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Helicobacter Pylori Hydrogenase Accessory Protein Hypa And Urease Accessory Protein Ureg Compete With Each Other For Uree Recognition, Stéphane L. Benoit, Jonathan L. Mcmurry, Stephanie A. Hill, Robert J. Maier

Faculty Articles

Background: The gastric pathogen Helicobacter pylori relies on nickel-containing urease and hydrogenase enzymes in order to colonize the host. Incorporation of Ni2+ into urease is essential for the function of the enzyme and requires the action of several accessory proteins, including the hydrogenase accessory proteins HypA and HypB and the urease accessory proteins UreE, UreF, UreG and UreH. Methods: Optical biosensing methods (biolayer interferometry and plasmon surface resonance) were used to screen for interactions between HypA, HypB, UreE and UreG. Results: Using both methods, affinity constants were found to be 5nM and 13nM for HypA–UreE and 8μM and 14μM for …

Monitoring Standing Herbage Of The Sands And Choppy Sands Ecological Vegetation Types In The Nebraska Sandhills, Daniel W. Uresk

Great Plains Research: A Journal of Natural and Social Sciences (through 2013)

A modified Robel pole with white and gray alternating bands (2.54 cm) was used to measure vegetation on sands and choppy sands ecological types in the Sandhills of Nebraska. Objectives were to determine the relationship between visual obstruction readings (VOR) and clipped standing herbage, develop guidelines for monitoring standing herbage, and provide sample size estimates. Visual obstruction measurements of standing herbage were linear, and regression coefficients were significant (P< 0.001) for 125 transects (R² = 0.60, SE = 496 kg/ha). Clipped standing herbage ranged from 293 to 4389 kg/ha with a mean of 1,559 kg/ha. A minimum of four transects (20 stations/transect with four …

Review Of Birds Of Southwestern Nebraska: An Annotated Check-List Of Species In The North And South Platte River Valleys And At Lake Mcconaughy. By Mary Bomberger Brown, Stephen J. Dinsmore, And Charles R. Brown., Wayne Mollhoff

Great Plains Research: A Journal of Natural and Social Sciences (through 2013)

Opening with a map of the region under study, Birds of Southwestern Nebraska proceeds, in its introduction, to a summary of the presettlement landscape and a description of the large-scale habitat changes occurring since then, along with avian responses to those changes. While crediting previous avian studies in southwestern Nebraska, often not readily available to the public, the authors note this area initially received little attention from ornithologists, who tended to focus on other biologically unique parts of the state, such as the Sandhills, forests, and Pine Ridge. The body of the book consists of a list of species reported …

Review Of The Midwestern Native Garden: Native Alternatives To Nonnative Flowers And Plants, An Illustrated Guide By Charlotte Adelman And Bernard L. Schwartz, Stephen L. Young

Great Plains Research: A Journal of Natural and Social Sciences (through 2013)

Native plants are important for maintaining biodiversity and supporting birds, mammals, and insects in a particular region. The interaction of plants with other organisms is what makes up food webs, and a shift in one will result in change in the other, change that is often detrimental to both. Invasive plant species, which include many nonnative types, can alter ecosystems with lasting effects on hydrology, nutrient cycling, and habitat. Similar to other regions, the Central Plains is increasingly threatened by the establishment of invasive plant species. The reintroduction of native plant species not only in large natural areas, but also …

Zooveillance: Foucault Goes To The Zoo, Irus Braverman

Journal Articles

The last three decades have witnessed a dramatic shift in the governance of North American zoo animals. During this period, captive animal administration has transformed from a materially, geographically, and technologically limited enterprise - focused on the control of individual zoo animals within specific institutions - into an ambitious collective project that encompasses all accredited North American zoos and that governs more than a million zoo animals. Tapping into a sophisticated voluntary and collaborative self-monitored administration, zoos have been able to rely upon genetics and demography to achieve the ultimate goal of captive animal conservation. This essay frames this story …

Seed Dimorphism, Nutrients And Salinity Differentially Affect Seed Traits Of The Desert Halophyte Suaeda Aralocaspica Via Multiple Maternal Effects, Lei Wang, Jerry M. Baskin, Carol C. Baskin, J. Hans C. Cornelissen, Ming Dong, Zhenying Huang

Biology Faculty Publications

BACKGROUND: Maternal effects may influence a range of seed traits simultaneously and are likely to be context-dependent. Disentangling the interactions of plant phenotype and growth environment on various seed traits is important for understanding regeneration and establishment of species in natural environments. Here, we used the seed-dimorphic plant Suaeda aralocaspica to test the hypothesis that seed traits are regulated by multiple maternal effects.

