Ecology and Evolutionary Biology Commons^™

Growing South Dakota (Spring 2023), College Of Agriculture, Food And Environmental Sciences

Growing South Dakota (Publication of the College of Agriculture, Food and Environmental Sciences)

[Page] 3 Developing Climate-Smart Beef and Bison Commodities
[Page] 5 Joseph Cassady Leads CAFES as New Dean
[Page] 7 Inaugural Class of Klingbeil Scholars
[Page] 9 Jackrabbits to Future Veterinarians
[Page] 11 Protecting South Dakota’s Grasslands
[Page] 13 Growing Youth Programs
[Page] 15 Partnerships for Positive Growth
[Page] 17 Building Highly Effective Boards
[Page] 19 SDSU Extension Podcasts
[Page] 21 Providing Good Food for All
[Page] 23 Improving Seed Varieties
[Page] 25 CAFES Endowed Positions
[Page] 29 Jackrabbits Now and Then

Highly Pathogenic Avian Influenza A(H5n1) Virus Outbreak In New England Seals, United States, Wendy Puryear, Kaitlin Sawatzki, Nichola Hill, Alexa Foss, Jonathon J. Stone, Lynda Doughty, Dominique Walk, Katie Gilbert, Maureen Murray, Elena Cox, Priya Patel, Zak Mertz, Stephanie Ellis, Jennifer Taylor, Deborah Fauquier, Ainsley Smith, Robert A. Digiovanni, Adriana Van De Guchte, Ana Silvia Gonzalez-Reiche, Zain Khalil, Harm Van Bakel, Mia K. Torchetti, Kristina Lantz, Julianna B. Lenoch, Jonathan Runstadler

United States Department of Agriculture Wildlife Services: Staff Publications

We report the spillover of highly pathogenic avian influenza A(H5N1) into marine mammals in the northeastern United States, coincident with H5N1 in sympatric wild birds. Our data indicate monitoring both wild coastal birds and marine mammals will be critical to determine pandemic potential of influenza A viruses.

Impact Of The Dimethyl Sulfoxide Reductase Superfamily On The Evolution Of Biogeochemical Cycles, Michael Wells, Minjae Kim, Denise M. Akob, Partha Basu, John F. Stolz

UK CARES Faculty Publications

The dimethyl sulfoxide reductase (or MopB) family is a diverse assemblage of enzymes found throughout Bacteria and Archaea. Many of these enzymes are believed to have been present in the last universal common ancestor (LUCA) of all cellular lineages. However, gaps in knowledge remain about how MopB enzymes evolved and how this diversification of functions impacted global biogeochemical cycles through geologic time. In this study, we perform maximum likelihood phylogenetic analyses on manually curated comparative genomic and metagenomic data sets containing over 47,000 distinct MopB homologs. We demonstrate that these enzymes constitute a catalytically and mechanistically diverse superfamily defined not …

An Evaluation Of Avian Influenza Virus Whole-Genome Sequencing Approaches Using Nanopore Technology, Hon S. Ip, Sarah Uhm, Mary Lea Killian, Mia K. Torchetti

United States Department of Agriculture Wildlife Services: Staff Publications

As exemplified by the global response to the SARS-CoV-2 pandemic, whole-genome sequencing played an important role in monitoring the evolution of novel viral variants and provided guidance on potential antiviral treatments. The recent rapid and extensive introduction and spread of highly pathogenic avian influenza virus in Europe, North America, and elsewhere raises the need for similarly rapid sequencing to aid in appropriate response and mitigation activities. To facilitate this objective, we investigate a next-generation sequencing platform that uses a portable nanopore sequencing device to generate and present data in real time. This platform offers the potential to extend in-house sequencing …

Proposing An Rna Interference (Rnai)-Based Treatment For Human Immunodeficiency Virus (Hiv) By Analyzing The Post-Transcriptional Gene Targeting Of Sars-Cov-2, Hepatitis C Virus, And A549 Lung Cancer Cells, Arjun Jagdeesh

