Animal Sciences Commons^™

Predicting Carcass Cut Yields In Cattle From Digitalimages Using Artificial Intelligence, Darragh Matthews

Theses

Beef carcass classification in Europe is predicated on the EUROP grid for both fatness and conformation. Although this system performs well for grouping visually similar carcasses, it cannot be used to accurately predict meat yields from these groups, especially when considered on an individual cut level. Deep Learning (DL) has proven to be a successful tool for many image classification problems but has yet to be fully proven in a regression scenario using carcass images. Here we have trained DL models to predict carcass cut yields and compared predictions to more standard machine learning (ML) methods. Three approaches were undertaken …

Factors Influencing Mare Milk And Foal Gastrointestinal Health, Morgan Brewer Pyles

Theses and Dissertations--Animal and Food Sciences

Foals are born lacking a functional microbial community in their gastrointestinal tract (GIT). However, these microbes quickly colonize after birth. Factors influencing the process of microbial colonization and health of the foal’s gastrointestinal tract, such as milk yield and composition, are not well understood. Milk contains non-lactose carbohydrates termed “oligosaccharides”, which serve as prebiotics in human neonates and may serve a similar function in foals. Three animal studies were conducted to evaluate factors influencing mare milk and digestive health in the foal. In experiment 1, bacteria were enumerated and identified in foal feces and the utilization of different carbohydrates by …

The Effect Of Endophyte-Infected Tall Fescue Seed Consumption On Gut And Satiety Hormones Related To Intake Regulation In Holstein Steers, Mindy Elizabeth King

Theses and Dissertations--Animal and Food Sciences

Cattle consuming endophyte-infected tall fescue (E+) typically experience a syndrome termed fescue toxicosis which is thought to be caused by ergot alkaloids produced by the endophyte. The most abundant alkaloid, and considered the most likely cause of the syndrome, is ergovaline (ERV). During fescue toxicosis, a decrease in ADG is observed which is likely due to the decrease in DMI commonly observed in animals consuming E+ compared to animals consuming non-endophyte-infected tall fescue (E-). However, the cause of the decrease in intake is not well elucidated. Many physiological responses control feed intake including, but not limited to, physical, neural, metabolic, …

Isolation Box Test (Ibt) And Dairy Calf Personality Traits Relationship With Performance Through Weaning, Megan Marie Woodrum Setser

Theses and Dissertations--Animal and Food Sciences

Personality tests are utilized to characterize individual differences in personality traits across species. Currently, there is no objective personality test that can be implemented on-farm to measure personality in dairy calves. Measuring personality of youngstock in the dairy industry may allow producers to utilize information on individual differences for management decisions and limit the investment in unfit individuals. The isolation box test is a personality test that has potential to be adapted and utilized for dairy calves. The main objective of this thesis is to develop, validate, and utilize an isolation box test for use on-farm in dairy calves. More …

A Sea Turtle Population Assessment For Florida's Big Bend, Northeastern Gulf Of Mexico, Ryan M. Chabot, Ryan C. Welsh, Cody R. Mott, Jeffrey R. Guertin, Brian M. Shamblin, Blair E. Witherington

Gulf and Caribbean Research

Coastal waters of Florida’s Big Bend, Gulf of Mexico (GOM) once supported one of the largest sea turtle fisheries in the United States. To fill an information gap in this region on abundance and distribution of sea turtles, we used vessel—based distance sampling and active capture methods to characterize current foraging aggregations near the St. Martins Marsh Aquatic Preserve. Over 10 sampling periods between 2012—2018, we completed 513 km of transects and recorded 819 turtles among 4 species—green turtle (Chelonia mydas, n = 624), Kemp’s ridley (Lepidochelys kempii, n = 147), loggerhead (Caretta caretta, …

Scaling The Effects Of Ocean Acidification On Coral Growth And Coral-Coral Competition On Coral Community Recovery, Nicolas R. Evensen, Yves-Marie Bozec, Peter J. Edmunds, Peter J. Mumby

Biological Sciences Faculty Publications

Ocean acidification (OA) is negatively affecting calcification in a wide variety of marine organisms. These effects are acute for many tropical scleractinian corals under short-term experimental conditions, but it is unclear how these effects interact with ecological processes, such as competition for space, to impact coral communities over multiple years. This study sought to test the use of individual-based models (IBMs) as a tool to scale up the effects of OA recorded in short-term studies to community-scale impacts, combining data from field surveys and mesocosm experiments to parameterize an IBM of coral community recovery on the fore reef of Moorea, …

