Ecology and Evolutionary Biology Commons^™

Chesapeake Bay Water Clarity: Challenges And Successes, Jessica S. Turner, Carl T. Friedrichs, David B. Parrish, Kelsey A. Fall

OES Faculty Publications

The Chesapeake Bay is a large estuarine system spanning multiple jurisdictions and serves as a model for estuarine health worldwide. Historically, nutrient loading degraded water quality, prompting the need for regulation. Water clarity, one component of water quality, is vital for benthic communities and serves as a key indicator of overall ecosystem health. Here, physical resuspension and salinity gradients, nutrient and sediment inputs, production of organic detritus by phytoplankton, and benthic communities all interact to drive clarity patterns, with high spatial variability. Trends over the last 50 years show improvement, though with a temporary increase in organic detritus in response …

Microbial Mats In Dinosaur Ichnocoenoses, Nora Noffke, Paul C. Murphy, Roger C. Buntin, Martin G. Lockley

OES Faculty Publications

Until now, the significance of microbial mats in preservation of dinosaur tracks and in reconstructing the palaeoenvironment in which dinosaurs roamed was rarely studied. Dinosaur tracks are commonly found close to ancient aquatic bodies where moist sediment had once allowed footstep registration. At such sites, epibenthic or endobenthic microbial mats may have developed as well and may have led to exquisite track preservation. Microbial mats in coastal, lacustrine or flood plain environments cause 'microbially induced sedimentary structures—MISS', which are micobialites found in sandy or evaporitic settings. The microbial structures record environmental parameters including meteorological conditions that existed at the time …

Modeling Upper Ocean Ecosystem Dynamics In Response To Interannual Sea-Ice Variability In The Western Antarctic Peninsula, Catherine R. Czajka, Jessica S. Turner, Sharon Stammerjohn, Heather H. Kim, Oscar Schofield, Benjamin T. Saenz, Scott C. Doney

OES Faculty Publications

In the Western Antarctic Peninsula (WAP), marine plankton dynamics are tightly linked to the interannual variability in environmental conditions, including phenological shifts in sea-ice seasonality. To explore these linkages, we use a 1-dimensional vertical ocean-ice-ecosystem model (KPP-Eco-Ice, or KEI) that simulates physical and ecosystem conditions at a continental shelf mooring location in the Palmer Long Term Ecological Research program sampling grid. KEI allows for year-round examination of the ecosystem in a region where in situ observations on the shelf are limited to January. Comparisons are made between seasonal sea-ice retreat, mixed layer depth, primary productivity, and phytoplankton relative abundance, grazing, …

Aquatic Macrophytes As Nature-Based Solutions: Challenges And Opportunities Across Inland And Coastal Waters, Morgan Botrel, Roxane Maranger, Lindsay L. Trottier, Mathieu Cusson, Lars L. Iverson, Fanny Noisette, Christian Nozais, Katrine Turgeon, Andrea Bertolo, Thibaud André-Alphonse, Simon Bélanger, Arthur De Grandpré, Jean-Olivier Goyette, Sabine Hilt, Ladd Johnson, Valérie Langlois, Martin Laporte, Félix Lauzon, Brigitte Légaré, Anne Ola, Marie-Pomme Presne-Poissant, Matthieu Prugne, Caroline Susini, Richard Zimmerman

OES Faculty Publications

Macrophytes are foundation species whose use as nature-based solution (NbS) in aquatic ecosystems can help reduce climate change impacts while mitigating biodiversity loss. The discrepancy in research and application of macrophytes as NbS across inland and marine coastal ecosystems is an opportunity to expand the concept and learn from different approaches. We report on an initiative uniting marine and freshwater scientists that compared knowledge on macrophytes as NbS across realms, identified advances and gaps in their use, and synthesized challenges and opportunities for application. We conducted a bibliometric analysis and an expert participatory exercise around recent review papers. We reveal …

Microplastics Suppress Copepod Grazing Of The Harmful Algal Bloom-Forming Dinoflagellate, Alexandrium Catenella, Megan Ladds, Christopher Gobler

