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Genomic Population Structure Of Great Hammerhead Sharks (Sphyrna Mokarran) Across The Indo-Pacific, Naomi L. Brunjes, Samuel M. Williams, Alexis L. Levengood, Matt K. Broadhurst, Vincent Raoult, Alastair V. Harry, Matias Braccini, Madeline E. Green, Julia L. Y. Spaet, Michael J. Travers, Bonnie J. Holmes

Fisheries Research Articles

Context

Currently, little information exists describing the population structure of great hammerhead sharks (Sphyrna mokarran) in Australian waters. Aims

This study used single nucleotide polymorphisms to investigate fine-scale population structure in S. mokarran across the Indo-Pacific. Methods

DNA was extracted from 235 individuals across six Australian locations and a Red Sea outgroup. Population parameters were calculated and visualised to test structuring across locations. Key results

No fine-scale population structuring was observed for S. mokarran across the Indo-Pacific. However, population structuring occurred for all Australian locations when compared to the Red Sea outgroup. Conclusions

Findings suggest a single stock …

Assessing The Impacts Of Anthropogenic Activities On Coral Reef Health In Ushongo, Tanzania Using Coral Diversity And Parrotfish Abundance As Indicators, Thao Mai

Independent Study Project (ISP) Collection

Coral reefs, covering two-thirds of our oceans, are vital and diverse ecosystems, earning them the nickname of “rainforests of the sea”. Despite occupying only 1% of the ocean’s floor, they support 25% of all marine species, providing shelter, nursery ground and food, all the while also protecting the coast and providing job opportunities for local communities. Considered keystone species, coral reefs are highly sensitive to disturbances caused by pollution, climate change, but also anthropogenic activities such as coastal development, destructive fishing practices and tourism, endangering their existence and the entire marine ecosystem. Parrotfish, a crucial resident of these ecosystems, often …

Early Report Of A Microcosm Of The Fourth Major Global Bleaching Event: A Comprehensive Survey Of Coral Bleaching At Chumbe Island Coral Park, Zanzibar, Christian Boudreaux

Independent Study Project (ISP) Collection

Coral reefs harbor a wealth of the biodiversity present in the ocean. They provide an array of ecological and economic services that make them crucial to the function of a healthy ocean and prosperous coastal communities. Due to an array of anthropogenic stressors, including an increase in ocean temperatures as a result of climate change, reefs have been devastated worldwide. This is, in large part, due to the process of coral bleaching, the expelling of symbiont algae which the coral needs to produce energy, for an extended period until death. This study surveyed bleaching and death at a deeper and …

Feasibility Study Of Coral Farming In Southwest Madagascar: In-Situ And Ex-Situ Approaches, Raquel Reis

Independent Study Project (ISP) Collection

The southwest coast of Madagascar is home to hundreds of miles of coral reefs that for decades have been susceptible to intense degradation due to anthropogenic influences on marine environments. For reasons involving economic opportunity, conservation strategies, human health safeguarding and advancements to coral research, coral aquaculture in the Toliara region presents an opportunity to restore quality of life and the environment. Other countries in the west Indian ocean have seen great success in coral aquaculture; however, Madagascar, despite having ideal natural circumstances, has not deeply explored coral aquaculture. This review presents an investigation into the feasibility of coral farming, …

Variations In Salinity And Forest Structure Between Marginal And Cloistered Mangrove Forests In Boca Del Drago, Bocas Del Toro, Panama, Mary Elizabeth Hodge

Independent Study Project (ISP) Collection

Mangroves are incredibly important ecosystems that have an outsized impact on their surroundings, providing crucial ecosystem services like carbon sequestration and coastal protection. At the same time, mangroves are some of the most threatened habitats due to their valuable position along tropical coastlines. Globally, mangrove forests are deforested and degraded by aquaculture, tourism developments, urbanization, and overharvesting. Due to high rates of mangrove loss, mangrove deforestation is now illegal in Panama, though this legislation is inconsistent and allows for exceptions, especially in tourism developments. This study aims to probe the impacts of localized coastal developments on a small mangrove forest …

Avian Diversity And Abundance Among Agricultural Land, Forested Land, And Their Ecotone In Guadalupe, Cerro Punta, Chiriquí Province, Republic Of Panamá., Stella Rae Kinard

