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Thinking Outside The Membrane: Investigating The Structure Of The Influenza A M2 Ectodomain, Kyra Roepke , '24

Senior Theses, Projects, and Awards

Influenza A leads to annual epidemics that result in three-to-five million cases of severe illness each year and occasional devastating pandemics. Some current prevention and treatment methods target the M2 membrane protein on the surface of the virus. However, viral mutability and drug resistance require the targeting of more conserved parts of the protein.

The goal of this thesis was to investigate the secondary structure and dynamics of the M2 ectodomain (M2e), which is highly conserved across influenza viruses and across evolutionary time. The structure of M2e has previously been challenging to study because of its flexibility. In this study, …

Gender Inequality In The Practice Of International Marine Science : Case Study On The International Council For The Exploration Of The Sea, Ellen Johannesen

World Maritime University Dissertations

The UN Decade of Ocean Science for Sustainable Development aims at transformative change to connect people and the ocean. Innovation necessary for transformational change requires diverse perspectives, therefore women’s perspectives and equal participation are crucial for Ocean science. However, there is widespread evidence of underrepresentation of women especially in governance and decision-making roles. This dissertation aims to critically analyse how gender inequality persists within marine science for the sustainable use of the ocean and to contribute to developing the essential awareness of and strategies for addressing this issue. Using an intergovernmental marine science organisation as a case study, a feminist …

Iron Isotope Transformations In Saanich Inlet, Claire Onak

USF Tampa Graduate Theses and Dissertations

Iron (Fe) is required for many biogeochemical processes, with Fe bioavailability and chemistry being controlled by redox reactions that transform Fe between oxidation states and dissolved and particulate phases. In oxic seawater, Fe is present in the Fe(III) oxidation state, mainly as Fe oxyhydroxides. Under anoxic marine conditions, such as margin sediments under oxygen minimum zones or restricted basins with anoxic bottom water, Fe(III) is reduced to Fe(II), which is highly soluble and can be present at high concentrations ([Fe]). Fe isotope ratios (δ56Fe relative to IRMM-14) can be used to characterize Fe redox transformations, constrain Fe sources of Fe …

Non-Native Rhizophora Mangle As Sinks For Coastal Contamination On Moloka’I, Hawai’I, Geoffrey Szafranski, Elise F. Granek, Michelle L. Hladik, Mia Hackett

Environmental Science and Management Faculty Publications and Presentations

Coastal mangrove forests provide a suite of environmental services, including sequestration of anthropogenic contamination. Yet, research lags on the environmental fate and potential human health risks of mangrove-sequestered contaminants in the context of mangrove removal for development and range shifts due to climate change. To address this, we conducted a study on Moloka'i, Hawai'i, comparing microplastic and pesticide contamination in coastal compartments both at areas modified by non-native red mangroves (Rhizophora mangle) and unmodified, open coastline. Sediment, porewater, and mangrove plant tissues were collected to quantify microplastic and pesticide concentrations across ecosystem type. Average microplastics were similar between …

Beavers, Hydrology, And Wapato: A Baseline For Monitoring Franz Lake National Wildlife Refuge, Justine Casebolt

Environmental Science and Management Professional Master's Project Reports

Located in the lower Columbia River floodplain, Franz Lake National Wildlife Refuge is a unique landscape with a complex land use history. For thousands of years, Indigenous tribes lived on this land. In the early 1990s, U.S. Fish and Wildlife Service acquired the land, after it was identified as a mitigation site following the construction of the Bonneville Lock and Dam. Franz Lake Refuge was once known for its prevalent Wapato (Sagittaria latifolia) population, an emergent plant with edible tubers and an important food source for Indigenous people. With specific growth requirements and hydrologic conditions for germination and …

Assessing The Impact Of Climate Change On Harbor Seals: Haul-Out Patterns In Iceland Using Cmip6 Projections, Colin Lau

Independent Study Project (ISP) Collection

Harbor seals (Phoca vitulina) are known to exhibit a preference for specific environmental and weather conditions when hauling out, particularly during the pupping and molting cycles during summer. Climate change is projected to have a significant impact on the haul-out patterns and site conditions of harbor seals in Iceland, which could further diminish their dwindling population. A comprehensive literature review was conducted to identify and discuss the environmental variables that can affect haul-out probability. Among them, surface wind speed and air temperature are reported to have the biggest influence on harbor seal haul-out numbers between May and August. Climate projections …

Investigating Ocean Carbonate System Changes Across Latitudes In The North Atlantic Basin With A Time-Series Mooring System, Anna Trujillo