RESULTS: Plants grown from brown seeds had a higher brown:black seed ratio than plants from black seeds, and germination percentage of brown seeds was higher than that of black seeds under all conditions tested. However, the coefficient …

Heavy Metal Chemistry Of Sediments In Caves Of The Springfield Plateau, Missouri-Arkansas-Oklahoma: A Link To Subterranean Biodiversity, Travis M. Doughty, Aaron W. Johnson

The Compass: Earth Science Journal of Sigma Gamma Epsilon

We used X-ray fluorescence (XRF) to compare the heavy metal chemistry of sediments in caves in rural and urban areas to the chemistry of sediments from a control cave in a relatively undisturbed watershed in the Springfield (MO) Plateau. Sediment from Smallin Cave near Ozark, MO, the control cave, has the smallest peak sizes for Zn and Mn and a moderately-sized Pb peak. Sediment from the rural cave exhibited larger peaks of Zn and Mn and a smaller Pb peak. Sediment from the urban cave had the largest Zn, Mn and Pb peaks. Interestingly, smaller peak sizes appear to correlate …

Local Conditions, Not Regional Gradients, Drive Demographic Variation Of Giant Ragweed (Ambrosia Trifida) And Common Sunflower (Helianthus Annuus) Across Northern U.S. Maize Belt, Sam E. Wortman, Adam S. Davis, Brian J. Schutte, John L. Lindquist, John Cardina, Joel Felix, Christy L. Sparague, Anita Dille, Analiza H.M. Ramirez, Graig Reicks, Sharon A. Clay

Agronomy, Horticulture and Plant Science Faculty Publications

Knowledge of environmental factors influencing demography of weed species will improve understanding of current and future weed invasions. The objective of this study was to quantify regional-scale variation in vital rates of giant ragweed and common sunflower. To accomplish this objective, a common field experiment was conducted across seven sites between 2006 and 2008 throughout the north central U.S. maize belt. Demographic parameters of both weed species were measured in intra- and interspecific competitive environments, and environmental data were collected within site-years. Site was the strongest predictor of belowground vital rates (summer and winter seed survival and seedling recruitment), indicating …

Analysis Of A Genetic Isolate: The Case Of Carloforte (Italy), R. Robledo, L. Corrias, V. Bachis, N. Puddu, A. Mameli, G. Vona, C. M. Calò

Human Biology Open Access Pre-Prints

We reviewed data collected during several studies concerning the genetic isolate of Carloforte (Sardinia, Italy) and analyzed new data on Y-chromosome markers. Carloforte is also a language island, where people still speaks Tabarchino, an archaic form of Ligurian dialect. Demographic data indicate that, in the early years of its history, Carloforte population was characterized by a high degree of endogamy and consanguinity rates that started to decrease around 1850, when marriages with Sardinian people began to occur more frequently. Cultural factors, mainly language, account for the high endogamy. Genetic data from classical markers, mtDNA and Ychromosome markers confirmed the strong …

The Effect Of Acp1-Ada1 Genetic Interaction On Human Life Span, Nazzareno Lucarini, Valerio Napolioni, Andrea Magrini, Fulvia Gloria

Human Biology Open Access Pre-Prints

Acid phosphatase (ACP1) is a polymorphic enzyme which catalyzes the conversion of flavinmononucleotide (FMN) to riboflavin and regulates the cellular concentration of flavin-adeninedinucleotide (FAD) and, consequently, energy metabolism. Its activity is modulated by adenosine deaminase (ADA1) genotype. Aim of our work is to verify whether individuals with a high proportion of ACP1 f isozyme and carrying ADA*2 allele, displaying the highest phosphatase activity, may have a higher life expectancy. Genomic DNA was extracted from peripheral blood of 569 females and 509 males (18-106 years) randomly recruited from Central Italy. These samples were subdivided into three sexspecific age groups …