UROP Posters

Human Immunodeficiency Virus (HIV) is a retrovirus that infects CD4+ T cell lymphocytes in humans, leading to the development of Acquired Immunodeficiency Syndrome (AIDS) if left untreated. While current treatment methods, including antiretroviral combination treatments, effectively limit HIV replication, HIV can evade these treatments due to its high mutation rate. Long-term antiretroviral treatment can also be toxic to patients, meaning patients would benefit from a new mechanism of HIV treatment. RNA interference (RNAi) is an antiviral pathway found in mammals, plants, and insects that involves a small-interfering RNA that is incorporated into a protein complex called the RNA-induced Silencing Complex …

An Analysis Of Water Quality At Orange County, California Beaches, Naomi Meurice

Pomona Senior Theses

Beaches in Southern California are highly recreated by residents and visitors, making beaches socially and economically important. Public health departments in coastal communities are in charge of measuring water quality and ensuring it is safe for users. Research in the past has indicated that beach water quality gets worse after storms, with bacteria levels jumping on the day of a storm and staying high for up to five days. Studies have shown these spikes in bacteria to be associated with storm runoff, with beaches closer to runoff discharge locations experiencing more impact. However, prior research has not considered the period …

Space Use And Movements Of Southeastern Breeding Double-Crested Cormorants (Nannopterum Auritum) In The United States, Leah L.K. Moran, Brian S. Dorr, Katie C. Hanson-Dorr, R. J. Moore, Scott A. Rush

United States Department of Agriculture Wildlife Services: Staff Publications

Abstract: Seasonal movements of Double-crested Cormorants (Nannopterum auritum) have been studied at breeding and wintering sites in the southeastern United States, but little information exists on the movements of these birds within and from their southern breeding sites in lacustrine systems. Since 2001, cormorants have established nesting colonies on islands in Guntersville Reservoir in Alabama, USA. Following the movements of tagged cormorants using satellite telemetry, we found that the mean home range during the 2017 breeding season (May–August) was 41.76 km², with a core use area of 6.36 km². The mean home range used …

Variance In Offspring Sex Ratio And Maternal Allocation In A Highly Invasive Mammal, Sarah M. Chinn, Timothy J. Smyser, James C. Beasley

United States Department of Agriculture Wildlife Services: Staff Publications

Skewed sex ratios at birth are widely reported in wild populations, however, the extent to which parents are able to modulate the sex ratio of offspring to maximize their own fitness remains unclear. This is particularly true for highly polytocous species as maximizing fitness may include trade-offs between sex ratio and the size and number of offspring in litters. In such cases, it may be adaptive for mothers to adjust both the number of offspring per litter and offspring sex to maximize individual fitness. Investigating maternal sex allocation in wild pigs (Sus scrofa) under stochastic environmental conditions, we predicted that …

Invasive Frogs Show Persistent Physiological Differences To Elevation And Acclimate To Colder Temperatures, Jack R. Marchetti, Karen H. Beard, Emily E. Virgin, Erin L. Lewis, Steven C. Hess, Kwanho C. Ki, Layne O. Sermersheim, Adriana P. Furtado, Susannah S. French

United States Department of Agriculture Wildlife Services: Staff Publications

The coqui frog (Eleutherodactylus coqui) was introduced to the island of Hawai’i in the 1980s and has spread across much of the island. Concern remains that this frog will continue to expand its range and invade higher elevation habitats where much of the island’s endemic species are found. We determined whether coqui thermal tolerance and physiology change along Hawai’i’s elevational gradients. We measured physiological responses using a short-term experiment to determine baseline tolerance and physiology by elevation, and a long-term experiment to determine the coqui’s ability to acclimate to different temperatures. We collected frogs from low, medium, and …

Fusion Of Visible And Thermal Images Improves Automated Detection And Classification Of Animals For Drone Surveys, B. Santhana Krishnan, Landon R. Jones, Jared A. Elmore, Sathishkumar Samiappan, Kristine O. Evans, Morgan Pfeiffer, Bradley Blackwell, Raymond Iglay