Global Extinction Risk For Seahorses, Pipefishes And Their Near Relatives (Syngnathiformes), Riley A. Pollom, Gina M. Ralph, Caroline M. Pollock, Amanda C.J. Vincent

Biological Sciences Faculty Publications

Few marine taxa have been comprehensively assessed for their conservation status, despite heavy pressures from fishing, habitat degradation and climate change. Here we report on the first global assessment of extinction risk for 300 species of syngnathiform fishes known as of 2017, using the IUCN Red List criteria. This order of bony teleosts is dominated by seahorses, pipefishes and seadragons (family Syngnathidae). It also includes trumpetfishes (Aulostomidae), shrimpfishes (Centriscidae), cornetfishes (Fistulariidae) and ghost pipefishes (Solenostomidae). At least 6% are threatened, but data suggest a mid-point estimate of 7.9% and an upper bound of 38%. Most of the threatened species are …

Spatiotemporal Interactions Between Deer And Cattle, Sydney Brewer

Honors Program: Senior Projects (Public)

Mule deer, white-tailed deer, and cattle are sympatric on the landscape throughout many portions of Nebraska and encounter each other in time and space. By considering variation in daily activity patterns and non-random patterns in the timing of passage through specific locations, we can better understand whether animals may be avoiding each other temporally when sharing space. I investigated temporal activity patterns and avoidance/attraction ratios to investigate if deer altered their activity patterns in the presence of cattle and if they exhibited avoidance at a study site near McCook, Nebraska, USA. We collected data from 19 game cameras that were …

Developmental Influences On The Initial Subjective Rewarding Effects Of Etoh, Madison Waldron

Master’s Theses

The present studies were aimed to better understand developmental contributions to the risk for disordered drinking, and facilitate the long-term goal of developing effective interventions for individuals at high risk for alcohol use disorders. Experiment 1 assessed the effect of adolescent pre-exposure to ethanol on adult place preference, as well as, sex- and beta-endorphin(bE)-related contributions. Adolescent C57BL/6J and bE deficient mice were injected with 1.5g/kg of ethanol or saline and put back into their home cages. At the time of adulthood, we employed a single-exposure conditioned place preference paradigm (SE-CPP) to investigate the impact of preexposure on the initial subjective …

Contributions To The Turkish Oribatid Mite Fauna (Acari: Oribatida) From Sakarya Andyozgat Provinces, Sedat Per, Kübra Çubukçu, Ayşe Toluk, Nusret Ayyildiz

Turkish Journal of Zoology

This study deals with the data on Turkish records of oribatid mites that play an important role in decomposition of organic matter, nutrient cycling, and soil formation. Oribatid mites in litter, lichen, moss, and soil collected from Sakarya and Yozgat provinces were sampled between 2014 and 2020. Standard methods were used for extraction, detection, preservation, and preparation of mites from the material collected from study area. Five oribatid mites were for the first time recorded from Turkey, namely Mesotritia (Mesotritia) nuda (Berlese, 1887) (Oribotritiidae), Hoplophorella (Rhacaplacarus) ortizi (Pérez-Íñigo, 1970) (Phthiracaridae), Eremaeus translamellatus Hammer, 1952 (Eremaeidae), Oribatella (Oribatella) foliata Krivolutsky, 1974 …

Ant Fauna (Hymenoptera: Formicidae) Of Central Anatolian Region Of Turkey, Kadri̇ Kiran, Celal Karaman

Turkish Journal of Zoology

The Central Anatolian part of Turkey was investigated with the aim of determining its Formicidae fauna. Specimens were collected by hand sampling and pitfall traps in 24 habitats in 383 different localities in Central Anatolia Region during 2001-2016. As a result, 137 species belonging to 34 genera were determined. Messor incorruptus Kuznetsov-Ugamsky, 1929 and Ponera testacea Emery, 1895 are new records for Turkish ant fauna. We excluded four species, Camponotus sylvaticus (Oliver, 1792), Messor meridionalis (André, 1883), Proformica striaticeps (Forel, 1911) and Tapinoma nigerrimum (Nylander, 1856), from Turkish ant fauna due to recent taxonomic data and distribution pattern. With these …

