Life Sciences Commons^™

Mining The Arabidopsis Thaliana Genome For Highly-Divergent Seven Transmembrane Receptors, Etsuko N. Moriyama, Pooja K. Strope, Stephen O. Opiyo, Zhongying Chen, Alan M. Jones

School of Biological Sciences: Faculty Publications

To identify divergent seven-transmembrane receptor (7TMR) candidates from the Arabidopsis thaliana genome, multiple protein classification methods were combined, including both alignmentbased and alignment-free classifiers. This resolved problems in optimally training individual classifiers using limited and divergent samples, and increased stringency for candidate proteins. We identified 394 proteins as 7TMR candidates and highlighted 54 with corresponding expression patterns for further investigation.

Comparison Of Heat Tolerance Of Feedlot Heifers Of Different Breeds, Tami M. Brown-Brandl, John A. Nienaber, Roger A. Eigenberg, Terry L. Mader, J.L. Morrow, J.W. Dailey

Department of Animal Science: Faculty Publications

Heat stress in cattle causes decreases in feed intake and feed efficiency; in extreme cases, it can cause death. These losses amount to millions of dollars each year. A study was designed to determine severity of heat stress among four breeds of cattle. Throughout two summers, 256 feedlot heifers of four different breeds were observed. Respiration rates, panting scores, and surface temperatures were taken twice each day on 10 animals/breed for several weeks during the summers of 2002 and 2003. Twenty-four-hour behavior measurements were recorded for four heat-stress and four thermoneutral days. Results showed during the afternoon, Angus cattle (black) …

The Role Of Mapks In B Cell Receptor-Induced Down-Regulation Of Egr-1 In Immature B Lymphoma Cells, Jiyuan Ke, Murali Gururajan, Anupam Kumar, Alan Simmons, Lilia Turcios, Ralph Lakshman Chelvarajan, David M. Cohen, David L. Wiest, John G. Monroe, Subbarao Bondada

Microbiology, Immunology, and Molecular Genetics Faculty Publications

Cross-linking of the B cell receptor (BCR) on the immature B lymphoma cell line BKS-2 induces growth inhibition and apoptosis accompanied by rapid down-regulation of the immediate-early gene egr-1. In these lymphoma cells, egr-1 is expressed constitutively and has a prosurvival role, as Egr-1-specific antisense oligonucleotides or expression of a dominant-negative inhibitor of Egr-1 also prevented the growth of BKS-2 cells. Moreover, enhancement of Egr-1 protein with phorbol 12-myristate 13-acetate or an egr-1 expression vector rescued BKS-2 cells from BCR signal-induced growth inhibition. Nuclear run-on and mRNA stability assays indicated that BCR-derived signals act at the transcriptional level to …

Heat Stress Risk Factors Of Feedlot Heifers, Tami M. Brown-Brandl, Roger A. Eigenberg, John A. Nienaber

United States Department of Agriculture-Agricultural Research Service / University of Nebraska-Lincoln: Faculty Publications

Heat stress in cattle results in millions of dollars in lost revenue each year due to production losses, and in extreme cases, death. Death losses are more likely to result from animals vulnerable to heat stress. A study was conducted to determine risk factors for heat stress in feedlot heifers. Over two consecutive summers, a total of 256 feedlot heifers (32/ breed/ year) of four breeds were observed. As a measure of stress, respiration rates and panting scores were taken twice daily (morning and afternoon) on a random sample of 10 heifers/ breed. Weights, condition scores, and temperament scores were …

The Generation And Function Of Soluble Apoe Receptors In The Cns, G. William Rebeck, Mary Jo Ladu, Steven Estus, Guojun Bu, Edwin J. Weeber

Physiology Faculty Publications

More than a decade has passed since apolipoprotein E4 (APOE-epsilon4) was identified as a primary risk factor for Alzheimer 's disease (AD), yet researchers are even now struggling to understand how the apolipoprotein system integrates into the puzzle of AD etiology. The specific pathological actions of apoE4, methods of modulating apolipoprotein E4-associated risk, and possible roles of apoE in normal synaptic function are still being debated. These critical questions will never be fully answered without a complete understanding of the life cycle of the apolipoprotein receptors that mediate the uptake, signaling, and degradation of apoE. The present review will focus …