United States Department of Agriculture Wildlife Services: Staff Publications

Visible and thermal images acquired from drones (unoccupied aircraft systems) have substantially improved animal monitoring. Combining complementary information from both image types provides a powerful approach for automating detection and classification of multiple animal species to augment drone surveys. We compared eight image fusion methods using thermal and visible drone images combined with two supervised deep learning models, to evaluate the detection and classification of white-tailed deer (Odocoileus virginianus), domestic cow (Bos taurus), and domestic horse (Equus caballus). We classified visible and thermal images separately and compared them with the results of image fusion. …

Spatial Ecology Of Translocated Raccoons, Jacob E. Hill, James L. Helton, Richard B. Chipman, Amy Gilbert, James C. Beasley, Guha Dharmarajan, Olin E. Rhodes

United States Department of Agriculture Wildlife Services: Staff Publications

Raccoons (Procyon lotor) are routinely translocated both legally and illegally to mitigate conflicts with humans, which has contributed to the spread of rabies virus across eastern North America. The movement behavior of translocated raccoons has important ramifications for disease transmission yet remains understudied and poorly quantified. To examine the spatial ecology of raccoons following experimental translocation, we performed reciprocal 16 km-distance translocations of 30 raccoons between habitats of high and low raccoon density (bottomland hardwood and upland pine, respectively) across the Savannah River Site (SRS) in Aiken, South Carolina, USA (2018–2019). Translocation influenced patterns of raccoon space use, …

Evaluation Of Oral Baits And Distribution Methods For Tasmanian Devils (Sarcophilus Harrisii), Sean Dempsey, Ruth J. Pyer, Amy Gilbert, Nicholas M. Fountain-Jones, Jennifer M. Moffat, Sarah Benson-Amram, Timothy J. Smyser, Andrew S. Flies

United States Department of Agriculture Wildlife Services: Staff Publications

Context

Diseases are increasingly contributing to wildlife population declines. Tasmanian devil (Sarcophilus harrisii) populations have locally declined by 82%, largely owing to the morbidity and mortality associated with two independent transmissible devil facial tumours (DFT1 and DFT2). Toxic baits are often used as a management tool for controlling vertebrate pest populations in Australia, but in other areas of the world, oral baits are also used to deliver vaccines or pharmaceuticals to wildlife.

Aim

Our goal was to evaluate the potential use of edible baits as vehicles for vaccine delivery to Tasmanian devils.

Method

We first tested bait palatability with …

Comparison Of Daily Activity Patterns Across Seasons Using Gps Telemetry And Camera Trap Data For A Widespread Mammal, David W. Wolfson, Peter E. Schlichting, Raoul K. Boughton, Ryan S. Miller, Kurt C. Vercauteren, Jesse S. Lewis

United States Department of Agriculture Wildlife Services: Staff Publications

Daily activity patterns of animals can be dynamic across seasons in response to changing environmental conditions. Daily activity, though, has rarely been evaluated in relation to multiple factors (for example, seasons, demographics, and data collection methods), which could be important for understanding what drives activity patterns. Here, we evaluated the daily activity patterns of a widespread invasive species, wild pigs (Sus scrofa), across two ecologically different study areas at Buck Island Ranch, Florida, and Tejon Ranch, California (United States), from 2015 to 2018. Using GPS telemetry data (62 individuals in Florida, 21 individuals in California) and detections from …

Are Rabid Raccoons (Procyon Lotor) Ready For The Rapture? Determining The Geographic Origin Of Rabies Virus-Infected Raccoons Using Radcapture And Microhaplotypes, Matthew W. Hopken, Antoinette J. Piaggio, Zaid Abdo, Richard B. Chipman, Clara P. Mankowski, Kathleen M. Nelson, Mikaela Samsel Hilton, Christine Thurber, Mirian T. N. Tsuchiya, Jesús E. Maldonado, Amy T. Gilbert

United States Department of Agriculture Wildlife Services: Staff Publications

North America is recognized for the exceptional richness of rabies virus (RV) wildlife reservoir species. Management of RV is accomplished through vaccination targeting mesocarnivore reservoir populations, such as the raccoon (Procyon lotor) in eastern North America. Raccoons are a common generalist species, and populations may reach high densities in developed areas, which can result in contact with humans and pets with potential exposures to the raccoon variant of RV throughout the eastern United States. Understanding the spatial movement of RV by raccoon populations is important for monitoring and refining strategies supporting the landscape-level control and local elimination of …

