Digital Commons Network^™

Alternative Splicing In A Coral During Heat Stress Acclimation And Recovery, Nitin Baliga, Kathryn Stanklewicz, Jacob Valenzuela, Serdar Turkarsian, Wei-Ju Wu, Kelly Gomez-Campo, Nicolas Locatelli, Trinity Conn, Veronica Radice, Katherine Parker, Rachel Alderdice, Line Bay, Christian Voolstra, Daniel Barshis, Iliana Baums

Biological Sciences Faculty Publications

Climate change has caused drastic declines in corals. As sessile organisms, corals acclimate to environmental shifts through genome-wide changes in gene expression, epigenetic modifications, and alterations in microbiome composition. However, alternative splicing (AS), a conserved mechanism of stress response in many organisms, has been under-explored in corals. Using short-term acute thermal stress assays, we investigated patterns of AS in the scleractinian coral Acropora cervicornis during response to low (33°C), medium (35°C), and high (37°C) heat stress and subsequent overnight recovery. Our findings demonstrate reproducible dynamic shifts in AS of at least 40 percent of all genes during response to heat …

Selective Nutrient Incorporation May Underestimate Heterotrophy Of A Mixotrophic Reef-Building Coral, Connor R. Love, Marleen Stuhr, Michael D. Fox, Veronica Z. Radice, Maoz Fine, Kelton W. Mcmahon, David L. Valentine

Biological Sciences Faculty Publications

Mixotrophic reef-building corals acquire nutrition via photosynthate translocation from endosymbiotic microalgae and by heterotrophic prey/particle capture. Heterotrophy promotes resistance to, and recovery from, environmental stress, but quantifying coral heterotrophy remains difficult due to complex resource exchanges within the coral holobiont. We interrogated the response of multiple biomarkers to coral heterotrophy using fatty acid profiling and stable isotope analysis of Stylophora pistillata grown along a controlled feeding gradient from pure autotrophy to pure heterotrophy. We found that fatty acids and nitrogen were effectively incorporated into both coral host and symbiont tissues, while carbon, which is the primary target for conventional heterotrophy …

Swimming In Sh*T: Quantifying Lagoon Flushing Impacts On Fecal Indicator Bacteria In Surf Zones Of Three Beaches On The East End Of Long Island, Ny, Brody C. Eggert

Pomona Senior Theses

This thesis investigates how lagoon flushing influences fecal indicator bacteria (FIB) concentrations—specifically enterococcus bacteria—in the surf zones of East Hampton and Southampton, New York. Focusing on the coastal lagoons of Georgica Pond, Sagg Pond, and Mecox Bay, the study analyzes how episodic inlet openings and environmental conditions affect enterococcus levels at adjacent recreational beaches. Using over 700 observations from the Surfrider Foundation’s Blue Water Task Force (BWTF) database, I construct a series of statistical models ranging from ordinary least squares to mixed effects frameworks; this thesis shows my process in developing this model. My analysis reveals that open inlets between …

Predictive Maintenance In Naval Vessel Propulsion Systems For Enhanced Marine Operations Using A Bigmm-Hmm Framework With Divergence-Based Clustering, Farshid Javadnejad, Hyoshin John Park, Samuel Kovacic, Andres Sousa-Poza

Engineering Management & Systems Engineering Faculty Publications

This study introduces a BiGMM-HMM Integration Framework designed to improve predictive maintenance strategies for naval vessel propulsion systems, addressing the need for efficient and reliable operation in marine engineering applications. The framework effectively manages multimodal sensor data by leveraging a unique combination of Gaussian Mixture Models (GMMs) and Hidden Markov Models (HMMs) in a bidirectional architecture. It analyses the dynamic interactions between sensors and subsystems. Two preprocessing methods are evaluated: Method 1 focuses on subsystem interactions, employing divergence-based root cause analysis to identify key sensor variables by clustering of sensors and subsystems. In contrast, Method 2 processes the entire dataset …

Suntan (And Other Solar Tigonometric Functions), John Adam

Mathematics & Statistics Faculty Publications

Question 1: If I₀ is the solar irradiance (power per unit area, W/m²) reaching my head, express the intensity on the side of my face (I_s) in terms of θ. Assume for now that the irradiance is independent of path length through the atmosphere and that my face is normal to the direction θ = 90°.