Independent Study Project (ISP) Collection

The world ocean, specifically the Arctic, serves as one of the greatest mitigators for anthropogenic carbon dioxide release, making the study of high latitude ocean carbonate chemistry an increasingly important topic. While much work has been done concerning the science of acidification and future model projections, analyzing data to detect decadal anthropogenic trends and effects is also highly important. Aiming to add to this data pool, this study investigated the ocean carbonate system at three North Atlantic mooring locations at polar, subtropical, and tropical latitudes from 2013 - 2021. Time series datasets of the pH and pCO₂ of surface water …

Empowering Environmental Education In Portuguese Primary Schools: Energy Focused Curriculum Recommendations And Behavioral Change Framework Guided By Principles Of Developmental Psychology, Ellie Hanson

Independent Study Project (ISP) Collection

This paper explores the integration of principles of developmental psychology within the context of environmental education in Portugal to promote pro-environmental behavior, and specifically energy literacy energy conservation behaviors in primary school students. A review of current literature on the state of environmental education approaches in Portugal exhibits a significant lack of structure and direction for educators to teach students relevant topics in sustainability. Using a meta-theory of behavioral change, the present work connects the elements of the COM-B model of behavioral change to relevant aspects of middle childhood cognitive development using principles of two major theories of developmental psychology. …

Assessing The Progress And Effects Of Exotic Plant Invasions In A Sustainably Used Littoral Forest Fragment In Southeastern Madagascar, Grant Gerhardt

Independent Study Project (ISP) Collection

While it is important to conserve Madagascar’s unique natural forest environments and the biodiversity they contain, it is also essential that populations reliant on these ecosystems for their income and survival have access to the resources they provide. Sustainable use forests, designated by the IUCN as category VI protected areas, are the solution to meeting both of these conditions. At the same time, it is often the case that the use of forests invites disturbance, which in turn encourages the introduction and establishment of nonnative or invasive plant species. This study examines the degree to which the intensity of use …

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, …

Mushroom Composition Across An Elevational Gradient During The 2024 Wet Season In Mazumbai Forest Reserve, Tanzania, Christopher Brady

Independent Study Project (ISP) Collection

Mushrooms are key bioindicators that contribute greatly to ecological health, and their diversity is indicative of a healthy ecosystem. However, even with the vital role they play in ecological health, there are few studies which measure the diversity of mushrooms in Mazumbai Forest Reserve (MFR), Tanzania, Africa, and none which focus on diversity along the elevational gradient within the reserve (1300-1900m). This study measures the diversity and equitability of mushrooms growing in six elevational zones within MFR during the rainy season of 2024. A species checklist of mushrooms growing in MFR during the 2024 rainy season was created, tracking the …

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 …

A Study Of Anthropogenic Impacts On Echinoderms In The Jambiani Intertidal Area, Zanzibar, Amaury O. Halley

Independent Study Project (ISP) Collection

The coastal region of Jambiani, Unguja, hosts a rich diversity of marine life within its extensive intertidal zones. Despite its ecological significance, this area is increasingly exposed to anthropogenic disturbances due to increased human activities. This study examines the impacts of these disturbances on the biodiversity, zonation, and species abundance of echinoderms in the intertidal habitats of Jambiani. Through a comprehensive field study involving fifteen transects and detailed substrate analysis, the project evaluated the distribution and abundance of echinoderm species and assessed the influence of human activities such as seaweed farming, anchor damage, and beach trampling on these communities. The …

Addressing Water Scarcity In Rural Areas Of The Souss-Massa Region Of Morocco: Comparative Analysis Of Desalination, Fog Harvesting, And Wastewater Treatment Methods With Considerations Of Technical Viability And Human Rights, Lina Migliore

Independent Study Project (ISP) Collection

Water scarcity is one of the most pressing humanitarian challenges worldwide, most notably in arid and semi-arid regions like Morocco. This study conducts a comprehensive comparative analysis of three sustainable water management strategies currently being developed in the Souss Massa region of southern Morocco: fog harvesting, desalination, and wastewater treatment. Drawing upon empirical data, interviews, and existing scientific literature, the research explores the economic, environmental, and social dimensions of each approach. Fog harvesting is a locally driven solution that takes advantage of natural phenomena to collect water, albeit with limitations in reliability. Desalination is promising in addressing long-term water scarcity …

Structural Responses To Land Use In Pollination Networks: Effects Of Biodiversity And Alien Plants In The Ecuadorian Chocó, Eric Abrahams