Independent Study Project (ISP) Collection

As the human population increases, finding the balance between modifying land use for resources and protecting areas to preserve species that are threatened by anthropogenic disturbance is an ever growing problem. Guadalupe is a town in the Western Highlands of Panamá that struggles in this balance as its primary income source is agriculture, but it is located on the border of two protected areas, Parque Nacional La Amistad and Parque Nacional Volcán Barú. By understanding the unique ways in which avifauna utilize distinct vegetative landscapes, recommendations can be made for management styles of farms in Guadalupe to implement practices that …

Vertebrate Diversity In The La Amistad International Park Buffer Zone, Guadalupe, Chiriqui, Panamá, Mina Olson

Independent Study Project (ISP) Collection

Forest fragmentation and increasing agricultural land use are posing threats to the diversity of vertebrates in Panama and across the Mesoamerican Biological Corridor. Protected areas are crucial for providing connectivity and maintaining vertebrate populations. For endemic species with small native ranges, these protected areas are critical for their survival due to sensitivity of habitat change. Higher species diversity and occupancy has been reported for both birds and mammals in protected and forested areas. This pilot survey of vertebrate species was conducted to determine which species live in a primary forest within the buffer zone of La Amistad International Park near …

Vascular Epiphyte Population Dynamics Within Human-Modified Landscapes Of Guadalupe, Cerro Punta, Chiriquí, Panamá, Lucine Tashjian

Independent Study Project (ISP) Collection

Epiphytes are plants that grow on other plants non-parasitically, and globally, epiphytes compose a very large and diverse group. They are especially abundant and species-rich in the tropics- particularly, in tropical montane forest ecosystems. Human population growth in the tropics, however, has resulted in significant declines in forest cover with land being converted largely for agricultural purposes. Studies on epiphytes have traditionally been undertaken in pristine, undisturbed forest ecosystems, yet terrestrial land conversion has increased the need to understand the value of human-modified ecosystems for epiphytic populations and biodiversity conservation. This study sought to understand the relationship between human modification …

Demographic Consequences Of Off-River Nesting For Piping Plover (Charadrius Melodus) And Interior Least Tern (Sternula Antillarum Athalassos) In The Lower Platte River System, Nebraska, Elsa M. Forsberg

School of Natural Resources: Dissertations, Theses, and Student Research

Piping plovers (Charadrius melodus; hereafter, plovers) and interior least terns (Sternula antillarum athalassos; hereafter, terns) are two avian species that nest along the Lower Platte River system (LPRS) in Nebraska. In the LPRS, river sandbars provide natural nesting habitat, but off-river sites provide substantial nesting habitat especially when sandbar habitat is scarce. Although presumed to be important for the persistence of plovers and terns, off-river habitat is not self-sustaining and predicted to decline. Understanding the vital rates of plovers and terns in the LPRS will inform the role of off- river sites in the future conservation …

Experimental Sars-Cov-2 Infection Of Elk And Mule Deer, Stephanie M. Porter, Airn E. Hartwig, Helle Bielefeldt-Ohmann, Jeffrey M. Marano, J. Jeffrey Root, Angela M. Bosco-Lauth

United States Department of Agriculture Wildlife Services: Staff Publications

To assess the susceptibility of elk (Cervus canadensis) and mule deer (Odocoileus hemionus) to SARS-CoV-2, we performed experimental infections in both species. Elk did not shed infectious virus but mounted low-level serologic responses. Mule deer shed and transmitted virus and mounted pronounced serologic responses and thus could play a role in SARS-CoV-2 epidemiology.

A Coupled Model Of Population, Poaching, And Economic Dynamics To Assess Rhino Conservation Through Legal Trade, Henry Doyle, Kylie Champagne, Ditto Rajpal, Grace Seebeck, David J. Gerberry

Spora: A Journal of Biomathematics

Rhinoceros populations in Africa are in peril largely due to the high value of their horns and the poaching that ensues. The strategy of legalizing the international trade of rhino horn is receiving increased support among both the people and government officials in Africa. Many in the international conservation community remain opposed to the idea. The legalization strategy is straightforward in theory: legalizing the trade of rhino horn will introduce a large quantity of horn to the market, the increased supply will lead to lower prices for rhino horn, and lower prices will reduce the overall poaching pressure these animals …

Fauna, Flora, And Land Cover Changes Over The Last Two Decades In The Mobile-Tensaw River Delta, Gabriel De Oliveria, Steven R. Schultze, Guilherme Mataveli

Technical Reports

A technical report documenting ecosystem changes to the Mobile-Tensaw River Delta region due to urban expansion over approximately two decades (2001-2019).