Using the 1962 U.S. Standard Atmosphere,² Hottel (1976)³ expressed the solar irradiance using the formula

I = I₀(a₀ + a₁e^{−k sec θ}), where A is the elevation in kilometers and

a₀ = 0.4237 − 0.00821(6 − A)²; a₁ = 0.5055 …

Moderate Heating Renders 7.8-Million-Year-Old Sedimentary Organic Matter Bioavailable, Shuchai Gan, Verena B. Heuer, Frauke Schmidt, Lars Wormer, Faming Wang, Rishi R. Adhikari, Patrick Hatcher, Ann Pearson, Kai-Uwe Hinrichs

Chemistry & Biochemistry Faculty Publications

Marine sediments are a large reservoir of recalcitrant organic matter and host microbes at subsurface depths exceeding 2.4 kilometers and temperatures up to 120°C, yet the mechanisms supplying bioavailable substrates remain unclear. Here, we investigated 7.8-million-year-old sediment from IODP Site C0012 off the Nankai Trough, Japan, through incubations at 20°, 35°, 55°, and 85°C to simulate burial temperatures. Using 3D fluorescence spectroscopy and ultrahigh-resolution mass spectrometry, we tracked changes in dissolved organic matter (DOM). At 35°C, humic-like DOM was released alongside metal ions, exhibiting low bioavailability. At 55°C, abiotic decomposition of humic compounds generated smaller, more bioavailable DOM, promoting fermentation. …

Co₂ Isotopologues From The Ace Satellite, D. English, P. Bernath, C. Boone

Chemistry & Biochemistry Faculty Publications

Carbon dioxide isotopologues have been studied thoroughly in the troposphere. In the stratosphere, the minor oxygen CO₂ isotopologues have anomalous abundances due to their exchange reactions with isotopically fractionated ozone, differentiating them from tropospheric CO₂. Previously a model predicted that this anomalous isotopic abundance continues into the mesosphere but lacked verification from experimental observations. Here we use the Atmospheric Chemistry Experiment Fourier Transform Spectrometer which records infrared transmittance spectra of the Earth's limb from low Earth orbit using solar occultation. These infrared spectra provide measurements of global CO₂ isotopologue volume mixing ratios (VMRs) from the upper troposphere to the lower …

Analysis Of Aerosols In The Asian Monsoon Anticyclone As Observed By The Atmospheric Chemistry Experiment, M. Lecours, R. Dodangodage, C. D. Boone, P. F. Bernath

Chemistry & Biochemistry Faculty Publications

During the Asian summer monsoon season, pollutants from the lower troposphere are transported through deep convection to the upper troposphere and lower stratosphere. Surface pollutants such as CO are transported upward and trapped in the anticyclone during this unique atmospheric phenomenon. Associated with the anticyclone is a layer of enhanced aerosols located near the tropopause often referred to as the Asian tropopause aerosol layer (ATAL). The chemical and physical properties of aerosols in the ATAL are not yet fully understood as direct observations of the aerosols are limited. The Atmospheric Chemistry Experiment (ACE) is a satellite mission that provides high-resolution …

Building Heat-Resilient Caribbean Reefs: Integrating Thermal Thresholds And Coral Colonies Selection In Restoration, Macarena Blanco Pimentel, Johanna Calle-Triviño, Daniel J. Barshis, Sancia E. T. Van Der Meij, Megan K. Morikawa

Biological Sciences Faculty Publications

Caribbean reefs face increasingly frequent and intense bleaching events, adding to the numerous other threats impacting these ecosystems. Addressing these challenges requires global action to reduce climate drivers, along with local efforts like reef restoration. Active restoration using thermotolerant coral colonies offers a potential strategy to alleviate these impacts; however, gaps remain in identifying context-specific temperature thresholds to guide colony selection and standardize thermotolerance assessment methods. This study addressed these gaps in two phases. First, by determining practical thresholds to differentiate species responses to heat stress; and second, by developing a framework to identify and prioritize resilient colonies for restoration. …

Twenty Years Of Global Stratospheric Fluorine Inventories From Atmospheric Chemistry Experiment Fourier Transform Spectrometer (Ace-Fts) Measurements, N. Raymond, P. Bernath, C. Boone, M. Chipperfield