Extensive Population Structure In San, Khoe And Mixed Ancestry Populations From Southern Africa Revealed By 44 Short 5-Snp Haplotypes, Carina M. Schlebusch, Himla Soodyall

Human Biology Open Access Pre-Prints

The San and Khoe people currently represent remnant groups of a much larger and widely distributed population of hunter gatherers and pastoralists who had exclusive occupation of southern Africa before the arrival of Bantu-speaking groups in the past 1,200 years and sea-borne immigrants within the last 350 years. Genetic studies (mitochondrial DNA and Y-chromosome) conducted on San and Khoe groups revealed that they harbour some the most divergent lineages found in living peoples throughout the world. Recently, high-density autosomal SNP-array studies confirmed the early divergence of Khoe-San population groups from all other human populations. The present study made use of …

A Tale Of Two Haplotypes: The Eda2r/Ar Intergenic Region Is The Most Divergent Genomic Segment Between Africans And East Asians In The Human Genome, Amanda M. Casto, Brenna M. Henn, Jeffery M. Kidd, Carlos D. Bustamante, Marcus W. Feldman

Human Biology Open Access Pre-Prints

Single nucleotide polymorphisms (SNPs) with large allele frequency differences between human populations are relatively rare. The longest run of SNPs with an allele frequency difference of one between the Yoruba of Nigeria and the Han Chinese is found on the long arm of the X chromosome in the intergenic region separating the EDA2R and AR genes. It has been proposed that the unusual allele frequency distributions of these SNPs are the result of a selective sweep affecting African populations that occurred after the Out-of-Africa migration. To investigate the evolutionary history of the EDA2R/AR intergenic region, we characterized the haplotype structure …

"In Space" Or "As Space"?: A New Model, Charles H. Smith, Megan Derr

DLPS Faculty Publications

In this analysis natural systems are posed to subsystemize in a manner facilitating both structured information/energy sharing and an entropy maximization process projecting a three-dimensional, spatial, outcome. Numerical simulations were first carried out to determine whether n × n input-output matrices could, once entropymaximized, project a three-dimensional Euclidean metric. Only 4 × 4 matrices could; a small proportion passed the test. Larger proportions passed when grouped random patterns on and within two- and three-dimensional forms were tested. Topographical patterns within 31 stream basin systems in the state of Kentucky, USA, were then similarly investigated, anticipating that the spatial configuration of …

Prioritizing Key Resilience Indicators To Support Coral Reef Management In A Changing Climate, Tim R. Mcclanahan, Simon D. Donner, Jeffrey Allen Maynard, M. Aaron Macneil, Nicholas Anthony James Graham, Joseph M. Maina, Andrew C. Baker, Jahson Berhane Alemu I, Maria Beger, Robert Van Woesik

Ocean Engineering and Marine Sciences Faculty Publications

Managing coral reefs for resilience to climate change is a popular concept but has been difficult to implement because the empirical scientific evidence has either not been evaluated or is sometimes unsupportive of theory, which leads to uncertainty when considering methods and identifying priority reefs. We asked experts and reviewed the scientific literature for guidance on the multiple physical and biological factors that affect the ability of coral reefs to resist and recover from climate disturbance. Eleven key factors to inform decisions based on scaling scientific evidence and the achievability of quantifying the factors were identified. Factors important to resistance …

Differential Virus Host-Ranges Of The Fuselloviridae Of Hyperthermophilic Archaea: Implications For Evolution In Extreme Environments, Ruben M. Ceballos, Caleb D. Marceau, Joshua O. Marceau, Steven Morris, Adam J. Clore, Kenneth M. Stedman