OES Faculty Publications

While harmful algal blooms (HABs) are prominent occurrences in coastal zones where microplastic concentrations are maximal, the manner in which microplastics may influence food webs and HABs is poorly understood. This study explored how polystyrene microplastics affected copepod grazing of the saxitoxin-synthesizing harmful dinoflagellate, Alexandrium catenella, as well as a non-toxic dinoflagellate, Gymnodinium aureolum. Experiments were performed using multiple densities of microplastics (250 – 10,000 mL^–¹) of differing sizes (4 and 10 µm), as well as multiple densities of microalgae in microplates. The addition of 10 µm microplastics at densities of 1000 – 10,000 beads mL^{– …}

Assessing The Diversity And Composition Of Crayfish Assemblages In The Ogeechee River Basin, Reginald Turner

College of Graduate Studies: Theses & Dissertations

Crayfish assemblage composition in the southeastern United States is understudied relative to other aquatic taxa, such as aquatic insects and fishes, and the Coastal Plain watersheds of that region are particularly underrepresented in the contemporary literature on this topic. For example, although 38% of the crayfish species in Georgia are considered “species of greatest conservation need,” most of the distributional data used to make these designations are outdated, with some dating back over 50 years. This thesis sought to update our understanding of the contemporary distributions of crayfish species within the Ogeechee River Basin (ORB), a watershed in southeastern Georgia …

A Critical Perspective On The Society Of Environmental Toxicology And Chemistry's Adherence To Founding Principles— Opportunities For The Future, Barnett A. Rattner, Annegaaike Leopold, Carys L. Mitchelmore, Glenn W. Suter, Mark S. Johnson, Adriana C. Bejarano, Lawrence A. Kapustka, Niranjana Krishnan, Derek C. G. Muir, Beatrice O. Opeolu, Martha Georgina Orozco-Medina, April Reed, Bruce W. Vigon, Adam R. Wronski

Epidemiology, Biostatistics, & Environmental Health Faculty Publications

The Society of Environmental Toxicology and Chemistry (SETAC) is a global organization whose mission is the advancement of environmental science and management through collaboration, leadership, communication and education. On SETAC's 45th anniversary, the following question was raised: Are the 1979 founding principles of SETAC, multidisciplinary approaches to solving environmental problems, multisector engagement and scientific objectivity, still useful, adequate and effective in fulfilling its mission? In a special session held at the 45th Annual Meeting in Fort Worth, Texas, United States, a critical evaluation of the founding principles was initiated by reviewing SETAC's history and ongoing activities, and recommendations were made …

Geographic Variation In Proteomic Responses To Ocean Acidification In A Cold-Water Coral (Balanophyllia Elegans), Keana A. Richmond

Cal Poly Humboldt theses and projects

In the face of a rapidly changing climate, assessing organismal responses to future stressors in the context of current, natural exposure to stress could provide key insights to understanding marine ecosystem resilience. I used Balanophyllia elegans, a cold-water, solitary, azooxanthellate coral as a model to better understand how varying oceanographic conditions across its geographic range have shaped its ability to tolerate and potentially adapt to current and future ocean acidification conditions. I collected B. elegans individuals from four sites across 2,500km of their range and subjected them to two pH treatments to investigate site-specific protein expression in response to …

Early Successional Response To Stream Daylighting In Redwood National And State Parks, Orick, California, Rylee Rawson

Cal Poly Humboldt theses and projects

In-channel stream restoration projects can act as both disturbance and recovery mechanisms, disrupting existing conditions to reestablish the hydrologic and ecological processes that sustain stream ecosystems. These interventions initiate successional trajectories in which channel form and biological communities reorganize over time. In Redwood National and State Parks (California, USA), the Redwoods Rising initiative restores buried headwater channels by recontouring legacy logging roads and daylighting streams buried by Humboldt crossings. Using the National Park Service Klamath Network wadable stream monitoring protocol, I evaluated nine restored reaches spanning one to five years post-restoration, alongside old-growth reference reaches and available pre-treatment data. I …