The Comparison Of Different Wetland Fish Assemblages Over Time, Robert Edward Adelstein

Theses, Dissertations and Capstones

Wetlands provide essential ecosystem services. Historically, we have drained and filled 73% of wetlands for agricultural use throughout the United States from the 1780s to the 1980s (Dahl, 1990). A nationwide focus on restoring wetlands has since occurred. Literature on restored/mitigated wetlands is rife with examples that do and do not support the same ecosystem services as natural wetlands (Langston, 1997; Meil, 2014). Restoration of wetlands occurred at the Green Bottom Wildlife Management Area (GBWMA) over several decades. Various sections of the wetland were classified by age, water depth, and vegetation. One hypothesis was that differences in fish assemblage would …

Limitations Of Invasive Snake Control Tools In The Context Of A New Invasion On An Island With Abundant Prey, Shane R. Siers, Melia G. Nafus, Jereid E. Calaor, Rachel M. Volsteadt, Matthew S. Grassi, Megan Volsteadt, Aaron F. Collins, Patrick D. Barnhart, Logan T. Huse, Amy A. Yackel Adams, Diane L. Vice

United States Department of Agriculture Wildlife Services: Staff Publications

In October 2020, a new population of invasive brown treesnakes (Boiga irregularis) was discovered on the 33-ha Cocos Island, 2.5 km off the south coast of Guam, United States. Cocos Island is a unique conservation resource, providing refuge for many lizards and birds, including endangered species, which were extirpated from mainland Guam by invasive predators including brown treesnakes. We sought to evaluate the usefulness of toxic baiting with acetaminophen-treated carrion baits and cage trapping, common tools for the control of brown treesnakes on mainland Guam, as potential eradication tools on Cocos Island. We evaluated multiple bait types and …

Site-Specific Space Use And Resource Selection By Black Vultures (Coragyps Atratus) In The Southeastern Usa, Betsy Evans, John S. Humphrey, Eric A. Tillman, Michael L. Avery, Bryan M. Kluever

United States Department of Agriculture Wildlife Services: Staff Publications

North American populations of Black Vultures Coragyps atratus have increased and expanded their distribution in the southern and eastern USA. In conjunction with these patterns has been a rise in human–vulture conflicts. To improve our understanding of space use patterns and better inform management, we evaluated the movements of Black Vultures (n = 23) in the southeastern USA using a long-term GPS tracking database. Our specific objectives were to: (1) quantify home-range sizes in relation to season and geographical study location and (2) examine within-home-range resource selection to identify landscape and anthropogenic factors influencing roost and diurnal space use. …

Antipredator Blood-Squirting Defense In Horned Lizards (Phrynosoma): Chemical Isolation Of Plasma Component(S), Pogonomyrmex Ant Dietary Origin, And Evolution, Wade C. Sherbrooke, Bruce A. Kimball

United States Department of Agriculture Wildlife Services: Staff Publications

North American horned lizards of the genus Phrynosoma are largely myrmecophagous and squirt systemic blood from circumocular sinuses during encounters with certain mammalian predators. The predators react with distinct revulsion. Using bioassay-guided fractionation of blood plasma, we endeavored to identify the source and characteristics of the active chemical compound(s) responsible for this negative oral response. Our results of coyote bioassays and a series of novel mouse bioassay experiments were largely concordant. The active compound(s) was likely plasma-borne with a molecular weight (mw) of between 800 and 1,600. To identify the source of the active compound(s), we noted bioassay responses …

Eradication Of Feral Swine From A Barrier Island In Florida, Usa: An Examination Of Effort And Multi-Method, Multi-Species Population Indexing, Richard M. Engeman, Eric A. Tillman, Betsy A. Evans, John C. Griffin, Garrison Grobaski, Bradley S. Smith, John Stark, Bryan M. Kluever

