Life Sciences Commons^™

Cluster K Mycobacteriophages: Insights Into The Evolutionary Origins Of Mycobacteriophage Tm4, Welkin H. Pope, Christina M. Ferreira, Deborah Jacobs-Sera, Robert C. Benjamin

University Faculty Publications and Creative Works

Five newly isolated mycobacteriophages -Angelica, CrimD, Adephagia, Anaya, and Pixie - have similar genomic architectures to mycobacteriophage TM4, a previously characterized phage that is widely used in mycobacterial genetics. The nucleotide sequence similarities warrant grouping these into Cluster K, with subdivision into three subclusters: K1, K2, and K3. Although the overall genome architectures of these phages are similar, TM4 appears to have lost at least two segments of its genome, a central region containing the integration apparatus, and a segment at the right end. This suggests that TM4 is a recent derivative of a temperate parent, resolving a long-standing conundrum …

Maternal, Neonatal And Feeding Type Factors Associated With Severity Of Necrotizing Enterocolitis, Cheryl Ann Miner

Theses and Dissertations

Objective: To identify statistical associations with necrotizing enterocolitis (NEC) severity as dichotomized into cases with Bell stage II and III disease.
Study Design: We conducted a retrospective study using eight consecutive years of data from a multihospital healthcare system analyzed NEC severity (Bell stage II vs. III).
Results: We identified 220 neonates with stage ≥ II who had 225 separate episodes of NEC (157 stage II and 68 stage III). Those with stage III were born at earlier gestational age (P<0.0001) and lower birth weight (P<0.0001). Diagnosis of NEC occurred on about the same day of life in stage II and stage III cases. Those who developed stage III had significantly higher C-reactive protein (P<0.0001), I/T ratio (P= 0.0005), mean platelet volume (MPV) (P= 0.0001) and lower pH (P<0.0001) and platelet counts (P<0.0001). Transfusions were more common to those who progressed to stage III (P<0.0001). Regression analysis indicated higher odds of stage III in relationship to the volume of RBC transfusions (OR 2.41, {CI 1.85 to 3.11}, P<0.0001) and pasteurized human milk (PHM) (OR 1.32, {CI 1.07 to 1.62}, P = 0.0089). In contrast, feeding early mother's own milk (colostrum) for five days reduced the odds for stage III (OR 0.802, {CI 0.67 to 0.96}, P=0.0170). Those with small bowel resection were less likely to have received mother's own milk before NEC (OR 0.94, {CI 0.89 to 0.99}, P = 0.019) and factors predicting death from NEC were a low pH (OR 2.21, {CI 1.27 to 3.85}, P = 0.0005) and less colostrum (OR 0.96, {CI 0.94 to 0.99}, P = 0.003).
Conclusions: RBC transfusions and PHM increased the odds for stage III NEC, whereas early mother's own milk five days …

A New Genus And Species Of North American Robsonomyiini (Diptera: Sciaroidea: Keroplatidae: Macrocerinae) From The Florida Keys, Edward I. Coher

Insecta Mundi

A second genus and species of Nearctic keroplatid fungus gnats (Diptera: Sciaroidea: Keroplatidae: Macrocerinae) attributed to the tribe Robsonomyiini is described: Calusamyia hribari Coher, n. gen., n. sp.. The relationship of this fly from the Florida Keys with Asian genera and species and the single Nearctic described form of the robsonomyiines is briefly discussed.

Improvement Of Farmers' Incomes Through Improved Processing Of Sorghum And Millets In West Africa, Ababacar Sadikh N'Doye, Bruce Hamaker, Roy L. Whistler

INTSORMIL Presentations

Purdue University and ITA are very active in the USAID INTSORMIL CRSP Program for promoting the production and the consumption of millet and sorghum in West Africa. Countries involved in this program are : Burkina Faso, Mali, Niger, Nigeria and Sénégal.

Market-oriented objectives of the INTSORMIL Program on millet and sorghum in West Africa:

Objective 1: Increase the supply of high quality grain through the introduction of new production technologies at the farmer level in West Africa.