Independent Study Project (ISP) Collection

As a globally recognized hotspot of biodiversity, the Ecuadorian Chocó Andino region is extremely important for research and conservation. However, little research has been done regarding the mutualistic networks that sustain this ecosystem. The analysis of plant-pollinator networks helps us understand how ecosystems respond to change and is vital to conserving ecological productivity across multiple spatial scales. This study establishes a baseline for pollinator network structure across a land use gradient near the western montane cloud forest in Ecuador. Plants and pollinators were sampled along 11 transects in farms, communities, roads in the Río Manduriacu valley. Weedy herbs dominated overall, …

Impacts Of Gas Flaring On Soil Quality In The Ecuadorian Amazon: Measuring Gas Flare Effects On Soils At Comparative Distances In Loma Del Tigre, Orellana, Francesca Lopresti

Independent Study Project (ISP) Collection

Gas flaring, the process of burning off the natural gas excreted during petroleum extraction, has recently been the source of public outcry, citing degraded public and environmental health caused by constant flaring near populated centers. While extensive research has been done on the environmental and health impacts of gas flaring, regionally specific research to the Ecuadorian Amazon is lacking. It is crucial that updated research in this region is produced to inform regulations that have the potential to minimize the physical, environmental, and economic impact of the petroleum industry on nearby, under-resourced, and marginalized communities. While air quality surrounding gas …

Anuran Diversity And Abundance Across Two Sites With Varying Levels Of Light Pollution In El Valle De Antón, Coclé, Panamá, Jackson Dray

Independent Study Project (ISP) Collection

The impact of artificial light at night (ALAN) on anuran populations has been a subject of growing concern in ecological research. Anurans are particularly susceptible to the impacts of artificial light due to their nocturnal nature and an extensive exposure throughout various stages of life histories. Exposure to artificial light has been shown to impact the larval development and reproductive behavior of anurans. The impacts on anurans juvenile populations suggest a relationship between light pollution and anuran abundance. This study aimed to investigate the hypothesis that ALAN negatively affects the abundance and diversity of anurans. Field surveys were conducted in …

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 …

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 …

Shutting Out Noise And Understanding Artificial Intelligence, Lauren J. Yu

Michigan Law Review

A review of Noise: A Flaw in Human Judgment. By Daniel Kahneman, Olivier Sibony and Cass R. Sunstein, and You Look Like a Thing and I Love You: How Artificial Intelligence Works and Why It’s Making the World a Weirder Place. By Janelle Shane.

Modeling And Numerical Analysis Of The Cholesteric Landau-De Gennes Model, Andrew L. Hicks

LSU Doctoral Dissertations

This thesis gives an analysis of modeling and numerical issues in the Landau-de Gennes (LdG) model of nematic liquid crystals (LCs) with cholesteric effects. We derive various time-step restrictions for a (weighted) $L^2$ gradient flow scheme to be energy decreasing. Furthermore, we prove a mesh size restriction, for finite element discretizations, that is critical to avoid spurious numerical artifacts in discrete minimizers that is not well-known in the LC literature, particularly when simulating cholesteric LCs that exhibit ``twist''. Furthermore, we perform a computational exploration of the model and present several numerical simulations in 3-D, on both slab geometries and spherical …

Remote, Rugged Field Scenarios For Archaeology And The Field Sciences: Object Avoidance And 3d Flight Planning With Suas Photogrammetry, Carla Klehm, Malcolm D. Williamson, Leland C. Bement, Brandi Bethke

Center for Advanced Spatial Technologies Publications and Presentations

Advances built into recent sUASs (drones) offer a compelling possibility for field-based data collection in logistically challenging and GPS-denied environments. sUASs-based photogrammetry generates 3D models of features and landscapes, used extensively in archaeology as well as other field sciences. Until recently, navigation has been limited by the expertise of the pilot, as objects, like trees, and vertical or complex environments, such as cliffs, create significant risks to successful documentation. This article assesses sUASs’ capability for autonomous obstacle avoidance and 3D flight planning using data collection scenarios carried out in Black Mesa, Oklahoma. Imagery processed using commercial software confirmed that the …

Multifunctional Nanomaterial Analysis Using Inexpensive Techniques, Casey Jordan , '24

Senior Theses, Projects, and Awards

Designing methods to comprehensively understand nanomaterial interactions is of paramount importance as nanomaterials gain widespread use and their environmental impact becomes a concern. While current characterization methods are suitable for initial assessments, there is a need for comprehensive techniques to evaluate end-of-use scenarios and environmental effects. This report emphasizes the potential of electrochemistry as a versatile measurement tool for nanomaterial analysis. Two projects are presented, showcasing innovative analytical architectures to overcome the limitations of existing techniques. Project 1 integrates linear sweep stripping voltammetry (LSSV) and particle impact voltammetry (PIV) to achieve kinetic resolution and size analysis of silver nanoparticles (AgNPs) …