United States Department of Agriculture Wildlife Services: Staff Publications

Feral swine (Sus scrofa) were targeted for and successfully eradicated from Saint Vincent Island (SVI), a National Wildlife Refuge (NWR) along the coast of Florida’s panhandle to protect its habitats and uncharacteristically high diversity of wildlife species for barrier islands in the region, including federal and state-listed threatened and endangered species. The eradication effort was initiated in early 2015 and concluded in 2019. A total of 438 feral swine were removed from the Island, 417 by federal control experts and 21 by recreational hunters. In general, the amount of effort needed to eradicate each feral swine slowly increased …

Downed Wood Removal Effects On Survival And Site Fidelity Of Woodrats In A California Oak Woodland, Timothy J. Smyser, Michael A. Hardy, Amy J. Davis, William L. Preston, William D. Tietje

United States Department of Agriculture Wildlife Services: Staff Publications

Owing to the increasing intensity and frequency of wildfires in the western United States, the removal of woody debris (downed dead wood and snags) from fire‐prone landscapes is being evaluated for wildfire mitigation. Consequently, the study of the ecological value of coarse woody debris to sustain dependent species has become of foremost importance. From 2004–2009, we used a before‐after control‐impact (BACI) study design to assess the effects of downed wood removal on a population of big‐eared woodrats (Neotoma macrotis) in an oak woodland (Quercus spp.) in coastal‐central California, USA. Using Pollock's robust design mark‐recapture analyses (with 12 …

High Thermal Quality Rookeries Facilitate High Thermoregulatory Accuracy In Pregnant Female Rattlesnakes, Haley A. Moniz, Jack Henry Buck, Hayley L. Crowell, Scott M. Goetz, Trevor D. Ruiz, Emily N. Taylor, Scott M. Bobacks

United States Department of Agriculture Wildlife Services: Staff Publications

Temperature is a primary factor influencing organismal development, and the fluctuating daily and seasonal thermal regimes of temperate climates may challenge the ability of viviparous reptiles to optimize body temperatures during gestation. Testing how viviparous reptiles navigate highly variable thermal conditions (e.g., relatively cold nights and/or highly fluctuating temperatures) is a powerful way to understand how they use microhabitats for thermoregulatory benefits. We assessed the thermal ecology of pregnant and non-pregnant female prairie rattlesnakes (Crotalus viridis) inhabiting a high-elevation, montane shrubland in northwest Colorado throughout their short summer active season, addressing the thermal consequences of microhabitat selection with …

Characterizing Feral Swine Movement Across The Contiguous United States Using Neural Networks And Genetic Data, Rachael M. Giglio, Courtney F. Bowden, Ryan K. Brook, Antoinette J. Piaggio, Timothy J. Smyser

United States Department of Agriculture Wildlife Services: Staff Publications

Globalization has led to the frequent movement of species out of their native habitat. Some of these species become highly invasive and capable of profoundly altering invaded ecosystems. Feral swine (Sus scrofa × domesticus) are recognized as being among the most destructive invasive species, with populations established on all continents except Antarctica. Within the United States (US), feral swine are responsible for extensive crop damage, the destruction of native ecosystems, and the spread of disease. Purposeful human-mediated movement of feral swine has contributed to their rapid range expansion over the past 30 years. Patterns of deliberate introduction of …

Bayesian Integrated Species Distribution Models For Hierarchical Resource Selection By A Soaring Bird, Ryo Ogawa, Guiming Wang, L. Wes Burger, Bronson Strickland, J. Brian Davis, Fred L. Cunningham

United States Department of Agriculture Wildlife Services: Staff Publications

Migratory birds exhibit seasonal geographic range (hereafter, range) dynamics during the annual cycle. Few studies have examined how migratory birds select their habitats for range occupancy at the species level and space use at the individual level simultaneously. We hypothesized that environmental variables directly related to fitness components would affect the range occupancy probabilities of migrants, whereas environment variables related to movements and flights would affect the space use intensities of migrants. We built Bayesian integrated species distribution models (ISDMs) to evaluate the effects of climate conditions, wind conditions, and landcover compositions on the seasonal range dynamics of American white …

Raccoon Density Estimation From Camera Traps For Raccoon Rabies Management, Amy J. Davis, Wesley C. Dixon, Richard B. Chipman, Amy T. Gilbert, Jacob E. Hill, James C. Beasley, Olin E. Rhodes Jr., Guha Dharmarajan