Objective 2: Contribute to the development of the processing sector through technologies improvement , more effective technology transfer to processors, and better links …

Sex Differences In Mechanisms And Outcome Of Neonatal Hypoxia-Ischemia In Rodent Models: Implications For Sex-Specific Neuroprotection In Clinical Neonatal Practice, Courtney A. Hill, Roslyn Holly Fitch

Open Access Author Fund Awardees' Articles

Clinical findings show that male infants with hypoxic-ischemic injury (HI) fare more poorly than matched females on cognitive outcomes. Rodent models of neonatal hypoxia-ischemia support this difference, with data showing that perinatal brain injury leads to long-term behavioral deficits primarily in male rodents and in female rodents treated with early androgens. Results support the idea that sex-specific gonadal hormones may modulate developmental response to injury and dovetail with overwhelming evidence of developmental androgen effects on typical brain morphology and behavior. However, mechanisms underlying sex differences in response to early brain injury may be more complicated. Specifically, activation of cell death …

Evolution Of Spur-Length Diversity In Aquilegia Petals Is Achieved Solely Through Cell-Shape Anisotropy, Joshua R. Puzey, Sharon J. Gerbode, Scott A. Hodges, Elena M. Kramer, L. Mahadevan

All HMC Faculty Publications and Research

The role of petal spurs and specialized pollinator interactions has been studied since Darwin. Aquilegia petal spurs exhibit striking size and shape diversity, correlated with specialized pollinators ranging from bees to hawkmoths in a textbook example of adaptive radiation. Despite the evolutionary significance of spur length, remarkably little is known about Aquilegia spur morphogenesis and its evolution. Using experimental measurements, both at tissue and cellular levels, combined with numerical modelling, we have investigated the relative roles of cell divisions and cell shape in determining the morphology of the Aquilegia petal spur. Contrary to decades-old hypotheses implicating a discrete meristematic zone …

Mitochondrial Dna Analysis By Denaturing High-Performance Liquid Chromatography For The Characterization And Separation Of Mixtures In Forensic Samples, Richard Kristinsson

Electronic Theses and Dissertations

A mixture of different mtDNA molecules in a single sample is a significant obstacle to the successful use of standard methods of mtDNA analysis (i.e., dideoxy dye-terminator sequencing). Forensic analysts often encounter either naturally occurring mixtures (e.g., heteroplasmy) or situational mixtures typically arising from a combination of body fluids from separate individuals. The ability to accurately resolve and interpret these types of samples in a timely and cost efficient manner would substantially increase the power of mtDNA analysis and potentially provide valuable investigative information by allowing its use in cases where the current approach is limited or fails. Therefore, this …

Kentucky Warbler (Vol. 87, No. 4), Kentucky Library Research Collections

The Kentucky Warbler

No abstract provided.

Harnessing Opportunities In Non-Animal Asthma Research For A 21st-Century Science, Gemma L. Buckland

Experimentation Collection

The incidence of asthma is on the increase and calls for research are growing, yet asthma is a disease that scientists are still trying to come to grips with. Asthma research has relied heavily on animal use; however, in light of increasingly robust in vitro and computational models and the need to more fully incorporate the ‘Three Rs’ principles of Replacement, Reduction and Refinement, is it time to reassess the asthma research paradigm? Progress in non-animal research techniques is reaching a level where commitment and integration are necessary. Many scientists believe that progress in this field rests on linking disciplines …

The Evolution Of Lateralized Foot Use In Parrots: A Phylogenetic Approach, Culum Brown, Maria Magat

Sentience Collection

Cerebral lateralization refers to the division of cognitive function in either brain hemisphere and may be overtly expressed as behavioral asymmetries, such as handedness. The evolutionary history of laterality is of considerable interest due to its close link with the development of human language. Although considerable research effort has aimed at the proximate explanations of cerebral lateralization, considerably less attention has been paid to ultimate explanations. The extent to which laterality is constrained by phylogeny or shaped by ecological forces through natural selection has received little attention. Here, the foot preference of 23 species of Australian parrots was examined to …

Four Types Of Activities That Affect Animals: Implications For Animal Welfare Science And Animal Ethics Philosophy, D. Fraser, A. M. Macrae

Ethnozoology and Animal Welfare Collection

People affect animals through four broad types of activity: (1) people keep companion, farm, laboratory and captive wild animals, often while using them for some purpose; (2) people cause deliberate harm to animals through activities such as slaughter, pest control, hunting, and toxicology testing; (3) people cause direct but unintended harm to animals through crop production, transportation, night-time lighting, and many other human activities; and (4) people harm animals indirectly by disturbing ecological systems and the processes of nature, for example by destroying habitat, introducing foreign species, and causing pollution and climate change. Each type of activity affects vast numbers …

Nutrition Risk Factors Among Home Delivered And Congregate Meal Participants: Need For Enhancement Of Nutrition Education And Counseling Among Home Delivered Meal Participants, Shahla Wunderlich, Yeon Bai, J. Piemonte

