biology Faculty Publications

Lampreys are representatives of an ancient vertebrate lineage that diverged from our own ∼500 million years ago. By virtue of this deeply shared ancestry, the sea lamprey (P. marinus) genome is uniquely poised to provide insight into the ancestry of vertebrate genomes and the underlying principles of vertebrate biology. Here, we present the first lamprey whole-genome sequence and assembly. We note challenges faced owing to its high content of repetitive elements and GC bases, as well as the absence of broad-scale sequence information from closely related species. Analyses of the assembly indicate that two whole-genome duplications likely occurred …

Making And Marketing Hay For The Horse Industry, Todd Clark

Kentucky Alfalfa and Stored Forage Conference

No abstract provided.

Key To Success When Harvesting Alfalfa As Baleage, S. Ray Smith

Kentucky Alfalfa and Stored Forage Conference

Alfalfa is an excellent forage for high-producing cows and universally considered one of the highest-quality forages. Cows efficiently use the high levels of protein, calcium and high-quality fiber in alfalfa for producing milk and meat. The palatability of alfalfa is high, especially when the leaves are maintained during harvest. Typically, cows will eat more alfalfa than grass because the fiber content is usually lower in alfalfa. Harvesting alfalfa as baleage vs. hay greatly improves the chances maintaining high quality because there is less leaf loss and less loss of soluble carbohydrates. The most important factor is harvesting high quality alfalfa …

Alfalfa For Grazing, Garry D. Lacefield

Kentucky Alfalfa and Stored Forage Conference

High grain prices, increasing nitrogen prices, droughts, need for higher quality pasture plants and improved alfalfa varieties have all contributed to a greater interest in and opportunity for alfalfa as a grazing crop.

Deficiency In P38Β Mapk Fails To Inhibit Cytokine Production Or Protect Neurons Against Inflammatory Insult In In Vitro And In Vivo Mouse Models, Bin Xing, Adam D. Bachstetter, Linda J. Van Eldik

Sanders-Brown Center on Aging Faculty Publications

The p38 MAPK pathway plays a key role in regulating the production of proinflammatory cytokines, such as TNFα and IL-1β, in peripheral inflammatory disorders. There are four major isoforms of p38 MAPK (p38α, β, δ, γ), with p38α and p38β the targets of most p38 MAPK inhibitor drugs. Our previous studies demonstrated that the p38α MAPK isoform is an important contributor to stressor-induced proinflammatory cytokine up-regulation and neurotoxicity in the brain. However, the potential role of the p38β MAPK isoform in CNS proinflammatory cytokine overproduction and neurotoxicity is poorly understood. In the current studies, we used primary microglia from wild …

Understanding Your Organization's Culture: Fcs Facilitator's Guide, Janet Johnson, Kristina Hains

Community and Leadership Development

Effective leaders have a profound effect upon the culture of their organizations. Leaders hire and fire, determine policies and are organizational role models. All of these factors impact an organization's culture. Therefore, it is important that leaders understand the basics behind culture and how to influence it toward desired results.

Berry Preparation And Extracts, Russell J. Mumper, Jin Dai, Vincent S. Gallicchio

Pharmaceutical Sciences Faculty Patents

Compositions having antioxidant and anti-inflammatory activity, and methods for providing such compositions, are disclosed. In one aspect, the compositions are derived by exposing a berry to an acidic solvent composition, adding a cryoprotectant, and recovering a berry extract having a stabilized anthocyanin content. Compositions comprising the stabilized anthocyanin-containing berry extract, formulated for oral and/or topical administration, are provided also.

Wolbachia Association With The Tsetse Fly, Glossina Fuscipes Fuscipes, Reveals High Levels Of Genetic Diversity And Complex Evolutionary Dynamics, Rebecca E. Symula, Uzma Alam, Corey L. Brelsfoard, Yineng Wu, Richard Echodu, Loyce M. Okedi, Serap Aksoy, Adalgisa Caccone

Entomology Faculty Publications

BACKGROUND: Wolbachia pipientis, a diverse group of α-proteobacteria, can alter arthropod host reproduction and confer a reproductive advantage to Wolbachia-infected females (cytoplasmic incompatibility (CI)). This advantage can alter host population genetics because Wolbachia-infected females produce more offspring with their own mitochondrial DNA (mtDNA) haplotypes than uninfected females. Thus, these host haplotypes become common or fixed (selective sweep). Although simulations suggest that for a CI-mediated sweep to occur, there must be a transient phase with repeated initial infections of multiple individual hosts by different Wolbachia strains, this has not been observed empirically. Wolbachia has been found in the tsetse fly, Glossina …