Estimating The Distribution Of Oryzomys Palustris, A Potential Key Host In Expanding Rickettsial Tick-Borne Disease Risk, Catherine A. Lippi, Samuel Canfield, Christina Espada, Holly D. Gaff, Sadie J. Ryan

Biological Sciences Faculty Publications

Increasingly, geographic approaches to assessing the risk of tick-borne diseases are being used to inform public health decision-making and surveillance efforts. The distributions of key tick species of medical importance are often modeled as a function of environmental factors, using niche modeling approaches to capture habitat suitability. However, this is often disconnected from the potential distribution of key host species, which may play an important role in the actual transmission cycle and risk potential in expanding tick-borne disease risk. Using species distribution modeling, we explore the potential geographic range of Oryzomys palustris, the marsh rice rat, which has been …

Use Of Amino Acid Isotope Analysis To Investigate Capital Versus Income Breeding Strategies In Migratory Avian Species, Nico Lübcker, John P. Whiteman, Oliver N. Shipley, Keith A. Hobson, Seth D. Newsome

Biological Sciences Faculty Publications

1. Income and capital breeding represent opposing ends of a continuum of reproductive strategies. Quantifying nutrient allocation to reproduction is challenging, but recent advances in compound-specific stable isotope analysis hold promise for tracing the source of individual compounds allocated to reproduction.

2. Here, we describe a novel approach of using measured carbon (δ13C) and nitrogen (δ15N) isotope values of individual amino acids (AAs) in pectoral muscle of egg-laying females and egg yolk as a useful tool to quantify the reliance on income versus capital breeding in migrating species. We used white-fronted (Anser albifrons frontalis), lesser snow (A. …

Editorial: New Frontiers In The Application Of Stable Isotopes To Ecological And Ecophysiological Research, Keith A. Hobson, John P. Whiteman, Seth D. Newsome

Biological Sciences Faculty Publications

No abstract provided.

Human Fatalities Resulting From Wild Pig Attacks Worldwide: 2000–2019, John J. Mayer, James E. Garabedian, John C. Kilgo

Human–Wildlife Interactions

Although reported to be rare, human fatalities resulting from wild pig (Sus scrofa) attacks do occur. Toward a better understanding of patterns in fatal wild pig attacks, we synthesized worldwide reports of wild pig attacks on humans between 2000 and 2019. We documented 163 separate reports of fatal wild pig attacks that resulted in 172 human deaths. On average, 8.6 human deaths occurred annually due to wild pig attacks during those 2 decades. The majority of fatal attacks resulted in a single human death; however, there were 6 cases in which an individual fatal attack resulted in 2–4 …

The Use Of A Habitat Quality Stress Index To Evaluate Stress As An Analog For Proximate Fitness In The American Crow Within A Matrix Of Landcover Characteristics To Assess Its Potential Contribution To Disease Etiologies, Theodore Lee Grabarz

Antioch University Dissertations & Theses

All organisms occur within spatial and temporal environments to maximize proximate fitness (health) and thus life history outcomes. Previous work has examined the temporal and behavioral aspects of proximate fitness on life history outcomes particularly regarding highly perturbed environments (i.e., climate and land use change, resource extraction, agricultural erosion, etc.). My work focuses on the less examined spatial aspect of these perturbed environments. More specifically, this dissertation examines habitat selection and quality as the basis for understanding stress response (negative and positive feedback mechanisms) to environmental stressors within the larger context of regional or gamma (ɣ) biodiversity. Through the lens …

Defining And Exploring Animal Sentience, Andrew N. Rowan, Joyce M. D'Silva Mrs, Ian J.H. Duncan, Nicholas Palmer

Animal Sentience

One of the commentaries on the target article notes that "animal sentience" is difficult to define operationally. This response to the commentaries develops a working, usable definition of animal sentience and examines the relationships between animal emotions and sentience.

