Digital Commons Network^™

Evolutionary History And Phylodynamics Of Influenza A And B Neuraminidase (Na) Genes Inferred From Large- Scale Sequence Analyses, Jianpeng Xu, C. Todd Davis, Mary C. Christman, Pierre Rivailler, Haizhen Zhong, Ruben O. Donis, Guoqing Lu

Biology Faculty Publications

Background: Influenza neuraminidase (NA) is an important surface glycoprotein and plays a vital role in viral replication and drug development. The NA is found in influenza A and B viruses, with nine subtypes classified in influenza A. The complete knowledge of influenza NA evolutionary history and phylodynamics, although critical for the prevention and control of influenza epidemics and pandemics, remains lacking.

Methodology/Principal findings: Evolutionary and phylogenetic analyses of influenza NA sequences using Maximum Likelihood and Bayesian MCMC methods demonstrated that the divergence of influenza viruses into types A and B occurred earlier than the divergence of influenza A …

Quantitative Reasoning And Sustainability, Corrine H. Taylor

Numeracy

Quantitative Reasoning and Sustainability have much in common. Both are complex, nuanced concepts with rather long definitions that have evolved over time. Both subjects are “everybody’s business” on college campuses, and must be approached in courses across the curriculum, not merely in one course on QR or in one course on Sustainability. The growing, wider presence of both QR and Sustainability on college campuses is due to their applicability in individuals’ personal, professional, and public lives. Moreover, QR and Sustainability support and enhance each other in and out of the classroom. Sustainability is an important, authentic, relevant context for lessons …

Diversification And Conservation In The South American Dry Biomes: Distribution Modeling And Multilocus Lizard Phylogeography, Fernanda Werneck

Theses and Dissertations

The understanding of diversification of intraspecific lineages can shed light on speciation processes and ultimately biogeographic patterns across multiple spatial and temporal scales. In this dissertation I investigated the geographical and ecological factors promoting diversification across the South American dry diagonal biomes (i.e. Cerrado, Chaco, and Seasonally Dry Tropical Forests - SDTFs), through a coupled approach between multilocus phylogeographic and geospatial methods, in the larger context of interpreting the consequences of the resulting patterns for the conservation of biodiversity and evolutionary processes. In Chapter 1 I evaluate biogeographic hypotheses previously proposed and emphasize that the dry diagonal biomes are particularly …

Insect Succession On Pig Carrion In North-Central Mississippi, J. Goddard, D. Fleming, J. L. Seltzer, S. Anderson, C. Chesnut, M. Cook, E. L. Davis, B. Lyle, S. Miller, E. A. Sansevere, W. Schubert

Midsouth Entomologist

A freshly-euthanized 90 kg Yucatan mini pig, Sus scrofa domesticus, was placed outdoors on 21 March 2012, at the Mississippi State University South Farm and two teams of students from the Forensic Entomology class were assigned to take daily (weekends excluded) environmental measurements and insect collections at each stage of decomposition until the end of the semester (42 days). Assessment of data from the pig revealed a successional pattern similar to that previously published – fresh, bloat, active decay, and advanced decay stages (the pig specimen never fully entered a dry stage before the semester ended). Over 2,300 immature and …

Weed Risk Assessment For Aquatic Plants: Modification Of A New Zealand System For The United States, Doria R. Gordon, Crysta A. Gantz, Christopher L. Jerde, W Lindsay Chadderton, Reuben P. Keller, Paul D. Champion

School of Environmental Sustainability: Faculty Publications and Other Works

We tested the accuracy of an invasive aquatic plant risk assessment system in the United States that we modified from a system originally developed by New Zealand’s Biosecurity Program. The US system is comprised of 38 questions that address biological, historical, and environmental tolerance traits. Values associated with each response are summed to produce a total score for each species that indicates its risk of invasion. To calibrate and test this risk assessment, we identified 39 aquatic plant species that are major invaders in the continental US, 31 species that have naturalized but have no documented impacts (minor invaders), and …

Life Cycle Boundaries And Greenhouse Gas Emissions From Beef Cattle, Quentin M. Dudley