Larval Crowding In Culex Pipiens Generates Cumulative Cascading Effects Under Changing Environmental Conditions, Sengul Talay, Zafer Sakaci, Michele C. Weigle, Bugrahan Regaip Kilinc, Jenah Parman, Holly Gaff, Deniz Sirin, Bulent Alten, Dennis Bente, Sirri Kar

Computer Science Faculty Publications

Density-dependent population regulation is a fundamental driver in the population dynamics of living systems, ensuring a balanced and sustainable maintenance in nature. It has been suggested that the adverse developmental and morphological effect of high larval density in container mosquitoes represents a significant limiting factor for population density, and the need to investigate this possible importance within the framework of field-based principles has been emphasized. This semi-field study, conducted under the natural thermal regime and using a natural population in Turkish Thrace, aimed to examine the effects of non-food-limiting larval density (crowding effect) in the mosquito species, Culex pipiens ( …

Investigating Effects Of The Macroalga Caulerpa Prolifera On Restoration Of The Seagrass Halodule Wrightii In The Indian River Lagoon, Florida, Luciana M. Banquero

Graduate Studies Theses and Dissertations 2026

Seagrass restoration efforts have been motivated by global decreases in coverage associated with anthropogenic influences on the environment. In the Indian River Lagoon (IRL), FL, seagrass declined by 75% between 2011 and 2021. During this time, abundance of the macroalga Caulerpa prolifera increased substantially in the IRL. The macroalga is native to this estuary, however C. prolifera abundance has fluctuated widely in the past few decades. Being highly opportunistic, C. prolifera took advantage of areas formerly inhabited by seagrass. It is not known how dense, continuous beds of C. prolifera impact seagrass restoration projects or natural recovery of seagrass. Previous …

Managing Multi-Drug Resistance: An Evolutionary Game Theory And Optimal Control Approach, Shukhrat Nasrulloev

Theses and Dissertations

Multi-drug resistance is an evolutionary process in which treatment eliminates sensitive cells, allowing resistant clones to dominate. This thesis investigates this process using a framework integrating population dynamics, evolutionary game theory, and optimal control theory. We develop a two-population logistic growth model describing competition between drug-sensitive and drug-resistant cells under treatment, construct dose-dependent payoff matrices and replicator dynamics to characterize evolutionary competition, and derive a critical drug level D_crit = (r_S - rR)/(dS - d_R) at which resistant cells gain a fitness advantage. An optimal control problem is formulated via Pontryagin's Maximum Principle to identify schedules …

Chemical Load: An Unseen Herbicide Filter In Restored Prairies?, Rylie Franklin

Electronic Theses and Dissertations

Community Assembly Theory is a framework used to describe the process by which species from a regional species pool disperse and encounter various abiotic and biotic conditions that act as filters, limiting which species will populate a specific local community. Prairie restoration success can be improved by understanding abiotic and biotic filters. As agricultural practices have adopted integrated weed management plans, that include the use of both chemical and non-chemical techniques, another filter needs to be considered during restoration: the chemical load of soils, i.e., herbicide residue from recent on-site applications and herbicide drift from adjacent areas. To examine the …

High Algal Biomass Is Decoupled From Metabolism In The Gallatin River, Cora Mae Steinbach

Graduate Student Theses, Dissertations, & Professional Papers

Assessing eutrophication in rivers is difficult compared to lakes and coastal waters, because most algal biomass occurs on the riverbed and flows interact and co-vary with production (Biggs and Close, 1989; Bernhardt et al., 2018). Riverine eutrophication is typically assessed using algal biomass and water column nutrients (U.S. Environmental Protection Agency, 2000), but biomass is highly variable and labor-intensive to measure, while nutrient concentrations often underestimate enrichment due to rapid biological uptake (Dodds and Smith, 2016). Reach-scale river metabolism can help evaluate long-term functional change in rivers recovering from nutrient enrichment (Arroita et al., 2019; Jankowski et al., 2021; Diamond …