Biology Faculty Publications and Presentations

An emerging model for investigating virus-host interactions in hyperthermophilic Archaea is the Fusellovirus-Sulfolobus system. The host, Sulfolobus, is a hyperthermophilic acidophile endemic to sulfuric hot springs worldwide. The Fuselloviruses, also known as Sulfolobus Spindle-shaped Viruses (SSVs), are "lemon" or "spindle"-shaped double-stranded DNA viruses, which are also found worldwide. Although a few studies have addressed the host-range for the type virus, Sulfolobus Spindle-shaped Virus 1 (SSV1), using common Sulfolobus strains, a comprehensive host-range study for SSV-Sulfolobus systems has not been performed. Herein, we examine six bona fide SSV strains (SSV1, SSV2, SSV3, SSVL1, SSVK1, SSVRH) and their respective infection characteristics on …

Differential Virus Host-Ranges Of The Fuselloviridae Of Hyperthermophilic Archaea: Implications For Evolution In Extreme Environments, Ruben Michael Ceballos, Caleb D. Marceau, Joshua O. Marceau, Steven Morris, Adam J. Clore, Kenneth M. Stedman

Biological Sciences Faculty Publications and Presentations

An emerging model for investigating virus-host interactions in hyperthermophilic Archaea is the Fusellovirus-Sulfolobus system. The host, Sulfolobus, is a hyperthermophilic acidophile endemic to sulfuric hot springs worldwide. The Fuselloviruses, also known as Sulfolobus Spindle-shaped Viruses (SSVs), are “lemon” or “spindle”-shaped double-stranded DNA viruses, which are also found worldwide. Although a few studies have addressed the host-range for the type virus, Sulfolobus Spindle-shaped Virus 1 (SSV1), using common Sulfolobus strains, a comprehensive host-range study for SSV-Sulfolobus systems has not been performed. Herein, we examine six bona fide SSV strains (SSV1, SSV2, SSV3, SSVL1, SSVK1, SSVRH) and their respective infection characteristics on …

Overview Of The 2010 Carbonaceous Aerosols And Radiative Effects Study (Cares), R. A. Zaveri, W. J. Shaw, D. J. Cziczo, B. Schmid, R. A. Ferrare, M. L. Alexander, M. Alexandrov, R. J. Alvarez, W. P. Arnott, D. B. Atkinson, S. Baidar, R. M. Banta, J. C. Barnard, J. Beranek, L. K. Berg, F. Brechtel, W. A. Brewer, J. F. Cahill, B. Cairns, C. D. Cappa, D. Chand, S. China, J. M. Comstock, M. K. Dubey, R. C. Easter, M. H. Erickson, J. D. Fast, C. Floerchinger, B. A. Flowers, E. Fortner, J. S. Gaffney, M. K. Gilles

Michigan Tech Publications, Part 1

Substantial uncertainties still exist in the scientific understanding of the possible interactions between urban and natural (biogenic) emissions in the production and transformation of atmospheric aerosol and the resulting impact on climate change. The US Department of Energy (DOE) Atmospheric Radiation Measurement (ARM) program's Carbonaceous Aerosol and Radiative Effects Study (CARES) carried out in June 2010 in Central Valley, California, was a comprehensive effort designed to improve this understanding. The primary objective of the field study was to investigate the evolution of secondary organic and black carbon aerosols and their climate-related properties in the Sacramento urban plume as it was …

Birds In Residential Metropolitan New Orleans Neighborhoods And Their Relationships To The Batture And Yard Vegetation, Ruth A. Guymon

LSU New Orleans Theses and Dissertations

Metropolitan New Orleans Neighborhoods were surveyed in order to determine how bird populations responded to distance from the batture, percent canopy cover, stem counts, and understory vegetation. Surveys were conducted in the spring and summer of 2010. It was found that batture birds, urban birds, and pooled birds all had greater species richness and abundance in the spring in areas with more canopy cover, higher stem counts, more understory vegetation, and distances closer to the batture. In the summer, batture birds had greater richness and abundance in areas with more canopy cover, higher stem counts, and more understory cover. This …

Ua66 Ogden College Of Science & Engineering Newsletter, Cheryl Stevens, Dean

Ogden College of Science & Engineering Publications

No abstract provided.