Department of Nutrition and Food Studies Scholarship and Creative Works

Objective: The short-term impact of nutrition education and counseling intervention on nutrition risk factors among home delivered (HDM) and congregate (CGM) meal participants using Nutrition Survey Risk Screening was studied. Design: A two-year intervention was conducted with 355 participants (n=259 CGM, n=96 HDM). Various nutrition behaviors that affect the nutrition risk score were compared. Setting: Congregate and home delivered meal locations in a northern county of New Jersey. Participants: CGM and HDM participants in a northern county of New Jersey age 60 and older. Intervention: CGM participants received regular topical nutrition education and counseling in a classroom format with cooking …

Parasite Infection And Sand Coarseness Increase Sand Crab (Emerita Analoga) Burrowing Time, Gita R. Kolluru, Zachary S. Green, Larisa K. Vredevoe, Matthew R. Kuzma, Sera N. Ramadan, Marc R. Zosky

Biological Sciences

Parasites with indirect life cycles require trophic transmission from intermediate hosts to definitive (vertebrate) hosts. Transmission may be facilitated if parasite infection alters the behavior of intermediate hosts such that they are more vulnerable to predation. Vulnerability to predation may also be influenced by abiotic factors; however, rarely are the effects of parasites and abiotic factors examined simultaneously. The swash zone of sandy beaches is a particularly harsh environment. Sand crabs (Emerita analoga) burrow rapidly in the swash zone to avoid predators and dislodgment. We examined prevalence and abundance of the acanthocephalan parasite Profilicollis altmani in sand crabs, …

Climate Change, Body Size, And Phenotype Dependent Dispersal, Shannon J. Mccauley, Karen E. Mabry

Biological Sciences

No abstract provided.

Ecosystem Based Fisheries Management Case Study Report West Coast Bioregion, Warrick J. Fletcher, Jennifer Shaw, Daniel J. Gaughan, Sarah J. Metcalf

Fisheries Research Reports

This report documents the outcomes of the Western Australian Marine Science Institution (WAMSI) funded study to examine the costs and benefits of using a bioregional level, Ecosystem Based Fisheries Management (EBFM) approach. The West Coast Bioregion of Western Australia was selected as a case study and the outputs from the use of the draft national EBFM framework were critically examined to determine whether such an approach would result in more efficient and effective management of fisheries. In addition, this report examined whether this EBFM framework provided better linkages between management bodies, allowing broader marine management covering all activities and relevant …

Blue Swimmer Crab Resource Of South-West Western Australia Harvest Strategy 2020-2025 Draft, Department Of Primary Industries And Regional Development

Fisheries Management Papers

No abstract provided.

Spatial Distribution Of Shore-Based Fishers In The Greater Perth Metropolitan Area Over Summer 2010/2011, Claire B. Smallwood, Emily A. Fisher, Brent S. Wise, Daniel J. Gaughan

Fisheries Research Reports

Aerial surveys are a useful technique for estimating numbers of recreational fishers. Following the success of a pilot study to examine the spatial patterns of recreational shore-based fishing activity in the Perth Metropolitan area from April – June 2010, another survey was conducted from December 2010 – February 2011 between Lancelin – Bunbury. More than 7,000 shorebased fishers were counted during 36 aerial flights, with significantly more recorded on morning and afternoon flights, when compared to those conducted at midday. Flights on weekends/public holidays also recorded more fishers than weekdays. The spatial distribution of fishers was variable along the coast, …

Genetics Of Coxiella Burnetii: On The Path Of Specialization, Michael F. Minnick, Rahul Raghavan

Biological Sciences Faculty Publications

Coxiella burnetii is an extremely infectious, zoonotic agent that causes Q fever in humans. With the exception of New Zealand, the bacterium is distributed worldwide. Coxiella is classified as a select agent based on its past and potential use as a bioweapon and its threat to public health. Despite decades of research, we know relatively little regarding Coxiella?s molecular pathogenesis, and a vaccine is not widely available. This article briefly reviews the unusual genetics of C. burnetii; a pathogen that retains telltale genetic mementos collected over the course of its evolutionary path from a free-living bacterium to an obligate intracellular …

A Taxonomic Revision Of The New World Genus Oropodes Casey (Coleoptera, Staphylinidae, Pselaphinae), Michael S. Caterino, Donald S. Chandler