Integrating Multi-Method Monitoring To Characterize Seasonal Habitat Use Of Green Sturgeon (Acipenser Medirostris) In Humboldt County, California, Olivia S. Boeberitz

Cal Poly Humboldt theses and projects

Green sturgeon (Acipenser medirostris) are a long-lived, anadromous, iteroparous species that spawns in large West Coast North American rivers but ranges widely in the coastal ocean. For coastal California Native American Tribes, green sturgeon are a vital part of their cultural heritage and traditions, and central to their food security. Two genetically distinct population segments (DPSs) of green sturgeon are recognized in the United States, Canada, and Mexico; the southern DPS is listed as “threatened” under the Endangered Species Act and the northern DPS is considered of “conservation concern.” Although green sturgeon are known to use large estuaries …

Developing A Tool To Measure Resistance To Sustainable Food Choices: A Pilot Study In Ireland And The Netherlands, Kate Flanagan, Bart Sinteur, Patricia J. Bulsing, John M. Kearney

SURE Journal: Science Undergraduate Research Experience Journal

Consumer uptake of a sustainable diet is critical for addressing environmental challenges and promoting public health. Understanding why consumers resist adopting sustainable eating habits can inform targeted interventions and policies. This pilot study examines whether a newly developed scale can effectively detect consumer resistance to a sustainable diet. Currently, there is a lack of research on a tool to measure consumer resistance to a sustainable diet, highlighting the need for a reliable instrument.

The aim of this study is to develop a scale, based on existing literature, to measure consumer resistance to a sustainable diet. Additionally, the study aims to …

Editorial-Sure Journal Volume 7, Issue 2, Geraldine M. Dowling, Eva Campion, Sinead Loughran, Ariane Perez-Gavilan, Josephine Treacy

SURE Journal: Science Undergraduate Research Experience Journal

No abstract provided.

Indigenizing Aquaculture: In Pursuit Of An Integrated Multi-Trophic Aquaculture System For Enhanced Self-Sufficiency In Akaroa Harbour, Aotearoa New Zealand, Cali R. Trainor

Capstone Collection

This study assessed the feasibility of integrating two pre-existing aquaculture activities in Akaroa Harbour, Aotearoa New Zealand into an integrated multi-trophic aquaculture (IMTA) system. The cultivation of giant kelp (Macrocystis pyrifera) presents an opportunity to improve the sustainability of Chinook salmon (Oncorhynchus tshawytscha) farming by introducing alternative food sources for salmon, which can be used to produce fish feed locally, enhancing the self-sufficiency of the community and boosting the holistic efficiency of the system. Macroinvertebrates residing in giant kelp wrack were collected, identified, and quantified to determine if any of the Macrocystis-associated specimens could serve as …

Clerodendrum Kelli (Lamiaceae), A New Species From Carranglan, Nueva Ecija, Philippines, And Lectotypification Of Clerodendrum Mindorense, David Justin R. Ples, Jacek Patykowski, John Charles A. Altomonte, Adriene B. Tobias, Rene Alfred Anton Bustamante

Biology Faculty Publications

Clerodendrum kelli (Lamiaceae), a new species from the montane forests of Carranglan, Nueva Ecija, Philippines, is described and illustrated. The species shares morphological features with Clerodendrum quadriloculare and C. mindorense, but differs in inflorescence structure, corolla tube length, and calyx shape and color. A lectotype for C. mindorense is also designated. Preliminary conservation assessment places C. kelli in the Critically Endangered category (CR B1ab(iii)+2ab(iii)). This study contributes to Philippine plant biodiversity knowledge and informs conservation strategies.