Differences In The Metabolic Outputs Of Caulobacter Crescentus Modify The Kinetics Of Silver Nanoparticle Dissolution, Tyler M. Hicks , '24

Senior Theses, Projects, and Awards

Silver nanoparticles (AgNPs) are widely used within commercial products due to their distinct antibacterial and antimicrobial properties. As their utilization continues to increase, their inevitable improper disposal could present lasting environmental ramifications due to their nonspecific biotoxicity. One microorganism of interest is Caulobacter crescentus, a common freshwater bacterium found in locations where AgNPs end after their disposal. C. crescentus has two distinct cell types—a stalked and a swarmer form—each with their own unique function and metabolic outputs. Approximately 15% of the C. crescentus metabolome varies with cell cycle, thus making this an interesting and environmentally relevant model organism for …

Tools For Biomolecular Modeling And Simulation, Xin Yang

Mathematics Theses and Dissertations

Electrostatic interactions play a pivotal role in understanding biomolecular systems, influencing their structural stability and functional dynamics. The Poisson-Boltzmann (PB) equation, a prevalent implicit solvent model that treats the solvent as a continuum while describes the mobile ions using the Boltzmann distribution, has become a standard tool for detailed investigations into biomolecular electrostatics. There are two primary methodologies: grid-based finite difference or finite element methods and body-fitted boundary element methods. This dissertation focuses on developing fast and accurate PB solvers, leveraging both methodologies, to meet diverse scientific needs and overcome various obstacles in the field.

Integrating Drone And Satellite Imaging With Machine Learning For Green Stormwater Infrastructure Condition Assessments, Matthew Dupasquier

Master's Theses (2009 -)

Green Stormwater Infrastructure (GSI) has been increasingly utilized to improve urban stormwater management strategies. However, the performance and utility of GSI decrease over time if the infrastructure is not properly maintained. In recent history, the intrinsic operations and maintenance costs associated with the complex networks of new infrastructure have placed a burden on municipalities, ultimately prohibiting many from reaching the full extent of their stormwater management goals. One way for cities to achieve cost savings is through automated monitoring that can quickly assess the condition of GSI assets; however, existing cost-effective technologies are limited. Drones and satellites may be able …

Exploring Cation Exchange: Unveiling Its Significance In Biochar And Bioenergetics Applications, Gyanendra Kharel

Chemistry & Biochemistry Theses & Dissertations

Cation exchange, a cornerstone of soil chemistry and nutrient cycling, is a fundamental chemical process that occurs in soils, sediments, membranes, and other solid materials. It involves the interchange of positively charged ions, or cations, between a solid matrix and a surrounding solution. This process is crucial in various natural and engineered systems, leading to a range of applications across different fields.

This dissertation presents an extensive investigation into the applications of cation exchange in the fields of biochar and bioenergetics, encompassing three distinct aims. The first aim concentrates on the surface oxygenation of biochar through ozonization, aiming to achieve …

A Single Hydrogen Bond That Tunes Flavin Redox Reactivity And Activates It For Modification, Debarati Das, Anne-Frances Miller

Markey Cancer Center Faculty Publications

Electron bifurcation produces high-energy products based on less energetic reagents. This feat enables biological systems to exploit abundant mediocre fuel to drive vital but demanding reactions, including nitrogen fixation and CO₂ capture. Thus, there is great interest in understanding principles that can be portable to man-made devices. Bifurcating electron transfer flavoproteins (Bf ETFs) employ two flavins with contrasting reactivities to acquire pairs of electrons from a modest reductant, NADH. The bifurcating flavin then dispatches the electrons individually to a high and a low reduction midpoint potential (E°) acceptor, the latter of which captures most of the energy. Maximum efficiency …

Diagnosing Discharge Events Within A Novel Miniature Simplified Coaxial Ion Trap Mass Analyzer, David Virgil Sirbescu-Stanley

Masters Theses

Mass spectrometry is a technique that organizes material samples by mass to reveal their chemical composition by forming a spectrum. Since their invention, ion trap mass spectrometers have undergone significant enhancements. This work, funded by the National Science Foundation and in collaboration with Brigham Young University, the Simplified Coaxial Ion Trap (SCIT), attempts to simplify ion trap geometry and combine three ion traps into one device. Successful demonstration of the SCIT functionality could reduce costs, reduce manufacturing complexity, and shrink total instrument volume. At the same time, trapping capacity and analytical efficiency will be increased. However, as discussed within, challenges …