Comparison Of Heat Tolerance Of Feedlot Heifers Of Different Breeds, T. M. Brown-Brandl, J. A. Nienaber, Roger A. Eigenberg, Terry L. Mader, J. L. Morrow, J. W. Dailey

United States Department of Agriculture-Agricultural Research Service / University of Nebraska-Lincoln: Faculty Publications

Heat stress in cattle causes decreases in feed intake and feed efficiency; in extreme cases, it can cause death. These losses amount to millions of dollars each year. A study was designed to determine severity of heat stress among four breeds of cattle. Throughout two summers, 256 feedlot heifers of four different breeds were observed. Respiration rates, panting scores, and surface temperatures were taken twice each day on 10 animals/breed for several weeks during the summers of 2002 and 2003. Twenty-four-hour behavior measurements were recorded for four heat-stress and four thermoneutral days. Results showed during the afternoon, Angus cattle (black) …

A Grid-Based Infrastructure For Ecological Forecasting Of Rice Land Anopheles Arabiensis Aquatic Larval Habitats, Benjamin G. Jacob, Ephantus J. Muturi, Jose E. Funes, Josephat I. Shililu, John I. Githure, Ibulaimu I. Kakoma, Robert J. Novak

All Peer-Reviewed Publications

Background: For remote identification of mosquito habitats the first step is often to construct a discrete tessellation of the region. In applications where complex geometries do not need to be represented such as urban habitats, regular orthogonal grids are constructed in GIS and overlaid on satellite images. However, rice land vector mosquito aquatic habitats are rarely uniform in space or character. An orthogonal grid overlaid on satellite data of rice-land areas may fail to capture physical or man-made structures, i.e paddies, canals, berms at these habitats. Unlike an orthogonal grid, digitizing each habitat converts a polygon into a grid cell, …

Heat Stress Risk Factors Of Feedlot Heifers, T. M. Brown-Brandl, Roger A. Eigenberg, J. A. Nienaber

United States Department of Agriculture-Agricultural Research Service / University of Nebraska-Lincoln: Faculty Publications

Heat stress in cattle results in millions of dollars in lost revenue each year due to production losses, and in extreme cases, death. Death losses are more likely to result from animals vulnerable to heat stress. A study was conducted to determine risk factors for heat stress in feedlot heifers. Over two consecutive summers, a total of 256 feedlot heifers (32/ breed/ year) of four breeds were observed. As a measure of stress, respiration rates and panting scores were taken twice daily (morning and afternoon) on a random sample of 10 heifers/ breed. Weights, condition scores, and temperament scores were …

Periodic Boundary Condition Induced Breakdown Of The Equipartition Principle And Other Kinetic Effects Of Finite Sample Size In Classical Hard-Sphere Molecular Dynamics Simulation, Randall B. Shirts, Scott R. Burt, Aaron M. Johnson

Faculty Publications

We examine consequences of the non-Boltzmann nature of probability distributions for one-particle kinetic energy, momentum, and velocity for finite systems of classical hard spheres with constant total energy and nonidentical masses. By comparing two cases, reflecting walls (NVE or microcanonical ensemble) and periodic boundaries (NVEPG or molecular dynamics ensemble), we describe three consequences of the center-of-mass constraint in periodic boundary conditions: the equipartition theorem no longer holds for unequal masses, the ratio of the average relative velocity to the average velocity is increased by a factor of [N/(N–1)]^1/2, and the ratio of average collision energy to average kinetic energy is …

Smokejumper Obituary: Handrich, Willard D. (Missoula 1945), National Smokejumper Association

Smokejumper Obituaries

No abstract provided.