Chemistry & Biochemistry Faculty Publications

We present fluorine inventories calculated for twenty years (2004–2023) and five latitude bands (82°–60°N, 60°–30°N, 30°N–30°S, 30°–60°S, and 60°–82°S) at altitudes from the surface up to 55 km. The inventories were calculated using the Atmospheric Chemistry Experiment Fourier transform spectrometer (ACE‐FTS) version 5.2 retrievals of the volume mixing ratios (VMRs) of 15 fluorine‐containing species. Of these 15 species, 3 are product gases: HF, COF₂, COCIF, and 12 are source gases: SF₆, PFC-14 (CF₄), CFC-11 (CCl₃F), CFC-12 (CCl₂F₂), CFC-113 (CCIF₂CCl₂F), HCFC-22 (CHF₂CL), HCFC-141b(C₂H₃Cl₂F), HCFC-142b ( …

The Strategic And Governance Implications Of Solar Radiation Modification: Perspectives From Delegates Of International Climate Negotiations, Todd L. Cherry, Steffen Kallbekken, David M. Mcevoy, Wai Yan Siu

ODU Articles

The lack of progress in addressing climate change has led to increased interest in solar radiation modification (SRM)—a collection of large-scale interventions that cool the planet by managing the amount of solar radiation that reaches the earth. SRM complicates climate change governance because, in addition to advancing collective action to reduce greenhouse gas emissions, governance needs to restrain unilateral SRM action while balancing diverging actor interests, ethical risks and scientific uncertainty. We survey international climate policy experts for their assessments of the potential for effective global governance of SRM and the likelihood of possible international responses to unilateral SRM scenarios. …

Coastal Flooding And Housing Market Liquidity: Policy Implications For Eastern U. S. Communities, Wai Yan Siu, Rex Sitti

ODU Articles

Coastal flooding poses an escalating threat to communities across the U.S East Coast, where rising sea levels and intensifying storms increasingly overwhelm existing infrastructure and natural defenses. These events generate complex economic consequences that extend beyond immediate property damage to affect community stability and long-term development patterns. The real estate industry in particular, faces increasing levels of flood risk. Existing research on climate risk and real estate markets focuses predominantly on price capitalization effects, overlooking the critical dimension of housing market liquidity. This study examines the causal impact of coastal flooding on days-on-market (DOM), a metric of liquidity in the …

High-Resolution Modeling Of Extreme Heat Events With Socioeconomic Consideration: A Real-Case Wrf-Les Approach, Maryam Golbazi, Frank Liu, Yin-Hsuen Chen, Timothy W. Juliano, Heather Richter

ODU Articles

The overarching goals of this work is to explore best practices for micro-scale modeling of a real case, identify relevant phenomena by using high-resolution modeling, and to explore their implications for public health, and climate resilience strategies in Hampton Roads, VA, USA. This project employs the Weather Research and Forecasting (WRF) model to conduct a comprehensive study of Hampton Roads, utilizing a coupled mesoscale to microscale modeling capable of resolving boundary layer turbulence. This study has three primary objectives: (1) to establish the optimal mesoscale to Large-Eddy Simulation (LES) configurations for complex geographical regions such as the Hampton Roads (HR) …

Metabarcoding-Biomass Relationships And Internal Standards For Quantitative Dna Metabarcoding, Frances Webber

Open Access Master's Theses

DNA metabarcoding has been widely adopted due to its power in investigating the composition of protistan communities, accurately identifying even small and cryptic taxa. However, the compositional nature of DNA metabarcoding results, and the distortion of natural abundances due to variation of the often-used 18S rRNA gene copy number over several orders of magnitude, renders these results semi-quantitative at best, limiting the application of DNA metabarcoding to ecological study. Here, we constructed mock communities from uni-algal cultures of taxonomically diverse phytoplankton and conducted metabarcoding using multiple primer sets and both DNA and cDNA as PCR templates. For each culture, chlorophyll …

High-Altitude Balloon-Launched Uncrewed Aircraft System Measurements Of Atmospheric Turbulence And Qualitative Comparison With Infrasound Microphone Response, Anisa Haghighi