Microbial Degradation Of 2,4-Dichlorophenoxyacetic Acid On The Greenland Ice Sheet, Marek Stibal, Jacob Baelum, William E. Holben, Sebastian R. Sørensen, Anders Jensen, Carsten S. Jacobsen

Biological Sciences Faculty Publications

The Greenland ice sheet (GrIS) receives organic carbon (OC) of anthropogenic origin, including pesticides, from the atmosphere and/or local sources, and the fate of these compounds in the ice is currently unknown. The ability of supraglacial heterotrophic microbes to mineralize different types of OC is likely a significant factor determining the fate of anthropogenic OC on the ice sheet. Here we determine the potential of the microbial community from the surface of the GrIS to mineralize the widely used herbicide 2,4-dichlorophenoxyacetic acid (2,4-D). Surface ice cores were collected and incubated for up to 529 days in microcosms simulating in situ …

Effects Of Meloidogyne Incognita, Soil Physical Parameters, And Thielaviopsis Basicola On Cotton Root Architecture And Plant Growth, Jianbing Ma

Graduate Theses and Dissertations

The root-knot nematode, Meloidogyne incognita, and the seedling pathogen, Thielaviopsis basicola, commonly co-exist in Arkansas cotton fields and may interact resulting in increased losses. The primary objective of this research was to evaluate the effects of soil physical parameters on these soilborne pathogens and cotton growth in controlled environmental, field, and microplot studies. Controlled environmental experiments used two soil bulk densities and four pathogen treatments: non-infested soil, soil infested with M. incognita or T. basicola and soil infested with both pathogens. The results indicated bulk density generally did not affect seedling growth or disease since soils had low penetration resistance …

Continental-Scale Characterization Of Molecular Variation In Quaking Aspen, Colin M. Callahan

All Graduate Theses and Dissertations, Spring 1920 to Summer 2023

Quaking aspen has the largest natural distribution of any tree native to North America, ranging from Alaska through the breadth of Canada and south to mid-Mexico. Recent studies suggest a general decline of aspen throughout much of the range since at least the mid-20th century, though these findings remain inconclusive. Regardless, factors such as climate change, periods of drought, soil nutrient deficiencies, pathogens, insects, and encroachment by other tree species all pose risks to the health and maintenance of aspen across the continent. This situation is exemplified in the western United States where climate change is forecasted to have an …

The Crayfish (Decapoda: Cambaridae) Subgenus Hiaticambarus: Undescribed Diversity And Life History Characteristics Of Selected Members, Danny Jones

All Dissertations

A taxonomic study of the crayfish species Cambarus (Hiaticambarus) longirostris was conducted. Multivariate and univariate statistical analyses of morphometric data and examination of morphological characters revealed the existence of four undescribed species from populations previously considered to belong to C. longirostris; these were located on the southern extents of the range of C. longirostris. Three of these new species were morphologically similar to the group of species containing C. coosawattae, C. chasmodactylus, C. elkensis, C. longirostris, C. longulus, and C. manningi, while one was morphologically similar to the C. fasciatus, C. …

Paternal Lineage Analysis Supports An Armenian Rather Than A Central Asian Genetic Origin Of The Hamshenis, Ashot Margaryan, Ashot Harutyunyan, Zaruhi Khachatryan, Armine Khudoyan, Levon Yepiskoposyan

Human Biology Open Access Pre-Prints

The Hamshenis are an isolated geographic group of Armenians with a strong ethnic identity who, until the early decades of the twentieth century, inhabited the Pontus area on the southern coast of the Black Sea. Scholars hold alternative views on their origin, proposing eastern Armenia, western Armenia and Central Asia, respectively, as their most likely homeland. To ascertain whether genetic data from the non-recombining portion of the Y chromosome is supportive any of these suggestions, we screened 82 Armenian males of the Hamsheni descent for 12 biallelic and 6 microsatellite Y-chromosomal markers. These data were compared with the corresponding datasets …

Growing A Sustainable Portland Metropolitan Foodshed, Sheila Martin, Kathryn Doherty-Chapman, Robert Wise, Steve Foust, Kirsten Greene, Ellie Fiore, Ellen Wyoming, Clark Seavert, Rebecca Sullivan, Beth Emshoff, Anita Yap, Elise Scolnik, Bob Short