Insectum Non Grata: The Harlequin Ladybird, Harmonia Axyridis (Pallas, 1773)(Coleoptera, Coccinellidae) In Turkey, Ahmet Karataş, Ayşegül Karataş, Ni̇zametti̇n Yavuz, Eli̇f Deni̇z Ülker, Özgür Koçak, Burak Akbaba

Turkish Journal of Zoology

The Harlequin Ladybird, Harmonia axyridis (Pallas, 1773), is native to Eastern Asia but it has been introduced to many countries in Africa, America, and Eurasia. In Turkey, H. axyridis is one of the most fast-spreading invasive alien species. Since the collection of the first specimens in 2010, H. axyridis spread almost all over the country. The species spreads fast in Turkey according to the new records, obtained originally from the field studies and the citizen science data. It was recorded for the first time from 19 of 81 Turkish provinces (Ankara, Antalya, Balıkesir, Bolu, Bursa, İstanbul, İzmir, Karaman, Kastamonu, Kırklareli, …

Capoeta Kosswigi Karaman, 1969 A Junior Synonym Of Capoeta Damascina(Valenciennes, 1842) (Teleostei: Cyprinidae), Erdoğan Çi̇çek, Soheil Eagderi, Burak Seçer, Sevi̇l Sungur

Turkish Journal of Zoology

Capoeta kosswigi was described from Lake Van basin, Turkey, being close to C. damascina and C. umbla. It is distinguished from them by a pointed snout and a small horseshoe-shaped mouth, and differing from C. damascina by having smaller scales, and from the C. umbla by processing larger scales. In this study, we tested the suggested synonymy hypothesis of C. kosswigi and C. damascina by comparing the morphometric and meristic data. The results revealed that all morphometric and meristic characters of C. kosswigi overlap with those of C. damascina. In line with previous molecular studies that COI, cytb and 16S …

Potential Solar Replacement Of Hydroelectricity To Reopen Rivers: Maine As A Case Example, Shailesh Sharma, John Waldman

Publications and Research

Hydroelectricity provides 6% of U.S. electrical power needs, but hydro-dams also cause environmental harm, including the retardation or complete blockage of spawning runs of anadromous fishes. To facilitate fish movements, engineered-fishways have long been used but many have performed poorly. Dam-removal is the most effective way of restoring dwindling migratory fish populations by allowing unrestricted pathways to their spawning areas and for the downstream migrations of post-spawning adults and juveniles. However, removals of hydro-dams result in a loss of electricity production. For the replacement of energy foregone from hydro-dam removals, various alternative energy installations are now feasible. We present one-to-one …

Multi-Level Movement Response Of Invasive Wild Pigs (Sus Scrofa) To Removal, Guillaume Bastille-Rousseau, Peter E. Schlichting, David A. Keiter, Joshua B. Smith, John C. Kilgo, George Wittemyer, Kurt C. Vercauteren, James C. Beasley, Kim M. Pepin

United States Department of Agriculture Wildlife Services: Staff Publications

BACKGROUND: Lethal removal of invasive species, such as wild pigs (Sus scrofa), is often the most efficient approach for reducing their negative impacts. Wild pigs are one of the most widespread and destructive invasive mammals in the USA. Lethal management techniques are a key approach for wild pigs and can alter wild pig spatial behavior, but it is unclear how wild pigs respond to the most common removal technique, trapping.We investigated the spatial behavior of wild pigs following intensive removal of conspecifics via trapping at three sites within the Savannah River Site, SC, USA. We evaluated changes in …

Evaluating The Effects Of Mountain Beaver (Aplodontia Rufa) Management On Conifer Stocking In Western Oregon, Jimmy D. Taylor, Vanessa M. Petro

United States Department of Agriculture Wildlife Services: Staff Publications

Mountain beaver (Aplodontia rufa) is the most primitive rodent species in North America and is endemic to the Pacific Northwest, USA. Within their range, mountain beaver cause more conflict with conifer forest regeneration than any other vertebrate species. Most damage occurs as a result of clipping and browsing new seedlings, which reduces stocking density and delays stand development. An integrated approach using trapping and a registered toxicant (baiting) has been suggested as the most efficacious means to reduce seedling loss during stand initiation. We evaluated this management strategy in intensively managed conifer stands across two mountain ranges in …