Striatal Glutamate Release In L-Dopa-Induced Dyskinetic Animals, Nina Nevalainen, Martin Lundblad, Greg A. Gerhardt, Ingrid Strömberg

Neuroscience Faculty Publications

L-DOPA-induced dyskinesia is a common side effect developed after chronic treatment with 3,4-dihydroxyphenyl-l-alanine (l-DOPA) in Parkinson's disease. The biological mechanisms behind this side effect are not fully comprehended although involvement of dopaminergic, serotonergic, and glutamatergic systems has been suggested. The present study utilizes in vivo amperometry to investigate the impact from unilateral 6-hydroxydopamine lesions and l-DOPA (4 mg/kg, including benserazide 15 mg/kg) -induced dyskinetic behavior on striatal basal extracellular glutamate concentration and potassium-evoked glutamate release in urethane-anesthetized rats. Recordings were performed before and after local L-DOPA application in the striatum. In addition, effects from the 5-HT_1A receptor agonist (2R)-(+)-8-hydroxy-2-(di-n-propylamino)tetralin …

Forage News [2013-02], Department Of Plant And Soil Sciences, University Of Kentucky

Forage News

• 33rd Kentucky Alfalfa Conference
• Hay Contest Added at Alfalfa Conference
• Choose Clover Varieties Carefully
• Kentucky and Kentuckians Win at National Forage Conference
• Heart of America Grazing Conference
• Fertilizer: How much is in each Bale?
• Alfalfa Included in Wisconsin Crop Budget Cost Calculator
• Co-Grazing Beef Cattle and Goats in Kentucky
• U.S. Hay Cupboards Nearly Bare, Says USDA
• Comparison of Ergovaline Concentration in BarOptima Plus E34 Tall Fescue and Control Varieties
• Beware of Emotional Decisions

Block Copolymer Cross-Linked Nanoassemblies Improve Particle Stability And Biocompatibility Of Superparamagnetic Iron Oxide Nanoparticles, Mo Dan, Daniel F. Scott, Peter A. Hardy, Robert J. Wydra, J. Zach Hilt, Robert A. Yokel, Younsoo Bae

Pharmaceutical Sciences Faculty Publications

PURPOSE: To develop cross-linked nanoassemblies (CNAs) as carriers for superparamagnetic iron oxide nanoparticles (IONPs).

METHODS: Ferric and ferrous ions were co-precipitated inside core-shell type nanoparticles prepared by cross-linking poly(ethylene glycol)-poly(aspartate) block copolymers to prepare CNAs entrapping Fe(3)O(4) IONPs (CNA-IONPs). Particle stability and biocompatibility of CNA-IONPs were characterized in comparison to citrate-coated Fe(3)O(4) IONPs (Citrate-IONPs).

RESULTS: CNA-IONPs, approximately 30 nm in diameter, showed no precipitation in water, PBS, or a cell culture medium after 3 or 30 h, at 22, 37, and 43°C, and 1, 2.5, and 5 mg/mL, whereas Citrate-IONPs agglomerated rapidly (> 400 nm) in all …

Clobazam Therapeutic Drug Monitoring: A Comprehensive Review Of The Literature With Proposals To Improve Future Studies, Jose De Leon, Edoardo Spina, Francisco J. Diaz

Psychiatry Faculty Publications

Background: Clobazam was recently approved for Lennox–Gastaut syndrome in the United States. There is no published review article focused on clobazam therapeutic drug monitoring (TDM) in English.

Methods: More than 200 clobazam articles identified by a PubMed search were carefully reviewed for information on clobazam pharmacokinetics. Clobazam is mainly metabolized by a cytochrome P450 (CYP) isoenzyme, CYP3A4, to its active metabolite, N-desmethylclobazam. Then, N-desmethylclobazam is mainly metabolized by CYP2C19 unless the individual has no CYP2C19 activity [poor metabolizer (PM)].