Publications

The genus Oropodes is characterized and revised with 18 species being treated. Members of this genus are found in temperate forests to desert brush lands from Oregon to Baja California, but are associated primarily with dry forests and shrub lands of California. Keys to males and Females, where known, are provided. Seven species are redescribed: O. arcaps (California), O. dybasi (Oregon), O. ishii (California), O. nuclere (California), O. orbiceps (California), O. rumseyensis (California), O. yollabolly (California). The name Oropodes raffrayi (California) is raised from synonymy and the species is redescribed, stat. n. Ten new species are described: O. aalbui (California), …

Localisation To Lipid Rafts Correlates With Increased Function Of The Gal/Galnac Lectin In The Human Protozoan Parasite, Entamoeba Histolytica, Brenda H. Welter

Publications

Entamoeba histolytica is the causative agent of dysentery and liver abscess and is prevalent in developing countries. Adhesion to the host is critical to infection and is mediated by amoebic surface receptors. One such receptor, the Gal/GalNAc lectin, binds to galactose or N-acetylgalactosamine residues on host components and consists of heavy (Hgl), light (Lgl) and intermediate (Igl) subunits. The mechanism by which the lectin assembles into a functional complex is not known. The parasite also relies on cholesterol-rich domains (lipid rafts) for adhesion. Therefore, it is conceivable that rafts regulate the assembly or function of the lectin. To test …

Competencies.Pdf, Winston Anderson

Department of Biology Faculty Publications

IN 2009, THE ASSOCIATION OF AMERICAN Medical Colleges (AAMC), in collaboration with the Howard Hughes Medical Institute (HHMI), reviewed the educational prerequisites for admission to medical school in the United States. Because a large fraction of undergraduate students enroll in science courses to meet the requirements for admission to medical school, courses satisfying these requirements dominate the undergraduate science curriculum. The prescribed course structure has impeded educational innovation, particularly the development of new, multidisciplinary courses. To address this situation, the AAMCHHMI report (1) recommends that scientific competencies replace specific courses as requirements for medical school admissions.

Working Trees: Living Snow Fence, An Agroforestry Practice

Working Trees (USDA-NAC)

Living snow fence, an agroforestry practice

With action similar to scattered rocks in a stream, living snow fences create eddy effects that alter wind speed and direction, causing snow to settle in designated areas, protecting roadways, structures, livestock and wildlife.

Field Ecology Patterns Of High Latitude Coral Communities, Kristi A. Foster

HCNSO Student Theses and Dissertations

Some climate models predict that, within the next 30-50 years, sea surface temperatures (SSTs) will frequently exceed the current thermal tolerance of corals (Fitt et al. 2001; Hughes et al. 2003; Hoegh-Guldberg et al. 2007). A potential consequence is that mass coral bleaching may take place (i) during warm El Niño-Southern Oscillation (ENSO) events which are predicted to occur in some regions more frequently than the current 3-7 year periodicity (Hoegh-Guldberg 1999; Sheppard 2003) or (ii) perhaps as often as annually or biannually if corals and their symbionts are unable to acclimate to the higher SSTs (Donner et al. 2005, …

Zap1 Control Of Cell-Cell Signaling In Candida Albicans Biofilms, Shantanu Ganguly, Andrew C. Bishop, Wenjie Xu, Suman Ghosh, Kenneth W. Nickerson, Frederick Lanni, Jana Patton-Vogt, Aaron P. Mitchell

Kenneth Nickerson Papers

Biofilms of Candida albicans include both yeast cells and hyphae. Prior studies indicated that a zap1/ mutant, defective in zinc regulator Zap1, has increased accumulation of yeast cells in biofilms. This altered yeast-hypha balance may arise from internal regulatory alterations or from an effect on the production of diffusible quorum-sensing (QS) molecules. Here, we develop biosensor reporter strains that express yeastspecific YWP1-RFP or hypha-specific HWP1-RFP, along with a constitutive TDH3-GFP normalization standard. Seeding these biosensor strains into biofilms allows a biological activity assay of the surrounding biofilm milieu. A zap1/ biofilm induces the yeast-specific YWP1-RFP reporter in a wild-type …

Forage News [2011-11], Department Of Plant And Soil Sciences, University Of Kentucky

Forage News

• Brent White is Kentucky Forage Spokesman
• KFGC Presents Awards
• KFGC Nominating Committee Report
• AFGC Coming to Louisville
• Forages at KCA
• Selling & Shipping Hay to Texas and Other Southern Tier States
• Hay Production Changes in Kentucky
• Climate Change Effects on Forage Quality of Kentucky Hay Fields
• Be Alert to Health Risks When Grazing Turnips