United States Department of Agriculture Wildlife Services: Staff Publications

Density estimation for unmarked animals is particularly challenging, yet density estimates are often necessary for effective wildlife management. Raccoons (Procyon lotor) are the primary terrestrial wildlife reservoir for Lyssavirus rabies within the United States. The raccoon rabies variant (RRVV) is actively managed at landscape scales using oral rabies vaccination (ORV) within the eastern United States. To effectively manage RRVV, it is important to know the density of raccoons to appropriately scale the density of ORV baits distributed on the landscape. We compared methods to estimate raccoon densities from camera‐trap data versus more intensive capture‐mark‐recapture (CMR) estimates across 2 …

Landscape-Scale Epidemiological Dynamics Of Sars-Cov-2 In White-Tailed Deer, Joshua Hewitt, Grete Wilson-Henjum, Derek T. Collins, Timothy J. Linder, Julianna B. Lenoch, Jonathan D. Heale, Christopher A. Quintanal, Robert Pleszewski, Dillon S. Mcbride, Andrew S. Bowman, Jeffrey C. Chandler, Susan A. Shriner, Sarah N. Bevins, Dennis J. Kohler, Richard B. Chipman, Allen L. Gosser, David L. Bergman, Thomas J. Deliberto, Kim M. Pepin

United States Department of Agriculture Wildlife Services: Staff Publications

Understanding pathogen emergence in new host species is fundamental for developing prevention and response plans for human and animal health. We leveraged a large-scale surveillance dataset coordinated by United States Department of Agriculture, Animal and Plant Health Inspection Service and State Natural Resources Agencies to quantify the outbreak dynamics of SARS-CoV-2 in North American white-tailed deer (Odocoileus virginianus; WTD) throughout its range in the United States. Local epidemics in WTD were well approximated by a single-outbreak peak followed by fade out. Outbreaks peaked early in the northeast and mid- Atlantic. Local effective reproduction ratios of SARS-CoV-2 were between …

What Is Known, Unknown, And Needed To Be Known About Damage Caused By Wild Pigs, Kurt C. Vercauteren, Kim M. Pepin, Seth M. Cook, Sophie Mckee, Abigail Pagels, Keely J. Kohen, Ingrid A. Messner, Michael P. Glow, Nathan P. Snow

United States Department of Agriculture Wildlife Services: Staff Publications

Damage assessments provide evidence for initiating and evaluating management programs that protect natural resources and human livelihoods against invasive species. Wild pigs (Sus scrofa) cause extensive damage in their native and non-native ranges, but the extent of current damage and efficacy of management of the damage (i.e., population control of wild pigs, exclusion fencing, etc.) remains poorly described. We conducted a systematic review of physical damage caused by wild pigs to summarize what is known and identify knowledge gaps for damage assessment. Wild pig damage assessments have been overwhelmingly qualitative (84% of studies) and measured differently across studies, …

Tracking Sero-Molecular Trends Of Swine Brucellosis In Hawai'i And The Central Pacific, Thi Hai Au La, Ian A. Mcmillan, Prashant Dahal, Andrew H. Burger, Mahdi Belcaid, Darrin M. Phelps, Samuel M. Goldstein, Vienna R. Brown, Michael H. Norris

United States Department of Agriculture Wildlife Services: Staff Publications

Introduction

Brucellosis is a zoonotic disease of mammals caused by bacterial species of the Brucella genus. The reservoir for disease is typically mammals, with species of Brucella found infecting amphibians, bats, and marine mammals. Brucella spp. can pass directly to humans through contact with infected animals or their products. Brucella spp. can cause chronic debilitating infections in mammals, including humans, and is associated with spontaneous abortions in infected animals, causing reduced fecundity. In Hawai‘i, terrestrial species that could harbor Brucella spp. include swine, cattle, horses, and axis deer among others. The numerous feral swine in Hawai‘i are known to carry …

Genetic Tracking Of A Rabid Coyote (Canis Latrans) Detected Beyond A Rabies Enzootic Area In West Virginia, Usa, Matthew W. Hopken, Crystal Gigante, Amy T. Gilbert, Richard B. Chipman, Jordana D. Kirby, Rene Edgar Condori, Samuel Mills, Chelsea Hartley, John Forbes, Lisa Dettinger, Dongxiang Xia, Yu Li, Bridgett Vonholdt