Theses and Dissertations--Mechanical and Aerospace Engineering

This study explores the use of a balloon-launched uncrewed aircraft system (UAS) to measure atmospheric turbulence in the troposphere and lower stratosphere using both wind velocity measurements and infrasonic acoustic energy. The UAS, a glider configured for autonomous descent along a predefined trajectory, had on board, in situ sensors to capture thermodynamic and kinematic atmospheric parameters. Additionally, it carried an infrasonic microphone to evaluate its potential for remotely detecting clear-air turbulence by capturing infrasonic waves. The system’s performance was assessed over the course of three test flights conducted in New Mexico, USA, in 2021. The descent enabled high-resolution profiling, with …

Improving Understanding And Connections For Preparedness, Mitigation, Response, And Recovery For Tornado And Straight-Line Wind Events In Virginia: Summary Of The Inaugural Virginia Tornado And Straight-Line Wind Summit, Wie Yusuf, Monica Arul, Joshua Behr, Kaleen Lawsure, An Huy Pham, Henry Attivor

School of Public Service Faculty Publications

Background

The Virginia Tornado and Straight-Line Wind Summit, the first of its kind in the Commonwealth, was held on October 15, 2025 in Isle of Wight County, Virginia. The Summit had several goals, including:

• Understanding Virginia’s wind risk and learning the science behind it.
• Hearing lessons learned from emergency managers who have experienced extreme wind events.
• Learning about practical steps to prepare, mitigate, and respond to severe wind events.
• Learning best practices for timely and actionable communication with the public before and after events.
• Strengthening interagency coordination and connecting with others to share resources, align priorities, and coordinate resilience planning. …

Analyzing Seasonal Wind Trends And Climate Change Impacts Along The East Coast Of The United States (1990-2022), Avery L. Wilson

Honors Theses and Capstones

This study investigates long-term trends in ocean wind intensity and variability along the U.S. East Coast between 1990 and 2022 using ECMWF ERA5 reanalysis data. Focusing on monthly maximum, mean, and standard deviation (STD) of wind speed at 10 meters above the surface, linear regressions were performed to analyze long-term trends. Results indicate a significant increase in wind intensity and variability in the northeastern region, particularly during winter months, which may forecast more frequent and intense cyclonic activity such as Nor’easters. Conversely, a weak decreasing trend was observed in the south. These shifts have implications for ocean-atmosphere dynamics, including vertical …

Incorporating Time-Varying Parameters And Climate Drivers Into Fisheries Models, Rachel Catherine Marshall

Open Access Dissertations

Commercial fishing is a highly valuable industry in the United States and globally, and as such, managing based on the best available science is necessary to maintain important fish stocks. Some parameters in stock assessment models that are assumed to be constant over age and time may actually vary to an extent that stock assessment modeling results could be improved by allowing the parameters to vary in the models. In the present dissertation, two stock assessment parameters that are typically held constant are explored for potential time or age variance. Potential environmental drivers of nonstationary parameters are also explored. Productivity, …

Dam It All: A Multi-Scalar Investigation Into The Ecological Role And Function Of Beaver Dams, Kenneth Larsen

Dissertations, Master's Theses and Master's Reports

The central theme of this dissertation is ecological scaling, which examines how small, localized features, such as beaver ponds, contribute to large-scale watershed processes and how different modeling approaches at various scales reveal distinct insights. Through a combination of probabilistic modeling and high-resolution empirical research, this work demonstrates that small ponded systems, particularly those created by beavers (Castor canadensis), serve as critical biogeochemical control points, whose contributions to sediment and nutrient dynamics have been historically underestimated.

In Chapter 1, I contextualize this research within the broader fields of freshwater ecology, watershed modeling, and ecological restoration. I introduce the …

Engagement In Practice: Partnering With Communities To Address Nuisance Flooding Challenges, Carol L. Considine, Mujde Erten-Unal, Dalya Ismael, Luka Alandra Hamal-Serenity, Farzaneh Soflaei

Engineering Technology Faculty Publications

Many communities are already experiencing the impacts of climate change that disrupt their daily lives. In Coastal Virginia, these impacts take the form of nuisance and stormwater flooding caused by sea level rise and changes in precipitation. Coastal Virginia has one of the highest relative sea level rise rates on the Atlantic Coast and the regional planning district commission recommends that Atlas 14 rainfall intensity, duration, and frequency curves be increased by 20% to account for changes in rainfall. The Coastal Community Design Collaborative (CCDC), a partnership between Hampton University Architecture and Old Dominion University Engineering & Technology, has had …

Mangroves: A Lesson On Modeling Changing Shorelines, Willa Skye

ENGS 15.11: Design and Education

This lesson is an overview of storm barriers, specifically mangroves and how they maintain shorelines. It is meant to offer a visual experience of coastline protection and provide a background for deeper understanding about intertidal zones and their conservation. Students will spend time creating a solution to a flooding problem by making a mock coast and storm barrier. To wrap-up the lesson, students will pair up, then reflect on their model and then individually write or draw their takeaways.