Department of Agricultural and Biological Systems Engineering: Dissertations, Theses, and Student Research

Beef cattle are estimated to directly contribute 26% of U.S. agricultural greenhouse gas (GHG) emissions, and future climate change policy may target reducing these emissions. Life cycle assessment (LCA) of GHG emissions from U.S. feedlot beef cattle was conducted to compare methods of the U.S. Environmental Protection Agency (EPA) with a more complete evaluation of emissions. The inclusion of emissions from crop production for feed, associated land use change, and other minor factors nearly doubled GHG emissions associated with beef feedlots from the EPA Annual Inventory estimate of 1611 kgCO₂e hd^-1 yr^-1 to 3182 ± 167 …

Seasonal Photoperiods Alter Developmental Time And Mass Of An Invasive Mosquito, Aedes Albopictus (Diptera: Culicidae), Across Its North-South Range In The United States, Steven A. Juliano, Donald A. Yee, Steven M. Vamosi

Faculty Publications – Biological Sciences

The Asian tiger mosquito, Aedes albopictus (Skuse), is perhaps the most successful invasive mosquito species in contemporary history. In the United States, Ae. albopictus has spread from its introduction point in southern Texas to as far north as New Jersey (i.e., a span of approximate to 14 degrees latitude). This species experiences seasonal constraints in activity because of cold temperatures in winter in the northern United States, but is active year-round in the south. We performed a laboratory experiment to examine how life-history traits of Ae. albopictus from four populations (New Jersey [39.4 degrees N], Virginia [38.6 degrees N], North …

Multilevel Analysis Of Physical Activity Among Us Adults Across Us Census Regions: The Role Of Environmental Contexts, Sariyamon Tiraphat

Health Services Research Dissertations

This study uses nationally representative data to explain the variation in physical activity among U.S. adults across four geographic regions of Northeast, Midwest, South, and West. The purpose of the study is to investigate whether environmental conditions inclusive of natural amenity, built environment, urbanization, crime, and social economic neighborhood are associated with physical activity and whether these associations are modified by geographic region. The study also investigates whether the influences of environmental contexts vary by subgroup and whether they are modified by geographic region. Determining regional factors that influence physical activity is essential to planning appropriate physical activity interventions.

The …

Environmental Flows Recommendations Report. Final Submission To The Environmental Flows Advisory Group, Rio Grande, Rio Grande Estuary, And Lower Laguna Madre Basin And Bay Stakeholders Committee, And Texas Commission On Environmental Quality, Hudson R. Deyoe, David Buzan, Jude A. Benavides, Carlos Marin, R. J. Edwards, W. Pulich Jr.

School of Integrative Biological & Chemical Sciences (Formerly Dept. of Biology)

No abstract provided.

Repeated Origin And Loss Of Adhesive Toepads In Geckos, Tony Gamble, Eli Greenbaum, Todd R. Jackman, Anthony P. Russell, Aaron M. Bauer

Biological Sciences Faculty Research and Publications

Geckos are well known for their extraordinary clinging abilities and many species easily scale vertical or even inverted surfaces. This ability is enabled by a complex digital adhesive mechanism (adhesive toepads) that employs van der Waals based adhesion, augmented by frictional forces. Numerous morphological traits and behaviors have evolved to facilitate deployment of the adhesive mechanism, maximize adhesive force and enable release from the substrate. The complex digital morphologies that result allow geckos to interact with their environment in a novel fashion quite differently from most other lizards. Details of toepad morphology suggest multiple gains and losses of the adhesive …

Effects Of Prescribed Fire On Ozark Ant Ecology, Robin Michelle Verble

Theses and Dissertations

Fires are among the most conspicuous disturbances affecting leaf litter communities, and are sources of both direct and indirect insect mortality. Fires historically occurred on the Ozark landscape at high frequencies, and modern forest managers utilize prescribed fire to restore and maintain those ecosystems. I examined fire effects at multiple scales, ranging from post-fire patterns in leaf litter arthropod community structure to responses of individual organisms to heat stress. This dissertation summarizes the history of fire occurrences in Ozark forests of Arkansas. It then unifies the results of four observational and experimental studies designed to assess how Ozark forest ant …