Results: Using a mechanistic approach to reinterpret the published findings of steady-state TDM and single-dosing pharmacokinetic studies, 4 different serum clobazam …

Changes In Bacterial Growth Rate Govern Expression Of The Borrelia Burgdorferi Ospc And Erp Infection-Associated Surface Proteins, Brandon L. Jutras, Alicia M. Chenail, Brian Stevenson

Microbiology, Immunology, and Molecular Genetics Faculty Publications

The Lyme disease spirochete controls production of its OspC and Erp outer surface proteins, repressing protein synthesis during colonization of vector ticks but increasing expression when those ticks feed on vertebrate hosts. Early studies found that the synthesis of OspC and Erps can be stimulated in culture by shifting the temperature from 23°C to 34°C, leading to a hypothesis that Borrelia burgdorferi senses environmental temperature to determine its location in the tick-mammal infectious cycle. However, borreliae cultured at 34°C divide several times faster than do those cultured at 23°C. We developed methods that disassociate bacterial growth rate and temperature, allowing …

Genetic Diversity In The Modern Horse Illustrated From Genome-Wide Snp Data, Jessica L. Petersen, James R. Mickelson, E. Gus Cothran, Lisa S. Andersson, Jeanette Axelsson, Ernie Bailey, Danika Bannasch, Matthew M. Binns, Alexandre S. Borges, Pieter Brama, Artur Da Câmara Machado, Ottmar Distl, Michela Felicetti, Laura Fox-Clipsham, Kathryn T. Graves, Gérard Guérin, Bianca Haase, Telhisa Hasegawa, Karin Hemmann, Emmeline W. Hill, Tosso Leeb, Gabriella Lindgren, Hannes Lohi, Maria Susana Lopes, Beatrice A. Mcgivney, Sofia Mikko, Nicholas Orr, M. Cecilia T. Penedo, Richard J. Piercy, Marja Raekallio, Stefan Rieder, Knut H. Røed, Maurizio Silvestrelli, June Swinburne, Teruaki Tozaki, Mark Vaudin, Claire M. Wade, Molly E. Mccue

Veterinary Science Faculty Publications

Horses were domesticated from the Eurasian steppes 5,000-6,000 years ago. Since then, the use of horses for transportation, warfare, and agriculture, as well as selection for desired traits and fitness, has resulted in diverse populations distributed across the world, many of which have become or are in the process of becoming formally organized into closed, breeding populations (breeds). This report describes the use of a genome-wide set of autosomal SNPs and 814 horses from 36 breeds to provide the first detailed description of equine breed diversity. F(ST) calculations, parsimony, and distance analysis demonstrated relationships among the breeds that largely reflect …

Nanotubes As Mitochondrial Uncouplers, Patrick G. Sullivan

Neuroscience Faculty Patents

A method of uncoupling mitochondria in a subject including administering nanotubes to the subject in a therapeutically effective amount, wherein the nanotubes are self-rectifying is provided. A method of decreasing reactive oxygen species and decreasing detrimental loading of Ca²⁺ into mitochondria is provided, including administering a pharmaceutically effective amount of nanotubes into the subject. A method of reducing weight, treating cancer, reducing the effects of traumatic brain injury, or reducing the effects of ageing, in a subject including administering a pharmaceutically effective amount of nanotubes into the subject is also provided.

Nanotubes As Mitochondrial Uncouplers, Patrick G. Sullivan

Neuroscience Faculty Patents

A method of uncoupling mitochondria in a subject including administering nanotubes to the subject in a therapeutically effective amount, wherein the nanotubes are self-rectifying is provided. A method of decreasing reactive oxygen species and decreasing detrimental loading of Ca²⁺ into mitochondria is provided, including administering a pharmaceutically effective amount of nanotubes into the subject. A method of reducing weight, treating cancer, reducing the effects of traumatic brain injury, or reducing the effects of ageing, in a subject including administering a pharmaceutically effective amount of nanotubes into the subject is also provided.

Revisiting The Relationship Between Regenerative Ability And Aging, Ashley W. Seifert, S. Randal Voss

Biology Faculty Publications

Contrary to the longstanding view that newts (Notophthalamus viridescens), but not axolotls (Ambystoma mexicanum), can regenerate a lens, a recent report in BMC Biology by Panagiotis Tsonis and colleagues shows axolotls indeed possess this ability during early larval stages. In contrast, they show that zebrafish never posses this ability, even as embryos. This underscores the importance of comparing regenerative ability across species and reinforces the need to consider organ regeneration in the context of evolution, development, and aging.

