Digital Commons Network^™

Preliminary Analysis Of Soil Volatile Organic Compounds As Soil Health Indicators, Thorne Taul

Graduate Theses, Dissertations, and Problem Reports (ETD)

Over the past decade, soil health (SH) has gained popularity due to the novelty of sustainable soil use related to human wellbeing. Soil health describes the overall quality of soil and its capacity to function over time. As interest in SH grows, researchers continue to explore new soil health indicators that can improve knowledge on how soil health is assessed and managed. Some indicators directly reflect soil health status, and some indirectly relate to processes and functions occurring within the soil. Volatile organic compounds (VOCs) are naturally occurring compounds that play a role in multiple soil processes. They are associated …

Deposition And Diagenesis Of Permo-Triassic Gypsum From Wyoming And Texas: Saline Lake And Groundwater Systems Of Equatorial Pangea, Maya Yamei Bradford

Graduate Theses, Dissertations, and Problem Reports (ETD)

Knowledge of gypsum textures and the processes that yield them is important for interpreting the history of environments, climates, and life on Earth. This is because gypsum textures are products of specific environmental, microbiological, and diagenetic processes, and because gypsum is relatively common in the Earth’s sedimentary record. Despite this significance, gypsum is relatively understudied. The fundamental goal of this dissertation is to advance our understanding of gypsum textures by presenting detailed, petrography-based investigations of Permo-Triassic gypsum from the continental interior of Pangea.

Gypsum is typical in the Permo-Triassic sedimentary record of tropical Pangea, where it is associated with red …

Biomarkers Of Foraging And Reproduction In Captive Adult Female Hawksbill Sea Turtles (Eretmochelys Imbricata), Joslyn Blessing Kent, Kari Renee Dawson, Shingo Fukada, Masae Makabe, Isao Kawazu, Ken Maeda, Roldán A. Valverde

School of Earth, Environmental, & Marine Sciences Faculty Publications

Hawksbill sea turtles (Eretmochelys imbricata) are listed as critically endangered by the International Union for the Conservation of Nature (IUCN). To implement best conservation practices for this species, its biology should be well understood. Attempting to characterize the foraging physiology of free-ranging hawksbill sea turtles is complicated by the fact that sampling is typically limited to nesting females during the reproductive season. Without data from non-reproductive periods, it is difficult to determine whether observed physiological values reflect baseline conditions or are specific to the energetically demanding nesting season. Accordingly, in this study, we described the physiology of foraging in …

2024 Annual Operations And Maintenance Report - 2024 Bres Annual Summary Report For Work Completed In Quadrant 4, Butte-Silver Bow Department Of Reclamation And Environmental Services

Silver Bow Creek/Butte Area Superfund Site

No abstract provided.

Stakeholder Co-Design Of Sustainable Urban Pest Management Strategies, Elizabeth C. Lowe, Nathan J. Butterworth, Alexander Austin, Cameron Webb, Tanya Latty

Research outputs 2022 to 2026

The high levels of broad-spectrum insecticides used to manage invertebrates in many cities around the world has significant environmental and health impacts. Integrated pest management (IPM) is a framework for sustainable pest control practice, but uptake of IPM remains low in most cities. We used participatory action research with pest management industry stakeholders (practitioners, industry representatives, researchers and government employees) to identify key issues in urban pest management in Australia, set priorities for change and discuss collaborative solutions. Via an online survey and a face-to-face workshop, the participants identified the key themes of education and training, public awareness, environmental impacts …

ℵ-Ipomdp: Mitigating Deception In A Cognitive Hierarchy With Off-Policy Counterfactual Anomaly Detection, Nitay Alon, Joseph M. Barnby, Stefan Sarkadi, Lion Schulz, Jeffrey S. Rosenschein, Peter Dayan

Research outputs 2022 to 2026

Social agents with finitely nested opponent models are vulnerable to manipulation by agents with deeper recursive capabilities. This imbalance, rooted in logic and the theory of recursive modelling frameworks, cannot be solved directly. We propose a computational framework called ℵ-IPOMDP, which augments the Bayesian inference of model-based RL agents with an anomaly detection algorithm and an out-of-belief policy. Our mechanism allows agents to realize that they are being deceived, even if they cannot understand how, and to deter opponents via a credible threat. We test this framework in both a mixed-motive and a zero-sum game. Our results demonstrate the ℵ-mechanism’s …