Two Boundaries Separate Borrelia Burgdorferi Populations In North America, Gabriele Margos, Jean I. Tsao, Santiago Castillo-Ramirez, Yvette A. Girard, Anne G. Hoen

Dartmouth Scholarship

Understanding the spread of infectious diseases is crucial for implementing effective control measures. For this, it is important to obtain information on the contemporary population structure of a disease agent and to infer the evolutionary processes that may have shaped it. Here, we investigate on a continental scale the population structure of Borrelia burgdorferi, the causative agent of Lyme borreliosis (LB), a tick-borne disease, in North America. We test the hypothesis that the observed d population structure is congruent with recent population expansions and that these were preceded by bottlenecks mostly likely caused by the near extirpation in the 1900s …

Phylogeny And Biogeography Of The Carnivorous Plant Family Sarraceniaceae, Aaron M. Ellison, Elena D. Butler, Emily Jean Hicks, Robert F. C. Naczi, Patrick J. Calie, Charles D. Bell, Charles C. Davis

Regulatory Services Faculty Publications

The carnivorous plant family Sarraceniaceae comprises three genera of wetland-inhabiting pitcher plants: Darlingtonia in the northwestern United States, Sarracenia in eastern North America, and Heliamphora in northern South America. Hypotheses concerning the biogeographic history leading to this unusual disjunct distribution are controversial, in part because genus- and species-level phylogenies have not been clearly resolved. Here, we present a robust, species-rich phylogeny of Sarraceniaceae based on seven mitochondrial, nuclear, and plastid loci, which we use to illuminate this family's phylogenetic and biogeographic history. The family and genera are monophyletic: Darlingtonia is sister to a clade consisting of Heliamphora+Sarracenia. Within Sarracenia, two …

Dramatic Shifts In Benthic Microbial Eukaryote Communities Following The Deepwater Horizon Oil Spill, Holly M. Bik, Kenneth M. Halanych, Jyotsna Sharma, W. Kelley Thomas

Hubbard Center for Genome Studies (HCGS)

Benthic habitats harbour a significant (yet unexplored) diversity of microscopic eukaryote taxa, including metazoan phyla, protists, algae and fungi. These groups are thought to underpin ecosystem functioning across diverse marine environments. Coastal marine habitats in the Gulf of Mexico experienced visible, heavy impacts following the Deepwater Horizon oil spill in 2010, yet our scant knowledge of prior eukaryotic biodiversity has precluded a thorough assessment of this disturbance. Using a marker gene and morphological approach, we present an intensive evaluation of microbial eukaryote communities prior to and following oiling around heavily impacted shorelines. Our results show significant changes in community structure, …

Human Impact On Atolls Leads To Coral Loss And Community Homogenisation: A Modeling Study, Bernhard Riegl, Charles R. C. Sheppard, Samuel J. Purkis

Marine & Environmental Sciences Faculty Articles

We explore impacts on pristine atolls subjected to anthropogenic near-field (human habitation) and far-field (climate and environmental change) pressure. Using literature data of human impacts on reefs, we parameterize forecast models to evaluate trajectories in coral cover under impact scenarios that primarily act via recruitment and increased mortality of larger corals. From surveys across the Chagos, we investigate the regeneration dynamics of coral populations distant from human habitation after natural disturbances. Using a size-based mathematical model based on a time-series of coral community and population data from 1999–2006, we provide hind- and forecast data for coral population dynamics within lagoons …

Feasibility And Economic Viability Of Establishing A Wine Grape Vineyard In Moraga, Ca, Vincent Joseph Bruzzone

Agribusiness

No abstract provided.