Long Term Changes In Aquaculture Influence Migration, Regional Abundance, And Distribution Of An Avian Species, Paul C. Burr, Brian S. Dorr, Jimmy L. Avery, Garrett M. Street, Bronson K. Strickland

United States Department of Agriculture Wildlife Services: Staff Publications

Agricultural development has been causing changes to the environment and the abundance and distribution of avian species. Agriculture is dynamic with changes in products occurring at large scales over relatively short time periods. The catfish aquaculture industry is one such agriculture industry that has undergone dramatic changes over the last 25 years. The double-crested cormorant (Nannopterum auritum) is a piscivorous bird that has an extensive history with the aquaculture industry of Mississippi due to its depredation of cultured catfish. A large-scale monitoring program began in 1989 to estimate the abundance and location of cormorants at every known roost in the …

The Past, Present, And Future Of Equine Science, Sarah H. White-Springer, Jason E. Bruemmer, Robert J. Coleman

United States Department of Agriculture Wildlife Services: Staff Publications

A core group of 27 equine nutritionists and physiologists joined together in the late 1960s to formally address and enhance the direction of equine research, creating the Equine Nutrition and Physiology Soci- ety. In 2003, that growing society transformed into the Equine Science Society, which now serves as the preeminent, internationally recognized scientific equine organization. In recent years, it has been appre- ciated that equine science encompasses a wide range of focus areas, including exercise science, nutrition, genetics, reproductive physiology, teaching and extension, production and management, and mix of other specialties, qualified as biosciences. Additionally, trainees are highly valued in …

Using Drones To Detect And Quantify Wild Pig Damage And Yield Loss In Corn Fields Throughout Plant Growth Stages, Bethany A. Friesenhahn, Lori D. Massey, Randy W. Deyoung, Michael J. Cherry, Justin W. Fischer, Nathan P. Snow, Kurt C. Vercauteren, Humberto L. Perotto‐Baldivieso

United States Department of Agriculture Wildlife Services: Staff Publications

Presently, there are an estimated 6.9 million wild pigs (Sus scrofa) in the U.S., which cause over US$1 billion in damage to agriculture, environmental impacts, and control costs. However, estimates of damage have varied widely, creating a need for standardized monitoring and a method to accurately estimate the economic costs of direct wild pig damage to agriculture. The goal of our study was to integrate remotely sensed imagery from drones and crop harvest data to quantify wild pig damage in corn fields. We used drones with natural color (red, green, blue) cameras to monitor corn fields at different …

The Impact Of The Covid‑19 Pandemic On Wildlife–Aircraft Collisions At Us Airports, Levi Altringer, Sophie C. Mckee, Jason D. Kougher, Michael J. Begier, Stephanie A. Shwiff

United States Department of Agriculture Wildlife Services: Staff Publications

Exploiting unprecedented reductions in aircraft movements caused by the COVID-19 pandemic, we investigated the relationship between air traffic volume and the frequency of wildlife-aircraft collisions, or wildlife strikes, at the 50 largest airports in the United States. During the COVID- 19 months of 2020 (March–December), both air traffic volume and the absolute number of wildlife strikes were reduced. The net effect of these two movements, however, was an increase in the wildlife strike rate from May 2020–September 2020. This increase was found to be most pronounced at airports with larger relative declines in air traffic volume. We concluded that the …

Echinococcus Species Infections Among Wild Canids In Pennsylvania, Usa, Kayla Garrett, Justin Brown, Ryan K. A. Grunert, Jonathan Hunte, Mark G. Ruder, Kyle Van Why, Michael J. Yabsley, Christopher A. Cleveland

United States Department of Agriculture Wildlife Services: Staff Publications

Echinococcus species are zoonotic tapeworms that can impact the health of wildlife, domestic animals, livestock, and humans. Two species of interest in North America are Echinococcus multilocularis and Echinococcus canadensis (Echinococcus granulosus sensu lato). The primary wildlife definitive hosts for E. multilocularis and E. canadensis are similar, including red foxes (Vulpes vulpes), gray foxes (Urocyon cinereoargenteus), coyotes (Canis latrans), and wolves (Canis lupus). These two Echinococcus spp. use different intermediate hosts, including small mammals for E. multilocularis and artiodactylids for E. canadensis. Although historically absent from …