Drone-Based Medication Delivery For Rural, Flood-Prone Coastal Cities, Yin-Hsuen Chen, Amro M. El-Adle, Kevin J. O'Brien, Taylor Wentworth, Heather G. Richter

Center for Geospatial Science, Education & Analytics Faculty Publications

Access to healthcare remains a critical challenge for rural populations, particularly in flood-prone coastal communities where transportation barriers limit access to essential medical services. This study evaluates the effectiveness of drone-based medication delivery in improving healthcare accessibility for vulnerable populations on Virginia’s Eastern Shore. Compared to traditional personal vehicle travel, drone delivery reduced trip times from up to 50 minutes to under 10 minutes for more than 80% of the population, including elderly patients. Using publicly available datasets, we developed two transportation vulnerability indices that incorporate age, travel time, and flood risk to prioritize patients for drone-based pharmaceutical delivery. These …

Evaluating The Long-Term Effectiveness Of Marsh Terracing For Conservation With Integrated Geospatial And Wetland Simulation Modeling, Nick Carpenter, Laura Costadone, Thomas R. Allen

ODU Articles

Coastal marshes provide essential ecosystem services, yet they are vulnerable to anthropogenic stressors and climate change, particularly sea level rise (SLR). Restoration approaches like marsh terracing have emerged as nature-based strategies to enhance resilience and reduce habitat loss. This study applies the Sea Level Affecting Marshes Model (SLAMM) to assess the potential of marsh terraces to mitigate future losses, while also examining the model’s limitations, including its assumptions and capacity to reflect complex marsh processes. A geospatial approach was used to generate 3D representations of terraces through morphostatic modeling within digital elevation models (DEMs). Under a no-restoration scenario, SLAMM projections …

Using Post-Supercritical Co2-Assisted Method To Deposit Niep Alloy Coating On The Micro-Arc Oxidation Layer Of Az31 Magnesium Alloy And Its Corrosion Behavior Analysis, Kang-Yu Liao, Hung-Hua Sheu, Ming-Yuan Lin, Ming-Chih Kuo, Po-Hsun Wu, Hung-Bin Lee

Journal of Marine Science and Technology–Taiwan

In this study, a Ni-P alloy coating was deposited on the micro arc oxidation (MAO) layer of AZ31 magnesium alloy to improve its corrosion resistance. The MAO layers were prepared under different operated voltages from 300 to 400 V. The results indicated that the optimize operated parameters for MAO layer is at 350 V, the MAO coatings had the most compact microstructure and superior corrosion resistance. In order to improve the corrosion resistance of MAO coating, this study chose to deposit Ni-P alloy coating on the surface of MAO coating via the post supercritical CO₂-assisted electroless plating (PSC-CO …

The Effect Of Feedback On A Remote Operator’S Maneuvering Control For Mass Remote Navigation Competency, Hyoseon Hwang, Ik-Hyun Youn

Journal of Marine Science and Technology–Taiwan

The rapid advancement of Maritime Autonomous Surface Ships (MASS) technology has highlighted the growing need for Remote Operators (ROs) to manage MASS effectively. ROs possess specialized competencies in areas such as situational awareness, crisis management, and system operation. Despite the introduction of competency-based training and assessment in the maritime sector through the international convention on standards of training, certification, and watchkeeping for seafarers convention, the framework's implementation remains incomplete, particularly in remote operator training for MASS. This study is purpose to identify which competencies improve rapidly with performance feedback and which improve slowly. This study conducted an experiment to quantitatively …

Evaluation Of Carbon Sequestration In Seagrass Meadows Of Kenting: A Comparative Study With Penghu And Dongsha Island, Zih-Wei Tang, Huei-Fen Chen, Jordi Mahardika Puntu, Ping-Yu Chang, Li Lo, Jian-Jhih Chen, Wen-Chen Chou, Lan-Feng Fan, Ying-Ju Chang