Genome-Wide Analysis Reveals Selection For Important Traits In Domestic Horse Breeds, Jessica L. Petersen, James R. Mickelson, Aaron K. Rendahl, Stephanie J. Valberg, Lisa S. Andersson, Jeanette Axelsson, Ernie Bailey, Danika Bannasch, Matthew M. Binns, Alexandre S. Borges, Pieter Brama, Artur Da Câmara Machado, Stefano Capomaccio, Katia Cappelli, E. Gus Cothran, Ottmar Distl, Laura Fox-Clipsham, Kathryn T. Graves, Gérard Guérin, Bianca Haase, Telhisa Hasegawa, Karin Hemmann, Emmeline W. Hill, Tosso Leeb, Gabriella Lindgren, Hannes Lohi, Maria Susana Lopes, Beatrice A. Mcgivney, Sofia Mikko, Nicholas Orr, M. Cecilia T. Penedo, Richard J. Piercy, Marja Raekallio, Stefan Rieder, Knut H Røed, June Swinburne, Teruaki Tozaki, Mark Vaudin, Claire M. Wade, Molly E. Mccue

Veterinary Science Faculty Publications

Intense selective pressures applied over short evolutionary time have resulted in homogeneity within, but substantial variation among, horse breeds. Utilizing this population structure, 744 individuals from 33 breeds, and a 54,000 SNP genotyping array, breed-specific targets of selection were identified using an F(ST)-based statistic calculated in 500-kb windows across the genome. A 5.5-Mb region of ECA18, in which the myostatin (MSTN) gene was centered, contained the highest signature of selection in both the Paint and Quarter Horse. Gene sequencing and histological analysis of gluteal muscle biopsies showed a promoter variant and intronic SNP of MSTN were each significantly associated with …

Chimeric Isoprenoid Synthases And Uses Thereof, Joe Chappell, Kyoungwhan Back

Plant and Soil Sciences Faculty Patents

Provided is a chimeric isoprenoid synthase polypeptide including a first domain from a first isoprenoid synthase joined to a second domain from a second, heterologous, isoprenoid synthase, whereby the chimeric isoprenoid synthase is capable of catalyzing the production of isoprenoid reaction products that are not produced in the absence of the second domain of the second, heterologous, isoprenoid synthase. Also provided is a chimeric isoprenoid synthase polypeptide including an asymmetrically positioned heterologous domain, whereby the chimeric isoprenoid synthase is capable of catalyzing the production of isoprenoid reaction products that are not produced when the domain is positioned at its naturally-occurring …

"Beef: The Real Health Food", Peter Ballerstedt

Forage Symposium at the Kentucky Cattlemen’s Convention

The 2010 Dietary Guidelines for Americans recommends restricting our intake of saturated fat to less than 7 percent of calories, and our cholesterol intake to less than 300 mg per day (less than two eggs). They promote the use of low-fat milk and lean meat, and the use of “meat substitutes” in school lunches. These recommendations are consistent with the official dietary policy that began in 1977 with the release of the first Dietary Goals for the United States by the United States Senate Select Committee on Nutrition and Human Needs. These guidelines were not justified by the then-available science. …

Pasture Finishing Beef Opportunities In Kentucky, Greg S. Halich

Forage Symposium at the Kentucky Cattlemen’s Convention

Beef cattle were routinely finished locally in Kentucky before the 1950’s, primarily on pasture with some grain and by-products from distilleries. Cattle were typically born, raised, and finished on the same farm, sent to a local butcher, and the meat sold in nearby communities and cities. This all changed after the Second World War as grain and transportation costs decreased dramatically in conjunction with the establishment of supermarket chains that required a large, steady supply channel. The combined effect of these changes made finishing in large centralized locations more economical. Over the next couple of decades the finishing industry consolidated, …

Forages: Change-Challenges-Opportunities, Garry D. Lacefield

Forage Symposium at the Kentucky Cattlemen’s Convention

No abstract provided.

Foreword [2013], Garry D. Lacefield, Christi L. Forsythe

Forage Symposium at the Kentucky Cattlemen’s Convention

No abstract provided.