Dynamic Evolution Of Selenocysteine Utilization In Bacteria: A Balance Between Selenoprotein Loss And Evolution Of Selenocysteine From Redox Active Cysteine Residues, Yan Zhang, Hector Romero, Gustavo Salinas, Vadim Gladyshev

Vadim Gladyshev Publications

Background: Selenocysteine (Sec) is co-translationally inserted into protein in response to UGA codons. It occurs in oxidoreductase active sites and often is catalytically superior to cysteine (Cys). However, Sec is used very selectively in proteins and organisms. The wide distribution of Sec and its restricted use have not been explained.
Results: We conducted comparative genomics and phylogenetic analyses to examine dynamics of Sec decoding in bacteria at both selenium utilization trait and selenoproteome levels. These searches revealed that 21.5% of sequenced bacteria utilize Sec, their selenoproteomes have 1 to 31 selenoproteins, and selenoprotein-rich organisms are mostly Deltaproteobacteria or Firmicutes/ Clostridia …

Late Holocene Lake-Level Fluctuations In Walker Lake, Nevada, Usa, Fasong Yuan, Braddock K. Linsley, Stephen S. Howe, Steve P. Lund, John P. Mcgeehin

Biological, Geological, and Environmental Faculty Publications

alker Lake, a hydrologically closed, saline, and alkaline lake, is situated along the western margin of the Great Basin in Nevada of the western United States. Analyses of the magnetic susceptibility (χ), total inorganic carbon (TIC), and oxygen isotopic composition (δ¹⁸O) of carbonate sediments including ostracode shells (Limnocythere ceriotuberosa) from Walker Lake allow us to extend the sediment record of lake-level fluctuations back to 2700 years B.P. There are approximately five major stages over the course of the late Holocene hydrologic evolution in Walker Lake: an early lowstand (> 2400 years B.P.), a lake-filling …

A Lake Restoration Plan For Furman Lake, Lake Restoration Task Force, Wade Worthen, Wes Dripps

Furman Lake Restoration Book Gallery

A twelve page document submitted by The Lake Restoration Task Force. The document lists the members of the task force, gives an overview of the project, the current status at the time of submission, lays out a new vision for the lake, and a plan to improve the environmental integrity of the lake watershed, plus design elements to create a multi-purpose facility. It concludes with a section on the lake as pedagogy and recommendations for moving forward with the master plan.

Adherens Junction-Associated Protein Distribution Differs In Smooth Muscle Tissue And Acutely Isolated Cells, Thomas J. Eddinger, Jessen D. Schiebout, Darl R. Swartz

Biological Sciences Faculty Research and Publications

This study was designed to examine how smooth muscle (SM) cell (SMC) isolation affects the distribution of some adherens junction (AJ) complex-associated proteins. Immunofluorescence procedures for identifying protein distribution were used on gastrointestinal and tracheal SM tissues and freshly isolated SMCs from dogs and rabbits. As confirmed by force measurements, relaxation, Ca²⁺ depletion, and cholinergic activation of SM tissues do not cause significant redistribution of the AJ-associated proteins vinculin, talin, or fibronectin away from the plasma membrane. Unlike SMCs in tissue, freshly isolated SMCs show a variable peripheral/ cytoplasmic vinculin and talin distribution that is not altered by activation. …

Analysis And Functional Annotation Of Expressed Sequence Tags From The Fall Armyworm Spodoptera Frugiperda, Youping Deng, Yinghua Dong, Venkata Thodima, Rollie J. Clem, A. Lorena Passareli

Faculty Publications

Background

Little is known about the genome sequences of lepidopteran insects, although this group of insects has been studied extensively in the fields of endocrinology, development, immunity, and pathogen-host interactions. In addition, cell lines derived from Spodoptera frugiperda and other lepidopteran insects are routinely used for baculovirus foreign gene expression. This study reports the results of an expressed sequence tag (EST) sequencing project in cells from the lepidopteran insect S. frugiperda, the fall armyworm.

Results

We have constructed an EST database using two cDNA libraries from the S. frugiperda-derived cell line, SF-21. The database consists of 2,367 ESTs …

Comparative Sensitivity Of Freshwater Algae To Atrazine, C. K. Lockert, Kyle D. Hoagland, Blair D. Siegfried

Department of Entomology: Faculty Publications

Widespread use of environmentally persistent herbicides has led to increasing concern over their impact on aquatic ecosystems and nontarget organisms. The triazine herbicide atrazine (6-chloro-N-ethyl-N ¹1-[1-methylethyl]-1,3,5-triazine-2,4- diamine) remains one of the most heavily used pesticides worldwide, and was the second most commonly used conventional pesticide in the U.S. agricultural market in 2001. Atrazine is an S-triazine herbicide that targets the photosynthetic process to control broadleaf weeds. Due to the moderate solubility (33 mg/L at 22°C) and relative persistence of atrazine in water (Solomon et al. 1996), contamination of surface waters as a result of non-point source …