Journal of Marine Science and Technology–Taiwan

This study investigates the controlling factors of carbon sequestration (CS) in seagrass bed sediments across three distinct environments in Taiwan: the Kenting (KT) coastal area, the Penghu (PH) open inner bay, and the Dongsha (DS) Atoll lagoon. Actual measurements of the substrate depth beneath the sediment and ground-penetrating radar (GPR) scans of the beach reveal that the coral reef bedrock in KT slopes landward. A field survey of the seagrass area in KT was conducted, and three cross-sectional profiles were analyzed to determine their topography, yielding a median sediment thickness of 88.2cm. Based on these measurements, the sediment volume was …

Calculation Of Aquifer Transmissivity From Borehole Resistance Measurements And Pumping Test Results, Fen-Rong Yang, Chien-Wei Huang, Tien-Kuen Huang

Journal of Marine Science and Technology–Taiwan

Transmissivity is a crucial hydrogeological parameter for evaluating groundwater resources. This parameter is conventionally evaluated using pumping tests; however, these tests are costly and can be conducted at few sites. Many researchers have used ground resistance and pumping test data to estimate various hydrogeological parameters. In this study, borehole resistance survey and pumping test data collected by the Taiwan Groundwater Monitoring Network were used to establish the relationship between transmissivity and formation factor for aquifers in the Zhuoshui River alluvial fan. This relationship was then used to estimate the water output of the aforementioned aquifers in a cost-effective manner from …

A Neural Network-Based Sliding Mode Adaptive Control System For Unmanned Surface Vehicles, Sun Qiaomei, An Liang, Jiang Linglin

Journal of Marine Science and Technology–Taiwan

Over the past decades, numerous studies have explored the use of autonomous unmanned surface vehicles (USVs). Successful USV operation requires a robust tracking control system to perform a range of tasks. However, USV dynamics are uncertain, time-varying, and nonlinear. This paper presents a neural network-based sliding mode adaptive control (NNSMAC) system to enhance USV tracking performance. Trajectories were generated using spline and polynomial interpolation based on a set of N predefined waypoints. Simulation results show that the proposed method outperforms traditional sliding mode control in error reduction, enabling more effective tracking.

The First Iucn Red List Of Cold-Water Corals Highlights Global Declines, Julia D. Sigwart, A. Louise Allcock, Renata Carolina Mikosz Arantes, Kelsey Archer Barnhill, Narissa Bax, Julia S. Beneti, Saskia Brix, Gudmundur Gudmundsson, Catherine S. Mcfadden, Severin A. Korfhage, Christi Linardich, Declan Morrissey, Pedro De Oliveira Nascimento, Bárbara De Moura Neves, Steinunn H. Ólafsdóttir, Stefán Ragnarsson, Kaveh Samimi-Namin, Íris Sampaio, Mark E. De Wilt

Biological Sciences Faculty Publications

The most well-known species-based conservation tool is the International Union for the Conservation of Nature (IUCN) Red List of Threatened Species. The current coverage of species in the Red List is known to under-represent benthic marine species. Cold-water corals (CWCs) are increasingly recognised as key to deep-water biodiversity and integral to protected vulnerable marine ecosystems (VMEs), but no deep-sea coral species were previously included in the Red List. We selected 22 cold-water coral species in the Northeast Atlantic, including 4 reef-forming stony corals and 18 octocorals including sea pens and gorgonians, and completed the first IUCN Red List global assessments …

An Economic And Production Analysis Of Seaweed Farms In California And The Pacific Northwest, Brian Donovan

Cal Poly Humboldt theses and projects

Since the early 2010s, the seaweed aquaculture industry has steadily expanded in the United States, with states like Alaska, Maine, Hawaii, and Connecticut leading the way in the development of this emerging sector. However, information gaps remain concerning certain aspects of the domestic seaweed aquaculture industry. The purpose of this study was to examine the status of the seaweed aquaculture industry along the West Coast of the United States; specifically in the states of California, Oregon, and Washington. Seaweed farmers in these states were invited to voluntarily complete surveys asking important production, economic, and commercial questions regarding their operations. Data …