Prototype For Monitoring And Forecasting Fall Foliage Coloration In Real Time From Satellite Data, Xiaoyang Zhang, Mitchell D. Goldberg, Yunyue Yu

GSCE Faculty Publications

While determining vegetation phenology from the time series of historical satellite data has been widely investigated throughout the last decade, little effort has been devoted to real-time monitoring and short-term forecasting. The latter is more important for numerical weather modeling, ecosystem forecasting, forest and crop management, and health risk warning. In this study we developed a prototype approach for the real-time monitoring and short-term forecasting of fall foliage status (including low coloration, moderate coloration, near-peak coloration, peak coloration, and post-peak coloration) using temporal satellite observations. The algorithm combined the climatology of vegetation phenology and temporally available satellite observations to establish …

Relative Efficiency Of Fishing Gears And Investigation Of Resource Availability In Tropical Demersal Scalefish Fisheries Frdc Report – Project 2006/031, Stephen J. Newman, Euan S. Harvey, Ben M. Rome, Dianne L. Mclean, Craig L. Skepper

Fisheries Research Reports

This project identified that there is substantial spatial variation in the demersal fish assemblages in the NDSF with some species more abundant in the north of the fishery and others in the south. At finer scales within sites and depths there is spatial variation associated with different habitats (e.g. sand vs sponge gardens or reef).

Open And Closed Seascapes: Where Does Habitat Patchiness Create Populations With High Fractions Of Self-Recruitment?, Malin L. Pinsky, Stephen R. Palumbi, Serge Andrefouet, Samuel J. Purkis

Marine & Environmental Sciences Faculty Articles

Which populations are replenished primarily by immigrants (open) and which by local production (closed) remains an important question for management with implications for response to exploitation, protection, and disturbance. However, we lack methods for predicting population openness. Here, we develop a model for openness and show that considering habitat isolation explains the existence of surprisingly closed populations in high-dispersal species, including many marine organisms. Relatively closed populations are expected when patch spacing is more than twice the standard deviation of a species' dispersal kernel. In addition, natural scales of habitat patchiness on coral reefs are sufficient to create both largely …

Mapping Plant Biodiversity Hotspots At The County Scale: A New Tool For Establishing Resource Conservation Strategies, Kristie Haydu

Master's Theses

Myers first identified the world’s 25 biodiversity hotspots and pioneered innovative ideas about the usefulness of biodiversity models for establishing long-term resource conservation strategies at global scales. Since Myers, most of the subsequent studies using hotspot science for biodiversity modeling have used large spatial scales like countries, provinces or states, and other biogeoraphic regions. The California Floristic Province continues to be one of the recognized global biodiversity hotspots. Our study site, San Luis Obispo County is within this hotspot and we created a map of plant biodiversity hotspots at the county scale using GIS technology. We wanted to determine the …

Mitochondrial Dna Assessment Of The Phylogeography Of The Gopher Tortoise, Joshua R. Ennen, Brian R. Kreiser, Carl P. Qualls, Daniel Gaillard, Matthew Aresco, Roger Birkhead, Tracey Tuberville, Earl D. Mccoy, Henry R. Mushinsky, Thomas W. "Bill" Hentges, Aaron W. Schrey

Integrative Biology Faculty and Staff Publications

Identifying geographic barriers that define genetic structure within a species is crucial in formulating an effective conservation plan. The identification of appropriate management units is critical for the protection and recovery of the gopher tortoise Gopherus polyphemus, which have declined across their entire range. Previous molecular work at various spatial scales has identified distinct population assemblages of the gopher tortoise. The goal of this study was to assess the genetic structure in gopher tortoises through a more complete sampling of the federally listed as threatened portion of the range and evaluate the extent of genetic isolation imposed by several …

Evidence Of American Martens Populating The Turtle Mountains Of North Dakota, Amber J. Bagherian, Dorothy M. Fecske, Maggie D. Triska, Joseph A. Bishop, Dean J. Berezanski, Sandra K. Johnson, Robert P. Brooks, Thomas L. Serfass

The Prairie Naturalist

American martens (Martes americana) were native to northeastern North Dakota but were considered extirpated by the early 1800s. Although there is no historic evidence of martens occurring beyond the northeast, forested habitat potentially suitable for martens exists in the Turtle Mountains region of northcentral North Dakota and southwestern Manitoba. From 1989– 1991, the Turtle Mountain Trappers Association translocated 59 martens into the Canadian portion of the Turtle Mountains. During summer 2007, we used covered track-plates and/or remotely-triggered cameras placed at 123 survey sites distributed among 41 1-km2 grid cells (a GIS-generated layer imposed on electronic maps of the study region) …

An Analysis Of Coastal Marine Impacts Caused By Prehistoric And Historic Fishing Practices In Morro Bay, Ca, Darin Schmicking

Social Sciences

No abstract provided.