Dictyostelium Myosin-Ie Is A Fast Molecular Motor Involved In Phagocytosis, Ulrike Durrwang, Setsuko Fujita-Becker, Muriel Erent, F. Jon Kull

Dartmouth Scholarship

Class I myosins are single-headed motor proteins, implicated in various motile processes including organelle translocation, ion-channel gating, and cytoskeleton reorganization. Here we describe the cellular localization of myosin-IE and its role in the phagocytic uptake of solid particles and cells. A complete analysis of the kinetic and motor properties of Dictyostelium discoideum myosin-IE was achieved by the use of motor domain constructs with artificial lever arms. Class I myosins belonging to subclass IC like myosin-IE are thought to be tuned for tension maintenance or stress sensing. In contrast to this prediction, our results show myosin-IE to be a fast motor. …

Neuromechanics Of Multifunctionality During Rejection In Aplysia Californica, Hui Ye, Douglas W. Morton, Hillel J. Chiel

Faculty Scholarship

How are the same muscles and neurons used to generate qualitatively different behaviors? We studied this question by analyzing the biomechanical and neural mechanisms of rejection responses in the marine mollusk Aplysia californica and compared these mechanisms with those used to generate swallowing responses (Ye et al., 2006). During rejection, the central grasper of the feeding structure closes to push inedible food out of the buccal cavity. This contrasts with swallowing, during which the grasper is open as it moves toward the jaws (protracts). We examined how the shape change of the grasper during rejection mechanically reconfigured the surrounding musculature. …

Smokejumper Obituary: Shier, Neil T. (Cave Junction 1946), National Smokejumper Association

Smokejumper Obituaries

No abstract provided.

Microbial Content Of Abattoir Wastewater And Its Contaminated Soil In Lagos, Nigeria, A. O. Adesemoye, B. O. Opere, S. C. O. Makinde

Department of Plant Pathology: Faculty Publications

Microbial content of wastewater in two abattoirs and the impact on microbial population of receiving soil was studied in Agege and Ojo Local Government Areas in Lagos State, Nigeria. Wastewater samples were collected from each of the abattoirs over three months period and examined for microbial content. Soil samples contaminated with the wastewaters were also collected and analyzed for microbial content as compared to soil without wastewater contamination in the neighborhood (control). Some physico-chemical parameters of the samples such as total dissolved solid, chemical oxygen demand, etc., were examined. The wastewater samples from both abattoirs were highly contaminated; Agege abattoir …

African-American Mitochondrial Dnas Often Match Mtdnas Found In Multiple African Ethnic Groups, Bert Ely, Jamie Lee Wilson, Fatimah Jackson, Bruce A. Jackson

Faculty Publications

Mitochondrial DNA (mtDNA) haplotypes have become popular tools for tracing maternal ancestry, and several companies offer this service to the general public. Numerous studies have demonstrated that human mtDNA haplotypes can be used with confidence to identify the continent where the haplotype originated. Ideally, mtDNA haplotypes could also be used to identify a particular country or ethnic group from which the maternal ancestor emanated. However, the geographic distribution of mtDNA haplotypes is greatly influenced by the movement of both individuals and population groups. Consequently, common mtDNA haplotypes are shared among multiple ethnic groups. We have studied the distribution of mtDNA …

Exploration Of Distributional Models For A Novel Intensity-Dependent Normalization , Nicola Lama, Patrizia Boracchi, Elia Mario Biganzoli

COBRA Preprint Series

Currently used gene intensity-dependent normalization methods, based on regression smoothing techniques, usually approach the two problems of location bias detrending and data re-scaling without taking into account the censoring characteristic of certain gene expressions produced by experiment measurement constraints or by previous normalization steps. Moreover, the bias vs variance balance control of normalization procedures is not often discussed but left to the user's experience. Here an approximate maximum likelihood procedure to fit a model smoothing the dependences of log-fold gene expression differences on average gene intensities is presented. Central tendency and scaling factor were modeled by means of B-splines smoothing …

Essential Elements Of A Defense-Review Of Dna Testing Results, Dan E. Krane

Biological Sciences Faculty Publications

No abstract provided.