Modeling The Mojave: A Multiphase, Mixed Methods Phenomenological Investigation Of Novice Understanding Of A Complex Ecological System, Nicole Juliana Thomas

UNLV Theses, Dissertations, Professional Papers, and Capstones

This research explores early college science majors’ conceptions of the Mojave Desert ecosystem as a complex system. A multi-level, explanatory sequential mixed methods design was employed to study college science majors’ understanding of the Mojave Desert ecosystem to better inform science pedagogy. The first level, the quantitative phase of the study, consisted of developing a mathematical representation of twelve ecosystem variables present within the Mojave Desert. The second level, the qualitative phase of the study, consisted of phenomenological semi-structured interviews with 23 early college science majors. The findings of this research suggest that the Mojave Desert operates as a complex, …

Enviromental Dna (Edna) Tools For Invasive Mosquitofish (Gambusia Affinis) Surveillance At The Shoshone Pupfish (Cyprinidon Nevadensis Shoshone) Refugium, Yusuf Olamilekan Umar

UNLV Theses, Dissertations, Professional Papers, and Capstones

Spring-fed aquatic ecosystems of the North American Southwest and U.S. Great Basin hosts a plethora of endemic fish species due to the effects of hydrologic fragmentation that resulted from Pleistocene aridification. Threats to endemic fishes worldwide include human intentional or unintentional release of exotic species into their habitats. Early detection of invasive species, while corrective actions are still possible, is critical for management, yet traditional survey methods are often disruptive to sensitive ecosystems, costly, and limited in sensitivity. The recent development of environmental DNA (eDNA) approaches offers powerful alternatives for invasive species monitoring in aquatic systems. In this study, a …

Integrating Manager Perspectives Into The Evaluation Of Wetland Revegetation Strategies, Loren F. Taylor

All Graduate Theses and Dissertations, Fall 2023 to Present

Ecological restoration is the process of assisting the recovery of an ecosystem that has been degraded and is dependent on complex and context-specific decisions. The decision-making process influencing restoration is rarely examined alongside ecological processes. There is a need for research that incorporates the social, economic, institutional, and logistical considerations that shape real-world practices, as well as ecological processes. Decisions made by restoration practitioners and land managers (hereon “manager”) are challenged by the lack of information shared regarding the practical constraints (e.g., cost, labor, specialized equipment) they face. Revegetation, particularly in wetlands, poses challenges due to site conditions and degradation …

What Limits Dryland Ecosystems? Patterns Of Soil Fertility And Resource Limitation In The Chihuahuan Desert, Dylan Stover

Open Access Theses & Dissertations

Human activities are substantially altering global resource cycles with widespread implications for biogeochemistry and ecosystem functioning globally. Drylands, regions where precipitation is outweighed by water losses, are especially sensitive to these large shifts in resource cycles due to their inherently low and variable resource availability. In these regions, resource availability and biological activity are often concentrated around plants – or fertile islands – and predominantly driven by pulses of water. However, our knowledge of the processes influencing biological productivity in drylands – patterns of soil fertility and resource limitation – remains lacking, and their unique biogeochemical and biological processes create …

Robustness Of Network Inference Algorithms Under Network Class Misspecification, Roberto Ceja

Electronic Theses, Projects, and Dissertations

Inferring phylogenies in the presence of hybridization remains a difficult problem. As a result, many current methods for reconstructing phylogenetic networks are restricted to a simple class of networks known as level-1. This restriction arises from theoretical considerations rather than empirical evidence, with real data possibly arising from complex networks. In this work, we evaluate the robustness of two level-1 network inference methods, SNaQ and NANUQ+, through a simulation study, when the input data originates from a more complex network. Specifically, we investigate whether these methods can accurately recover important features of the true species network, such as the circular …

Impacts Of Nutrient Addition And Disturbance On Coastal Dune Arthropod Communities And Trophic Interactions, Kayla Beitzel

Graduate Theses and Dissertations (2019 - present)

Coastal dune ecosystems face ongoing threats from human-mediated disturbance and altered resource availability. Because these dunes provide critical habitat for many organisms, including shorebirds, beach mice, and arthropods, changes in disturbance regimes or resource availability can impact plant communities and higher trophic levels by altering plant richness and productivity, which in turn influence arthropod abundance and diversity. To examine how disturbance and nutrient addition affect arthropod communities, we established twenty 5×5 m plots on Dauphin Island, crossing mechanical disturbance with a 10 g m⁻² addition of nitrogen, phosphorus, and potassium, replicated across five experimental blocks. Arthropods were sampled using three …