Assembly Of The Type Ii Secretion System Such As Found In Vibrio Cholerae Depends On The Novel Pilotin Asps, Rhys A. Dunstan, Eva Heinz, Lakshmi C. Wijeyewickrema, Robert N. Pike, Anthony W. Purcell, Timothy J. Evans, Judyta Praszkier, Roy M. Robins-Browne, Richard A. Strugnell, Konstantin V. Korotkov, Trevor Lithgow

Molecular and Cellular Biochemistry Faculty Publications

The Type II Secretion System (T2SS) is a molecular machine that drives the secretion of fully-folded protein substrates across the bacterial outer membrane. A key element in the machinery is the secretin: an integral, multimeric outer membrane protein that forms the secretion pore. We show that three distinct forms of T2SSs can be distinguished based on the sequence characteristics of their secretin pores. Detailed comparative analysis of two of these, the Klebsiella-type and Vibrio-type, showed them to be further distinguished by the pilotin that mediates their transport and assembly into the outer membrane. We have determined the crystal structure of …

Reference Gene Selection For Qrt-Pcr Analysis In The Sweetpotato Whitefly, Bemisia Tabaci (Hemiptera: Aleyrodidae), Rumei Li, Wen Xie, Shaoli Wang, Qingjun Wu, Nina Yang, Xin Yang, Huipeng Pan, Xiaomao Zhou, Lianyang Bai, Baoyun Xu, Xuguo Zhou, Youjun Zhang

Entomology Faculty Publications

BACKGROUND: Accurate evaluation of gene expression requires normalization relative to the expression of reliable reference genes. Expression levels of "classical" reference genes can differ, however, across experimental conditions. Although quantitative real-time PCR (qRT-PCR) has been used extensively to decipher gene function in the sweetpotato whitefly Bemisia tabaci, a world-wide pest in many agricultural systems, the stability of its reference genes has rarely been validated.

RESULTS: In this study, 15 candidate reference genes from B. tabaci were evaluated using two Excel-based algorithms geNorm and Normfinder under a diverse set of biotic and abiotic conditions. At least two reference genes were …

Gleevec, An Abl Family Inhibitor, Produces A Profound Change In Cell Shape And Migration, Zaozao Chen, Elizabeth Lessey, Matthew E. Berginski, Li Cao, Jonathan Li, Xavier Trepat, Michelle Itano, Shawn M. Gomez, Maryna Kapustina, Cai Huang, Keith Burridge, George Truskey, Ken Jacobson

Markey Cancer Center Faculty Publications

The issue of how contractility and adhesion are related to cell shape and migration pattern remains largely unresolved. In this paper we report that Gleevec (Imatinib), an Abl family kinase inhibitor, produces a profound change in the shape and migration of rat bladder tumor cells (NBTII) plated on collagen-coated substrates. Cells treated with Gleevec adopt a highly spread D-shape and migrate more rapidly with greater persistence. Accompanying this more spread state is an increase in integrin-mediated adhesion coupled with increases in the size and number of discrete adhesions. In addition, both total internal reflection fluorescence microscopy (TIRFM) and interference reflection …

Monitoring Dairy Cow Feed Intake Using Machine Vision, Anthony N. Shelley

Theses and Dissertations--Electrical and Computer Engineering

The health and productive output of dairy cows can be closely correlated to individual cow feed intake. Being able to monitor feed intake on a daily basis is beneficial dairy farm management. Each cow can be addressed individually with minimal time required from those working with the animals. This is essential as time management is closely tied to resource management in a dairy operation. Anything that can save time and resources and increase profitability and herd health is a paramount advantage in dairy farming. This study examined the use of machine vision structured light illumination three-dimensional scanning of cow feed …

Dollars And Horse Sense: Why Prudent Buyers And Sellers Should Account For Article 2 Of The Uniform Commercial Code In Their Equine Sales Contracts, Veronica J. Finkelstein

Kentucky Journal of Equine, Agriculture, & Natural Resources Law

No abstract provided.

From Shanghai To Huangbaiyu: Eco-Cities As An Alternative Modernity, Jared Flanery

Gaines Fellow Senior Theses

No abstract provided.

Thoroughbred Farm Managers' Willingness-To-Pay For Alternative Deworming Regimens In Horses, Marion Angélique Robert

Theses and Dissertations--Agricultural Economics

Parasite control is important to horse health and horse owners should feel highly concerned about the proper treatment of parasites. In the past 30 years, veterinary science has made important advances in treating parasites and provided new products and strategies to optimize treatment and prevention. However, horse owners and managers have been slow to adopt these new recommendations.

This study investigates why the transition has not occurred as expected. It examines issues related to the decision-making process of horse owners and managers as they relate to deworming strategies. In addition, it investigates current deworming approaches as well as attitudes towards …