Single Molecule Detection Systems And Methods, John G. K. Williams, Gregory R. Bashford

Biomedical Imaging and Biosignal Analysis Laboratory

A micofluidic system is provided that includes a substrate, a first microchannel disposed in the substrate for providing a reactant to a reaction zone, a second microchannel disposed in the substrate, the third microchannel providing fluid communication between the first and second microchannels. The system also typically includes first and second electrodes, positioned at opposite ends of the second microchannel, for providing an electric field within the second microchannel. In operation, when the reactant is in the reaction zone, a reaction product is produced having a net electric charge different from the electric of the reactant.

Smokejumper Obituary: Durland, Donald M. (Missoula 1947), National Smokejumper Association

Smokejumper Obituaries

No abstract provided.

Meeting Minutes, October 7th, 2006, National Smokejumper Association Board Of Directors

National Smokejumper Association Meeting Minutes

Agenda: Minutes of the Previous Meeting.; Treasurer's Report.; Annual Fund.; Investment Fund Status.; Trails Report.; Reunion Update.; Merchandising Program.; New Smokejumper Video.; Bozeman Watch Company.; Left Hand brewing Company.; Life Membership Update.; History Program.; NCSB Reunion.; National Smokejumper Center (WYS).; Forest Service Reunion.; Succession: Next NSA President and First Vice President.; 2007 Meetings.; E-mail voting by the Board of Directors.;

Red Rock Desert Learning Center Stakeholder Phasing Meeting: October 5, 2006, Red Rock Desert Learning Center

Reports (RRLC)

• Our goals for this meeting

• What does phasing offer us?

• Possible phasing scenados

• Where do we go from here?

• Other business regarding RRDLC

Microfabrication And Evaluation Of Planar Thin-Film Microfluidic Devices, Bridget Ann Peeni

Theses and Dissertations

Over the past 15 years, research in the field of microfluidics has rapidly gained popularity. By seeking to miniaturize and automate separation-based analysis, microfluidic research seeks to improve current methods through decreased cost, analysis time, and sources of contamination. My work has focused on developing a novel fabrication method, based on standard microfabrication techniques, to create thin-film microfluidic devices. This microfabrication format makes it possible to generate devices that provide high efficiencies, enable mass fabrication, and provide a platform capable of integrating the microfluidic and electronic components necessary for a micro-total analysis system (μ-TAS). Device fabrication combines the processes of …

Genetic Characterization And Diversity Of Rathayibacter Toxicus, Irina V. Agarkova, A. K. Vidaver, E. N. Postnikova, I. T. Riley, N. W. Schaad

Department of Plant Pathology: Faculty Publications

Rathayibacter toxicus is a nematode-vectored gram-positive bacterium responsible for a gumming disease of grasses and production of a highly potent animal and human toxin that is often fatal to livestock and has a history of occurring in unexpected circumstances. DNA of 22 strains of R. toxicus from Australia were characterized using amplified fragment length polymorphism (AFLP) and pulsed-field gel electrophoresis (PFGE). AFLP analysis grouped the 22 strains into three genetic clusters that correspond to their geographic origin. The mean similarity between the three clusters was 85 to 86%. PFGE analysis generated three different banding patterns that enabled typing the strains …

Distance-Based Genome Rearrangement Phylogeny, Li-San Wang, Tandy Warnow, Bernard M.E. Moret, Robert K. Jansen, Linda A. Raubeson

All Faculty Scholarship for the College of the Sciences

Evolution operates on whole genomes through direct rearrangements of genes, such as inversions, transpositions, and inverted transpositions, as well as through operations, such as duplications, losses, and transfers, that also affect the gene content of the genomes. Because these events are rare relative to nucleotide substitutions, gene order data offer the possibility of resolving ancient branches in the tree of life; the combination of gene order data with sequence data also has the potential to provide more robust phylogenetic reconstructions, since each can elucidate evolution at different time scales. Distance corrections greatly improve the accuracy of phylogeny reconstructions from DNA …