Principal Economic Effects Of Cormorant Predation On Catfish Farms, Carole R. Engle, Terrel W. Christie, Brian S. Dorr, Ganesh Kumar, Luke A. Roy, Anita M. Kelly

United States Department of Agriculture Wildlife Services: Staff Publications

Substantial economic losses of farmed catfish to fish-eating birds such as the double-crested cormorant, Phalacrocorax auritus, continue to be reported on U.S. catfish farms. An economic analysis was conducted of the on-farm effects of both the increased expenditures to scare fish-eating birds from catfish farms and of the value of the catfish that were consumed by cormorants. A survey was conducted of U.S. catfish farmers in the Delta region of Mississippi and Arkansas, to obtain farm-level data on expenditures to scare birds. Estimations of the lost revenue from catfish consumed by cormorants were developed from a concurrent study on …

Variation In Angiostrongylus Cantonensis Infection In Definitive And Intermediate Hosts In Hawaii, A Global Hotspot Of Rat Lungworm Disease, Chris Niebuhr, Shane R. Siers, Israel Leinbach, Lisa M. Kaluna, Susan I. Jarvi

United States Department of Agriculture Wildlife Services: Staff Publications

Angiostrongylus cantonensis (rat lungworm) is a tropical and subtropical parasitic nematode, with infections in humans causing angiostrongyliasis (rat lungworm disease), characterized by eosinophilic meningitis. Hawaii has been identified as a global hotspot of infection, with recent reports of high infection rates in humans, as well as rat definitive and snail intermediate hosts. This study investigated variation in A. cantonensis infection, both prevalence and intensity, in wild populations of two species of rats (Rattus exulans and R. rattus) and one species of snail (Parmarion martensi). An overall infection prevalence of 86.2% was observed in P. martensi and …

Peptide Elisa And Fret-Qpcr Identified A Significantly Higher Prevalence Of Chlamydia Suis In Domestic Pigs Than In Feral Swine From The State Of Alabama, Usa, Md Monirul Hoque, Folasade Adekanmbi, Subarna Barua, Kh. Shamsur Rahman, Virginia Aida, Brian Anderson, Anil Poudel, Anwar Kalalah, Sara Bolds, Steven Madere, Steven Kitchens, Stuart Price, Vienna Brown, B. Graeme Lockaby, Constantinos S. Kyriakis, Bernhard Kaltenboeck, Chengming Wang

United States Department of Agriculture Wildlife Services: Staff Publications

Chlamydia suis is an important, highly prevalent, and diverse obligate intracellular pathogen infecting pigs. In order to investigate the prevalence and diversity of C. suis in the U.S., 276 whole blood samples from feral swine were collected as well as 109 fecal swabs and 60 whole blood samples from domestic pigs. C. suis-specific peptide ELISA identified anti-C. suis antibodies in 13.0% of the blood of feral swine (26/276) and 80.0% of the domestic pigs (48/60). FRET-qPCR and DNA sequencing found C. suis DNA in 99.1% of the fecal swabs (108/109) and 21.7% of the whole blood (13/60) of …

Behavioral State Resource Selection In Invasive Wild Pigs In The Southeastern United States, Lindsay M. Clontz, Kim M. Pepin, Kurt C. Vercauteren, James C. Beasley

United States Department of Agriculture Wildlife Services: Staff Publications

Elucidating correlations between wild pig (Sus scrofa) behavior and landscape attributes can aid in the advancement of management strategies for controlling populations. Using GPS data from 49 wild pigs in the southeastern U.S., we used hidden Markov models to define movement path characteristics and assign behaviors (e.g., resting, foraging, travelling). We then explored the connection between these behaviors and resource selection for both sexes between two distinct seasons based on forage availability (i.e., low forage, high forage). Females demonstrated a crepuscular activity pattern in the high-forage season and a variable pattern in the low-forage season, while males exhibited nocturnal activity …

Efficacy And Risks From A Modified Sodium Nitrite Toxic Bait For Wild Pigs, Nathan P. Snow, Jason Wishart, Justin A. Foster, Linton D. Staples, Kurt C. Vercauteren