The Value Of Saltbush Revegetation For Biodiversity In A Highly Fragmented Landscape, Robert A. Davis, Michael D. Craig, Tim S. Doherty, Jonathan D. Majer, Eddie J.B. Van Etten

Research outputs 2022 to 2026

Secondary salinization is a significant global issue affecting up to 1 billion hectares of land, impacting biodiversity and particularly vegetation. One form of revegetation that can provide a return to landholders is saltbush (Atriplex spp.), which provides forage for a wide range of livestock. The effectiveness of saltbush plantings in providing useful habitat for fauna in agricultural landscapes suffering from secondary salinity is poorly understood. We aimed to address this knowledge gap by surveying bird, ant, and spider communities, and quantifying vegetation structure and floristic composition in saltbush and native woodlands in agricultural landscapes affected by secondary salinization in Western …

Design, Syntheses And Biological Applications Of Fluorescent Probes For Nad(P)H, Hsa And Cellular Microenvironment Sensing, Adenike M. Olowolagba

Dissertations, Master's Theses and Master's Reports

Fluorescent probes have emerged as powerful tools for investigating complex biological processes due to their high sensitivity, selectivity, and capability for real-time, non-invasive imaging. In particular, the detection of key biomolecules such as NAD(P)H, viscosity-related parameters, human serum albumin (HSA), and pH is essential for understanding cellular metabolism, redox homeostasis, and disease progression. In Chapter 2, three coumarin-based fluorescent probes (A–C) were designed, synthesized, and characterized for monitoring NAD(P)H levels in living cells. Probes A and B feature coumarin–cyanine hybrid structures linked via vinyl and thiophene bridges to 3-quinolinium acceptors, respectively, while probe C incorporates a dicyano moiety to replace …

Computational And Ai Frameworks For Identifying Key Regulatory Genes And Their Target Genes In Plants And Humans, Md Khairul Islam

Dissertations, Master's Theses and Master's Reports

This dissertation presents computational and AI-driven frameworks for identifying key regulatory genes and their downstream targets across plant and human biological systems. Three studies address distinct challenges in genomic regulation using advanced machine learning and bioinformatics approaches.

The first study introduces DyGAF (Dynamic Gene Attention Focus), a dual-attention transformer framework that identifies and ranks disease-relevant biomarker genes by simultaneously modeling independent molecular responses and interdependent regulatory network behavior. Two attention models provide complementary perspectives on gene importance and are fused through a novel combination metric. Applied to COVID-19 nasopharyngeal swab profiles, the attention-weighted representations achieved 94.23% classification accuracy, high sensitivity, …

Applied Forest Restoration And Conservation In Michigan: Advancing American Beech Restoration And Documenting A Historical Insect Collection, Thomas E. Panella

Dissertations, Master's Theses and Master's Reports

Forest restoration and conservation require both practical management approaches and the preservation of biological resources that support future research. This dissertation presents applied research conducted in Michigan that advances American beech (Fagus grandifolia) restoration in response to beech bark disease (BBD) while documenting an important historical entomological resource. Chapters 1–3 focus on overcoming practical barriers to American beech restoration. Restoration protocols were developed and refined for identifying BBD-resistant trees, graft propagation, rootstock collection, container production, and the field establishment of grafted BBD-resistant trees. A greenhouse experiment evaluated the influence of growing media and fertilization on container stock quality, …

Novel Chiral Interstellar Molecules: Quantum Anharmonic Ir And Vcd Predictions, Meredith Paik

Dissertations, Master's Theses and Master's Reports

The 2016 discovery of the chiral molecule propylene oxide (C₃H₆O) in the interstellar medium (ISM) has opened new avenues into explaining the origin of biomolecular homochirality on Earth. Thus, studies of chiral molecules in the ISM may be able to reveal more about the mechanism behind homochirality. However, while the search for chiral molecules in space has become an active field of study, astrochemical researchers have yet to detect other chiral molecules in the ISM. For this purpose, numerous characteristics for detectability have been outlined that may facilitate the discovery of other interstellar chiral molecules. With …