Determination Of An Effective Natural Boxelder Bug (Boisea Trivittata) Repellent, Reyna Chavez

Theses and Dissertations

This study investigates the use of ecofriendly repellant alternatives to pest management to control boxelder bugs (Boisea trivittata). This bug gathers by the thousands on warm surfaces of exterior suburban homes during early fall and late spring. I determined bug repellency to turmeric oil (Curcuma longa), catnip (Nepeta cataria), citronella (Cymbopogon nardus), and lavender (Lavandula angustifolia). The treatments consisted of essential oils containing 20% methanol. All treatments demonstrated repellency of Boxelder bugs. Citronella was the most effective and had the highest level of repellency range of 90-99%. Catnip was the least effective with a repellency range of 63-82%.

Seagrass Preference Among Pinfish In The Lower Laguna Madre, Nathaniel Garza

Theses and Dissertations

Pinfish (Lagodon rhomboides) is a common estuarine fish species found from Massachusetts to the Yucatan, Mexico. As juveniles, pinfish spend a significant portion of their life in coastal seagrasses which provide both shelter from predators and food. Along the Texas coast, there are three major species of seagrass- turtle grass (Thalassia testudinum), manatee grass (Syringodium filiforme) and shoal grass (Halodule wrightii) that differ in structural complexity. The goal of this study was to determine if pinfish associate more with one seagrass species than the others. A year-long field study was completed using twelve sample sites in the Lower Laguna Madre, …

Investigating Mariculture-Associated Ecosystem Services Across The Northern Gulf Of Alaska, Josianne Haag

Oceanography

The rapid expansion of mariculture in Alaska can drive physical and chemical alterations to the marine environment by introducing non-native organisms or artificially increasing the biomass of a native species. Currently, the main mariculture products grown in Alaska include the Pacific oyster (Crassostrea gigas), the Pacific blue mussel (Mytilus trosuslus), and three macroalgae species: ribbon kelp (Alaria marginata), sugar kelp (Saccharina latissima), and bull kelp (Nereocystis luetkeana). This dissertation examines how these species can impact their surrounding environment to better inform management practices for this growing industry. This research characterized the resource use of C. gigas and M. trossulus seasonally …

Taxonomy Of Endophytic Fungi Associated With Vallisneria Neotropicalis, Md. Arafat Rashid

Graduate Theses and Dissertations (2019 - present)

This study presents the first comprehensive taxonomic and ecological investigation of endophytic fungi (EF) associated with the submerged aquatic macrophyte Vallisneria neotropicalis in the southern United States. Over a 12 month period, from April 2023 to March 2024, leaf samples were collected from two distinct sites in Mobile Bay, Alabama a disturbed, brackish Causeway location and a cleaner, less impacted site at Meaher State Park. Using culture dependent methods, a total of 257 fungal endophytes were isolated from 1,200 leaf segments. All isolates belonged to the phylum Ascomycota, distributed across 3 classes, 6 orders, 10 families, and 19 taxa. The …

Margalefidinium Polykrikoides Group Iii Va, Usa Strain Growth And Sac-Like Pellicle Cyst Dynamics, Eduardo Pérez Vega

OES Theses and Dissertations

Margalefidinium polykrikoides is a harmful cosmopolitan dinoflagellate that blooms in coastal waters. The effect of temperature and salinity on the growth of M. polykrikoides VA strain was examined using microscopy and growth models. M. polykrikoides Group III VA strain grew better at warmer temperatures and lower salinities than M. polykrikoides Group III NY strain, Group I Korea strain, and Japan strain (unknown group). Modelers need to use the temperature and salinity growth responses from M. polykrikoides Group III VA strain to better simulate and predict M. polykrikoides blooms in the Chesapeake Bay.

Dinoflagellates produce cysts as a strategy to withstand …