United States Department of Agriculture Wildlife Services: Staff Publications

BACKGROUND: Wild pigs (Sus scrofa) are a destructive invasive species throughout many regions of the world. In 2018, a field evaluation of an early prototype of a sodium nitrite (SN) toxic bait in the United States revealed wild pigs dropped large amounts of the toxic bait outside the pig-specific bait stations while feeding, and thus subsequent hazards for non-target animals. We modified the SN-toxic bait formulation, the design of the bait station, and the baiting strategy to reduce dropped bait. We tested the modifications in Queensland, Australia (December 2018), Alabama, USA (August 2019), and Texas, USA (March 2020) …

Daily And Landscape Influences Of Species Visitation To Toxic Bait Sites For Wild Pigs, Nathan P. Snow, Joseph M. Halseth, Michael P. Glow, Michael Lavelle, Justin Fischer, Eric H. Vannatta, Kurt C. Vercauteren

United States Department of Agriculture Wildlife Services: Staff Publications

Toxic baiting of wild pigs (Sus scrofa) is a potential new tool for population control and damage reduction in the United States. Use of toxic bait sites by non‐target species is concerning because of the risks posed from exposure to a toxic bait. A 2018 field trial in northern Texas, USA, examining the efficacy of a prototype toxic bait (HOGGONE®, containing 10% sodium nitrite) revealed unexpected hazards to non‐target species, primarily passerine birds, from consuming toxic bait spilled outside of bait stations by wild pigs. The hazards jeopardize the ability to register HOGGONE as a tool for controlling …

Effects Of Social Structure And Management On Risk Of Disease Establishment In Wild Pigs, Anni Yang, Peter E. Schlichting, Bethany Wight, Wesley M. Anderson, Sarah M. Chinn, Mark Q. Wilber, Ryan S. Miller, James C. Beasley, Raoul Boughton, Kurt C. Vercauteren, George Wittemyer, Kim M. Pepin

United States Department of Agriculture Wildlife Services: Staff Publications

1. Contact heterogeneity among hosts determines invasion and spreading dynamics of infectious disease, thus its characterization is essential for identifying effective disease control strategies. Yet, little is known about the factors shaping contact networks in many wildlife species and how wildlife management actions might affect contact networks.

2. Wild pigs in North America are an invasive, socially structured species that pose a health concern for domestic swine given their ability to transmit numerous devastating diseases such as African swine fever (ASF). Using proximity loggers and GPS data from 48 wild pigs in Florida and South Carolina, USA, we employed a …

Distribution And Abundance Of Scaup Using Baitfish And Sportfish Farms In Eastern Arkansas, Stephen A. Clements, Brian S. Dorr, Brian Davis, Luke A. Roy, Carole R. Engle, Katie C. Hanson-Dorr, Anita M. Kelly

United States Department of Agriculture Wildlife Services: Staff Publications

Arkansas' bait- and sportfish facilities are commonly used by various piscivorous bird species, including lesser scaup (Aythya affinis) and greater scaup (A. marila) that consume substantial quantities of fish. To mediate this predation, farmers implement extensive bird harassment programs that create additional costs to fish loss, thus research investigating the distribution and abundance of scaup is needed to help farmers allocate their bird harassment efforts more efficiently. In winters 2016–2017 and 2017–2018 we conducted 1,368 pond surveys to investigate pond use by scaup on farms during birds' regular wintering period (i.e., November–March). We used intrinsic and …

Avian Influenza A Viruses Reassort And Diversify Differently In Mallards And Mammals, Ketaki Ganti, Anish Bagga, Juliana Dasilva, Samuel S. Shepard, John R. Barnes, Susan A. Shriner, Katia Koelle, Anice C. Lowen

United States Department of Agriculture Wildlife Services: Staff Publications

Reassortment among co-infecting influenza A viruses (IAVs) is an important source of viral diversity and can facilitate expansion into novel host species. Indeed, reassortment played a key role in the evolution of the last three pandemic IAVs. Observed patterns of reassortment within a coinfected host are likely to be shaped by several factors, including viral load, the extent of viral mixing within the host and the stringency of selection. These factors in turn are expected to vary among the diverse host species that IAV infects. To investigate host differences in IAV reassortment, here we examined reassortment of two distinct avian …