Effects Of Short-Term Exposure To Environmentally Relevant Pesticides Mixture On Morphological Alterations, Oxidative-Nitrative Stress Biomarkers, Cellular Apoptosis, And Antioxidant Expression In Kidneys Of Goldfish, Esmirna Cantu, Md Saydur Rahman

School of Earth, Environmental, & Marine Sciences Faculty Publications

Chemical stressors are pervasive, affecting both terrestrial and aquatic environments. The continual influx of these toxins is damaging ecosystems and the organisms that inhabit them. The abundance of environmental toxins makes aquatic habitats inhospitable for aquatic life. These chemical stressors consistently disrupt the life processes of aquatic organisms, particularly their physiological functions. This study examined on the effects of environmentally relevant pesticides mixture (low-dose and high-dose: S-metolachlor: 2.4 go/L, 12 μg/L; linuron: 2.0 μg/L, 10 μg/L; isoproturon: 1.2 μg/L, 6.0 μg/L; tebucanozole: 1.2 μg/L, 6.0 μg/L; aclonifen: 0.8 μg/L, 4.0 μg/L; atrazine: 0.4 μg/L, 2.0 μg/L; pendimethalin: 0.4 μg/L, 2.0 …

Histochemical Alteration, Protein Nitration, And Antioxidant Expression In Oysters As Early Warning Indicators For Microplastic Contamination In The Texas Gulf Coast, Rebecca Muñiz, Md Faisal Amin, Md. Saydur Rahman

School of Earth, Environmental, & Marine Sciences Faculty Publications

Microplastics are widely distributed in aquatic environments and have been detected in numerous organisms. Marine bivalves are among the most affected aquatic organisms by microplastics due to their filter-feeding behavior. In this study, 60 oysters were collected from two sites along the Texas Gulf Coast. Fourier transform infrared (FTIR) spectroscopy and Nile red staining were used to detect microplastics in oyster (Crassostrea virginica) tissues. We compared field and laboratory samples collected after a two-week depuration period to identify differences in the shape and size of microplastics in oyster tissues. Results from the field sites showed a large number of microplastics, …

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 …

A Preliminary Investigation Of Research Collaboration Through Scientific Paper Co-Authorship In The Gulf Of Mexico, Juliet Vallejo, Evelyn Roozee, Dongkyu Kim, Andrew M. Song, Christopher A. Gabler, Jasper R. De Vries, Antonia Sohns, Gordon M. Hickey, Owen Temby

School of Earth, Environmental, & Marine Sciences Faculty Publications

It is well known that publications with collaborators from external institutions increase citations. This effect scales with spatial distance. There are also many barriers to long-distance collaborations, including linguistic differences, funding constraints, and the incremental costs of remote collaboration. This paper uses the Gulf of Mexico as a case study to examine long-distance research collaboration because it consists of three countries with diverse development levels and two prominent diplomatic languages, within a singular regional ecosystem of tremendous natural and economic value. This paper uses bibliometric network analysis to examine scientific research article co-authorship in the Gulf of Mexico from 2000 …

The Impact Of Regional Fishery Management Organization Structure On Collaborative Performance, Evelyn Roozee, Owen Temby, Gordon M. Hickey

School of Earth, Environmental, & Marine Sciences Faculty Publications

Collaboration is integral to understand, plan, coordinate, and implement management measures for fisheries that cross international borders. Regional Fishery Management Organizations (RFMOs) are the main arenas for countries to collaborate and make decisions for transboundary fisheries, but these organizations have generally failed to prevent the depletion of some of the world's most valuable fish stocks. It is unclear how the structure and functioning of RFMOs can improve collaborative performance to better manage transboundary fish stocks. Using fuzzy-set qualitative comparative analysis, our study analyzes 10 RFMOs to identify the combination of six organizational conditions associated with high and low collaborative performance. …

Assessing And Understanding Soil Characteristics, Amy Papineau

UNH Cooperative Extension

No abstract provided.