Turkey Vulture Survival Is Reduced In Areas Of Greater Road Density, Adrián Naveda-Rodríguez, Keith L. Bildstein, David R. Barber, Jean-François Therrien, Michael L. Avery, Bryan M. Kluever, Scott A. Rush, Francisco J. Vilella

United States Department of Agriculture Wildlife Services: Staff Publications

The demography of, and factors that influence these metrics, are largely unknown for most vultures in the Americas. Survivorship of turkey vultures (Cathartes aura) may be influenced by landscape heterogeneity and human disturbance. We quantified the effects of landscape composition (Shannon’s diversity index) and configuration (contagion, edge density, and largest patch index), and human disturbance (road density) on the annual and seasonal survival probabilities of the three North American breeding populations (western, central, and eastern) of turkey vultures that spend the nonbreeding season in the southeastern portion of the Nearctic and the northern Neotropics during a 17-year period. …

Diagnosing Neurocysticercosis In Skeletonized Human Remains Of Forensic Importance, John O. Obafunwa, Karl Reinhard

Karl Reinhard Publications

Neurocysticercosis is endemic in many parts of the underdeveloped and developing countries, with continuous presence in developed countries due to the influx of migrants from regions where the diseases are endemic. Neuroimaging, anatomic pathological techniques, immunodiagnostic tests, clinical examination and epidemiologic considerations will easily provide the diagnosis. However, physicians in developed countries are perhaps progressively missing the diagnosis, and need to re-acquaint themselves with the condition and acquire a high suspicion index. The authors present a medicolegal case where the forensic team made a conclusion of neurocysticercosis (among other diagnoses), following post mortem examination of a largely skeletonized and mummified …

Documenting The Presence Of Chagas Disease In Prehistoric North America: Applying The Stockholm Paradigm To Archaeoparasitology, Part Ii, Karl J. Reinhard, Daniel R. Brooks, Aida Romera Barbera, T. Michael Fink

Karl Reinhard Publications

The DAMA protocol (Document, Assess, Monitor, Act) is the applied aspect of the Stockholm Paradigm. Evidence from archaeology and history of medicine has a demonstrated value in documenting infection risk for specific study areas. Bioarchaeological remains and historical documents show vivid examples of pathology related to the Chagas disease life cycle. The science of archaeology defines the lifestyles that created risk of triatomine kissing bug infestations and trypanosome protozoa infections. Paleogenetics, in the form of molecular analyses of Trypanosoma cruzi, elucidate the temporal origins of genetic variants and adaptation to human environments. We illustrate how these fields reveal the risk …

Exploring The Evolution Of Trypanosoma Cruzi And The Emergence Of Chagas Disease In The Context Of Environmental Change: Applying The Stockholm Paradigm To Archaeoparasitology, Part I, Aida Romera Barbera, Daniel R. Brooks, T. Michael Fink, Karl J. Reinhard

Karl Reinhard Publications

The Stockholm Paradigm is an evolutionary synthesis that explains the emergence of novel pathogens in the context of environmental disturbances. Considering the urgent climate change situation, anticipation stands as key to prevent and mitigate the effects that climate change can have in the emergence of pathogens. However, the success of preventive measures is hindered by a limited knowledge of the interplaying dynamics between biology, environment, and culture leading to emerging infectious diseases. For many decades, bioarchaeologists have been gathering data on past human-environment interactions, therefore contributing to the conversation. Archaeoparasitology, at the intersection between pathology, bioarchaeology, and biology, is uniquely …

Amphisbaenian Head Movement And Burrowing Forces In Damp Granular Media, Jacob Newell

Williams Honors College, Honors Research Projects

Damp granular media is a difficult environment to study because it is both practically complex and it lacks equations which fully describe its behavior. In this study, an oscillatory lateral head movement and its effects while penetrating damp granular media were tested using a robophysical model. This experimental research was inspired by the burrowing behavior of the clade Amphisbaenia, a group of usually limbless squamates that employ a variety of different burrowing behaviors, but it can apply to a wide range of burrowers. This research could help with both human burrowing technologies and the further investigation of animal behaviors.