Recolonizing Carnivores: Is Cougar Predation Behaviorally Mediated By Bears?, Kristin N. Engebretsen, Jon P. Beckmann, Carl W. Lackey, Alyson M. Andreasen, Cody Schroeder, Pat Jackson, Julie K. Young

United States Department of Agriculture Wildlife Services: Staff Publications

Conservation and management efforts have resulted in population increases and range expansions for some apex predators, potentially changing trophic cascades and foraging behavior. Changes in sympatric carnivore and dominant scavenger populations provide opportunities to assess how carnivores affect one another. Cougars (Puma concolor) were the apex predator in the Great Basin of Nevada, USA, for over 80 years. Black bears (Ursus americanus) have recently recolonized the area and are known to heavily scavenge on cougar kills. To evaluate the impacts of sympatric, recolonizing bears on cougar foraging behavior in the Great Basin, we investigated kill sites of 31 cougars between …

The Consequences Of Predators Without Prey, Mitchell A. Parsons, Thomas M. Newsome, Julie K. Young

United States Department of Agriculture Wildlife Services: Staff Publications

Rapid and ongoing environmental change is leading to scenarios where marine and terrestrial predators are persisting without prey, either by scavenging or using anthropogenic foods. Despite investigations into the effects of predator presence or absence on prey behavior and ecology, little research has assessed the effect of prey absence on predators. Here, we synthesize research on scavenging and the use of anthropogenic resources by marine and terrestrial predators; hypothesize how the use of these resources may change predator behavior with respect to their social structure, space use, life history, and individual behavioral traits; and illustrate how these changes are likely …

Improving Evaluation Of Nonlethal Tools For Carnivore Management And Conservation: Evaluating Fladry To Protect An Endangered Species From A Generalist Mesocarnivore, R. M. Windell, L. L. Bailey, J. K. Young, T. M. Livieri, D. A. Eads, S. W. Breck

United States Department of Agriculture Wildlife Services: Staff Publications

Carnivore conservation and management are global research priorities focused on reversing population declines of imperiled species and identifying more effective and humane management of generalist carnivores with thriving populations. Nonlethal methods to mitigate conflict are increasingly used to advance conservation objectives; however, there is limited knowledge about the effectiveness of many nonlethal methods. We tested a nonlethal tool (fladry), that serves as a barrier to deter wolves Canis lupus and coyotes Canis latrans, for its efficacy at preventing coyotes from using prairie dog Cynomys ludovicianus colonies, the primary prey for critically endangered black-footed ferrets Mustela nigripes. We used …

Social Media As A Window Into Human-Wildlife Interactions And Zoonotic Disease Risk: An Examination Of Wild Pig Hunting Videos On Youtube, Hailey E. Mclean, Lauren M. Jaebker, Aaron M. Anderson, Tara L. Teel, Alan D. Bright, Stephanie A. Shwiff, Keith M. Carlisle

United States Department of Agriculture Wildlife Services: Staff Publications

Wild pigs (Sus scrofa) damage agriculture and the environment, as well as transmit diseases to animals and people. Hunters are particularly vulnerable to zoonotic disease risks when harvesting wild pigs. Management agencies have endeavored to inform the public about disease risks associated with wild pigs and best practices for mitigating such risks. However, the extent that this guidance has reached hunters and influenced their practices is unclear. We approached this topic through an analysis of wild pig hunting videos on YouTube. We found evidence of relatively few behaviors and communications regarding disease risks and best practices for personal …

Relative Acceptance Of Brodifacoum Pellets And Soft Bait Sachets By Polynesian Rats (Rattus Exulans) On Wake Atoll, Peter J. Kappes, Shane R. Siers

United States Department of Agriculture Wildlife Services: Staff Publications

Removing invasive rats from island ecosystems using rodenticides has proven conservation benefits and is an important management tool for conserving and restoring island ecosystems. However, rodenticide-based eradications can fail if not all rats consume enough bait to result in lethal toxicosis. A recent post-operational review of a failed attempt to eradicate rats from Wake Atoll suggested that some individuals may not have ingested a lethal dose of rodenticide due to potential dietary and/or sensory preferences developed via regular access to anthropogenic food sources. These food sources may be higher in fats and oils, possessing different sensory properties (e.g., softer, chewier, …