Institute of Metropolitan Studies Publications

Project Description and Objectives: Western Sustainable Agriculture Research and Education (SARE) provided funding for this study to examine key agricultural trends, identify producer needs and define strategies to strengthen the local food production system. The goals of the study are to: Define the Portland Metropolitan Foodshed; identify related agricultural and economic trends and develop a needs assessment based on input from producers and other stakeholders; assemble a regional toolkit of strategies to support evolution of a sustainable Portland Metropolitan Foodshed; work with the City of Damascus, Oregon to test the toolkit on a local level; Develop a research and educational …

Food Environment And Childhood Obesity, Yucong Jiao

Graduate Theses and Dissertations

This thesis examines whether children's food environment, especially food stores that have fresh produce, affects obesity prevalence among elementary school children in the state of Arkansas. Misclassified food outlet types in the Dun and Bradstreet commercial data set were first corrected and then food environment measures were computed and aggregated to geographic regions corresponding to school attendance areas. After applying classical panel estimation, it was found that the fixed effects model fit the data best. Results indicate that an additional supermarket within a one-mile radial of the census neighborhood block center will bring down childhood obesity prevalence by 0.58 percent, …

Evaluating Macrobenthic Indicators Of Organic Enrichment And Hypoxia Within The Coastal Mississippi Hypoxic Zone, Daneen P. Menke

Master's Theses

Macrobenthic communities offer effective indicators of biotic integrity, but their use for distinguishing anthropogenic from natural stress is tricky because coastal taxa are eurytolerant. Effective coastal management calls for benthic indicators that respond to specific stressors, apply across different habitats, and reflect ecosystem function. Macrobenthic process metrics based on body-size descriptors should reflect ecosystem function and be useful for assessing the effects of eutrophication. Functional trait analysis should reflect the functional diversity of the community. Coastal Mississippi experienced widespread and sustained hypoxia throughout summer 2008. Site 6 located on the 10-m isobath in the center of the 2008 hypoxic zone …

Guardians Of The Countryside Public Choice Theory And The Farm Lobby In The Eu's Common Agricultural Policy, Amy J. Costa

Graduate Program in International Studies Theses & Dissertations

Through various waves of reform, the European Union's Common Agricultural Policy remains inefficient without meeting all of its stated goals. The MacSherry reforms of 1992 resulted in the opposite of what leaders intended: higher spending and a growing bureaucracy. Later in the 1990s, Agenda 2000 slashed its originally planned cutbacks after farmers protested. Though support exists for reducing spending on agriculture, market intervention remains.

This thesis explores the problem through the use of public choice theory. -Consumers make too large a group to organize effectively or inform themselves about the issue, while farmers consist of a smaller group with well-defined …

Superfund Evaluation: The Families Of Tar Creek, Gary D. Wilson

Graduate Theses and Dissertations

The Tar Creek Superfund Site is located in far northeastern Oklahoma near the Oklahoma/Kansas border in Ottawa County. The Site generally consists of a forty-square-mile area which is also part of the larger Tri-State Mining District that includes areas of Kansas and Missouri. The Site includes parts of five communities: Picher, Cardin, Quapaw, North Miami, and Commerce in Oklahoma. It also includes Treece, Kansas, and affects a total population of roughly 30,000 residents. Following Superfund designation, families in the Tar Creek area had to decide whether to accept or reject buy-out offers. This project explored the decision-making processes employed by …

Stoneflies Of Unusual Size: Population Genetics And Systematics Within Pteronarcyidae (Plecoptera), John S. Sproul

Theses and Dissertations

Chapter 1. The family Pteronarcyidae (Plecoptera) is a highly studied group of stoneflies and very important to a wide variety of aquatic studies. Several phylogenies have been proposed for this group recent decades, however there is little congruence between the various topologies. The present study revises the phylogeny of the group by combining molecular data from mitochondrial cytochrome oxidase subunit II, ribosomal subunit 12S, ribosomal subunit 16S, and nuclear loci ribosomal subinit 18S and Histone H3, with published morphological data in a parsimony-based total evidence analysis. The analysis produced a well-supported phylogeny with novel relationships within the genus Pteronarcys. …