United States Department of Agriculture Wildlife Services: Staff Publications

Wildlife translocation and cross-species transmission can impede control and elimination of emerging zoonotic diseases. Tracking the geographic origin of both host and virus (i.e., translocation versus local infection) may help determine the most effective response when high-risk cases of emerging pathogens are identified in wildlife. In May 2022, a coyote (Canis latrans) infected with the raccoon (Procyon lotor) rabies virus variant (RRV) was collected in Lewis County, West Virginia, USA, an area free from RRV. We applied host population genomics and RRV phylogenetic analyses to determine the most likely geographic origin of the rabid coyote. Coyote …

Evaluating The Trojan Y Chromosome Strategy For The Removal Of Invasive Sacramento Pikeminnow From The Eel River, Ca, Alexander W. Juan

Cal Poly Humboldt theses and projects

The recent introduction and spread of Sacramento Pikeminnow (Ptychocheilus grandis) in Northern California’s Eel River Basin represents a significant threat and impediment to the recovery of several threatened native fish species. This study was undertaken to evaluate the Trojan Y Chromosome Strategy (TYC) for the extirpation of pikeminnow from the basin. TYC is a genetic biocontrol method that relies on the production and stocking of fish with YY sex chromosomes, which may be phenotypically male (YY male) or female (YY female). These YY fish produce all-male offspring when mating with their wild conspecifics and TYC can lead to …

The Effects Of Temperature, Flooding, And Goose Feces Addition On Greenhouse Gas Emissions And Ammonification In Four High-Latitude Soils From Western Alaska, Jenna M. Ross

Electronic Theses and Dissertations

The large carbon (C) stock of wetlands is vulnerable to climate change, especially in high latitudes that are warming at a disproportional rate. Likewise, low-elevation Arctic coastal areas will flood more frequently under climate change and sea-level rise, which may alter goose herbivory and fecal deposition patterns if geese move inland. While temperature, flooding, and feces impact soil C emissions, their interactive effects have been rarely studied. Here, I explore the impact of these interactions on CO2 and CH4 emissions and nitrogen (N) mineralization (ammonification) in soils collected from four plant communities in the Yukon-Kuskokwim (Y-K) Delta, a high latitude …

Plant Available Water Drives Semi-Arid Forage Quality And Quantity In A Common Garden Greenhouse Experiment, Parker J. Witt

Electronic Theses and Dissertations

Rangeland forage nutrition and biomass production are integral components of sustainable livestock grazing systems and are controlled by soil quality and precipitation. I examined the effects of precipitation on growth and nutrition of three forage species in four different soils that span the longitudinal moisture gradient in South Dakota. I grew little bluestem (Schizachyrum scoparium), western wheatgrass (Pascopyrum smithii), and smooth brome (Bromus inermis) in soils representing the eastern tallgrass/mid-grass prairie (Brookings, 700 mm avg. precipitation.), an eastern mid-grass prairie (Highmore, 550 mm avg. precipitation.), a western mid-grass prairie (Cottonwood, 450 mm avg. precipitation.), and a western mid-grass/short-grass prairie (Sturgis, …

When And Where Can Coastal Wetland Restoration Increase Carbon Sequestration As A Natural Climate Solution, Scott F. Jones, Ariane Arias-Ortiz, Dennis Baldocchi, Meagan Eagle, Daniel A. Friess, Catrina Gore, Greg Noe, Stefanie Nolte, Patty Oikawa, Adina Paytan, Jacqueline L. Raw, Brian J. Roberts, Kerrylee Rogers, Charles Schutte, Camille L. Stagg, Karen M. Thorne, Eric J. Ward, Lisamarie Windham-Myers, Erik S. Yando

Biological Sciences Faculty Publications

Coastal wetlands are hotspots of carbon sequestration, and their conservation and restoration can help to mitigate climate change. However, there remains uncertainty on when and where coastal wetland restoration can most effectively act as natural climate solutions (NCS). Here, we synthesize current understanding to illustrate the requirements for coastal wetland restoration to benefit climate, and discuss potential paths forward that address key uncertainties impeding implementation. To be effective as NCS, coastal wetland restoration projects will accrue climate cooling benefits that would not occur without management action (additionality), will be implementable (feasibility) and will persist over management-relevant timeframes (permanence). Several issues …