Does The Cycad Genotoxin Mam Implicated In Guam Als-Pdc Induce Disease-Relevant Changes In Mouse Brain That Includes Olfaction?, Glen Kisby, Valerie Palmer, Mike Lasarev, Rebecca Fry, Mihail Iordanov, Eli Magun, Leona Samson, Peter Spencer

CUP Faculty Research

Western Pacific amyotrophic lateral sclerosis (ALS) and parkinsonism-dementia complex (PDC), a prototypical neurodegenerative disease (tauopathy) affecting distinct genetic groups with common exposure to neurotoxic chemicals in cycad seed, has many features of Parkinson's and Alzheimer's diseases (AD), including early olfactory dysfunction. Guam ALS-PDC incidence correlates with cycad flour content of cycasin and its aglycone methylazoxymethanol (MAM), which produces persistent DNA damage (O⁶-methylguanine) in the brains of mice lacking O⁶-methylguanine methyltransferase (Mgmt^-/-). We described in Mgmt^-/-mice up to 7 days post-MAM treatment that brain DNA damage was linked to brain gene …

Molecular Characterization Of The Host Defense Activity Of The Barrier To Autointegration Factor Against Vaccinia Virus, Nouhou Ibrahim, April Wicklund, Matthew S. Wiebe

Nebraska Center for Virology: Faculty Publications

The barrier to autointegration factor (BAF) is an essential cellular protein with functions in mitotic nuclear reassembly, retroviral preintegration complex stability, and transcriptional regulation. Molecular properties of BAF include the ability to bind double-stranded DNA in a sequence-independent manner, homodimerize, and bind proteins containing a LEM domain. These capabilities allow BAF to compact DNA and assemble higher-order nucleoprotein complexes, the nature of which is poorly understood. Recently, it was revealed that BAF also acts as a potent host defense against poxviral DNA replication in the cytoplasm. Here, we extend these observations by examining the molecular mechanism through which BAF acts …

Species D Adenoviruses As Oncolytics Against B-Cell Cancers, Christopher Y. Chen, Julien S. Senac, Eric A. Weaver, Shannon M. May, Diane F. Jelinek, Philip Greipp, Thomas Witzig, Michael A. Barry

Nebraska Center for Virology: Faculty Publications

Purpose: Oncolytic viruses are self-amplifying anticancer agents that make use of the natural ability of viruses to kill cells. Adenovirus serotype 5 (Ad5) has been extensively tested against solid cancers, but less so against B-cell cancers because these cells do not generally express the coxsackie and adenoviral receptor (CAR). To determine whether other adenoviruses might have better potency, we "mined" the adenovirus virome of 55 serotypes for viruses that could kill B-cell cancers.

Experimental Design: Fifteen adenoviruses selected to represent Ad species B, C, D, E, and F were tested in vitro against cell lines and primary patient B-cell cancers …

Molecular Systematics Of The Middle American Genus Hypopachus (Anura: Microhylidae), Eli Greenbaum, Eric N. Smith, Rafael O. De Sá

Biology Faculty Publications

We present the first phylogenetic study on the widespread Middle American microhylid frog genus Hypopachus. Partial sequences of mitochondrial (12S and 16S ribosomal RNA) and nuclear (rhodopsin) genes (1275 bp total) were analyzed from 43 samples of Hypopachus, three currently recognized species of Gastrophryne, and seven arthroleptid, brevicipitid and microhylid outgroup taxa. Maximum parsimony (PAUP), maximum likelihood (RAxML) and Bayesian inference (MrBayes) optimality criteria were used for phylogenetic analyses, and BEAST was used to estimate divergence dates of major clades. Population-level analyses were conducted with the programs NETWORK and Arlequin. Results confirm the placement of Hypopachus …

Boron Stress Activates The General Amino Acid Control Mechanism And Inhibits Protein Synthesis, Irem Uluisik, Alaattin Kaya, Dmitri E. Fomenko, Huseyin C. Karakaya, Bradley A. Carlson, Vadim N. Gladyshev, Ahmet Koc

Department of Biochemistry: Faculty Publications

Boron is an essential micronutrient for plants, and it is beneficial for animals. However, at high concentrations boron is toxic to cells although the mechanism of this toxicity is not known. Atr1 has recently been identified as a boron efflux pump whose expression is upregulated in response to boron treatment. Here, we found that the expression of ATR1 is associated with expression of genes involved in amino acid biosynthesis. These mechanisms are strictly controlled by the transcription factor Gcn4 in response to boron treatment. Further analyses have shown that boron impaired protein synthesis by promoting phosphorylation of eIF2α in a …