A Life Of Water, Sherry Pogorzelski

Social Sciences

No abstract provided.

Transcending Scale Dependence In Identifying Habitat With Resource Selection Functions, Nicholas J. Decesare, Mark Hebblewhite, Fiona Schmiegelow, David Hervieux, Gregory J. Mcdermid, Lalenia Neufeld, Mark Bradley, Jesse Whittington, Kirby G. Smith, Luigi E. Morgantini, Matthew Wheatley, Marco Musiani

Wildlife Biology Faculty Publications

Multi-scale resource selection modeling is used to identify factors that limit species distributions across scales of space and time. This multi-scale nature of habitat suitability complicates the translation of inferences to single, spatial depictions of habitat required for conservation of species. We estimated resource selection functions (RSFs) across three scales for a threatened ungulate, woodland caribou (Rangifer tarandus caribou), with two objectives: (1) to infer the relative effects of two forms of anthropogenic disturbance (forestry and linear features) on woodland caribou distributions at multiple scales and (2) to estimate scale-integrated resource selection functions (SRSFs) that synthesize results across scales for …

Wellness Works: A Collaborative Program For Youth And Adults In Rural Utah, Lindsey Shirley, Mark F. Roark, Lisa Lewis

Kinesiology and Health Science Faculty Publications

The article focuses on the need of Cooperative Extension programs for rural communities of Central Utah residents who are leading an unhealthy lifestyle. It is discussed that the Family and Consumer Sciences (FCS) Extension Agent in Utah developed a wellness community program to address the health concerns of adults. It is discussed that the program promotes healthy living in adults by emphasizing on physical activity and nutrition.

A Postulate For Tiger Recovery: The Case Of The Caspian Tiger, Carlos A. Driscoll, I. Chestin, H. Jungius, O. Pereladova, Y. Darman, E, Dinerstein, J. Seidensticker, J. Sanderson, S. Christie, Shu-Jin Luo, S. Shrestha, Y. Zhuravlev, Olga Uphyrkina, Y. V. Jhala, S. P. Yadav, D. G. Pikunov, Nobuyuki Yamaguchi, David E. Wildt, J. L. D. Smith, L. Marker, P. J. Nyhus, R. Tilson, David W. Macdonald, Stephen J. O'Brien

Biology Faculty Articles

Recent genetic analysis has shown that the extinct Caspian Tiger (P. t. virgata) and the living Amur Tigers (P. t. altaica) of the Russian Far East are actually taxonomically synonymous and that Caspian and Amur groups historically formed a single population, only becoming separated within the last 200 years by human agency. A major conservation implication of this finding is that tigers of Amur stock might be reintroduced, not only back into the Koreas and China as is now proposed, but also through vast areas of Central Asia where the Caspian tiger once lived. However, under the current tiger conservation …

Sustainable Agriculture, Charlene Mills

Social Sciences

This paper is about sustainable agriculture and how we can strive to achieve it. It discusses what is wrong with our food system today and how we can go about changing that. It incorporates Geography and Anthropology while discussing different issues around the world.

The Invasion Of California Grasslands: Past, Present, And Future Implications, Danielle Simone Caziarc

Social Sciences

No abstract provided.

Northern Lights: Fourth World Nations And The Geopolitical Dance In The Arctic, Heidi G. Bruce

Capstone Collection

Over the past decade, the Arctic region has received increased attention from climate scientists, politicians, and transnational corporations. Human-induced climate change is causing glaciers to recede, resulting in new northern sea passages that are highly sought after by businesses and governments alike. Deeply affected by this increased northern exposure are Arctic Fourth World nations – politically and culturally distinct nations encapsulated by states – that have lived in the Arctic for millennia. This paper examines the impacts that expanded northern sea routes are having on Arctic Fourth World nations and the conflict mitigation approaches being used in the region. Research …