The Geomorphology And Hydrogeology Of Pre-Restoration West Fork Teanaway River, Wa, Usa, Shana M. Egan

All Master's Theses

The West Fork Teanaway (WFT) River in Kittitas County, WA is an entrenched bedrock river channel with disturbed floodplain geomorphology and degraded riparian ecology. Two stream restoration approaches, “stage 0” valley bottom reset and engineered logjam installation, will be installed at the WFT in summer 2026 by collaborators at the Washington State Department of Fish and Wildlife and Mid-Columbia Fisheries Enhancement Group. The objective of this study was to constrain the pre-restoration geomorphic and hydrologic conditions of the WFT. The WFT has an unconsolidated floodplain aquifer of predominantly coarse-grained fluvial deposits. Monitoring of groundwater and surface water levels began in …

Semi-Supervised Learning For Annotation And Representation Of Single-Cell Rna Sequencing And Spatial Transcriptomics Data, Haoran Liu

Dissertations

Semi-supervised learning has emerged as a powerful paradigm for analyzing single-cell RNA sequencing (scRNA-seq) and spatial transcriptomics (ST) data, where full annotation is often costly or impractical. scRNA-seq technologies measure the expression of thousands of genes across tens of thousands of cells, whereas ST additionally captures the spatial coordinates of gene expression within intact tissue sections. Annotation is a key step in both scRNA-seq and ST analysis pipelines, aiming to identify cell types, spatial domains, and latent biological structures. However, most existing annotation approaches rely on separate clustering methods that are typically fully unsupervised and fail to leverage side information …

Computational Design Of Nanoporous Materials For The Adsorption Of Per- And Polyfluoroalkyl Substances, Daniel D. Mottern

Dissertations

Per- and polyfluoroalkyl substances (PFAS) are a large family of chemicals that have seen wide usage due to their fluorinated carbon backbone. The presence of strong C-F bonds in the backbone lends PFAS molecules high thermal and chemical stability, as well as strong hydrophobicity and lipophobicity. This combination of properties has led to heavy use of PFAS as surfactants, non-stick coatings, and aqueous foam forming films and flame retardants. However, these properties bring their own consequences. The high chemical and thermal stability of PFAS renders them persistent, with the C-F bonds resisting naturally occurring forms of degradation. Existing forms of …

Computational Methods For Single-Cell And Multi-Omic Data Integration And Regulatory Network Inference, Jianlan Ren

Dissertations

Single-cell and multi-omic technologies have transformed the dissection of cellular heterogeneity and regulatory dynamics in health and disease. However, the high dimensionality, technical variability, and biological complexity of these datasets present significant challenges for integration, annotation, and interpretation. In this dissertation, a suite of computational approaches is introduced to address key problems in single-cell and multi-omic data analysis through model-based innovations and applied statistical frameworks.

First, a constrained deep learning framework for single-cell data integration, label transfer, and clustering is proposed. By incorporating biologically motivated constraints into the training process, robust performance is achieved across simulated and benchmark datasets spanning …

A Novel Mathematical Model Of Hiv Transmission Incorporating The Effects Of Treatment And Pre-Exposure Prophylaxis: Sensitivity Analysis And Numerical Simulations, Erick Manuel Delgado Moya

Mathematical Modelling and Numerical Simulation with Applications

Human immunodeficiency virus (HIV) continues to be a public health problem in many countries of the world, and Pre-exposure prophylaxis (PrEP) is a preventive method for HIV, which has shown great efficacy and is in use worldwide. This work presents a new mathematical model for HIV transmission incorporating PrEP use and evaluates the impact of PrEP along with its increasing use in a population. The construction of the model takes into account three forms of diagnosis: diagnosis of individuals in risky sexual contact, diagnosis after risky contact (diagnosis in the undiagnosed infected compartment), and diagnosis associated with attempting to enter …

Construction And Data-Driven Analysis Of A Stochastic, Individual-Based Opioid Epidemiology Network Model, Leigh Bennett Pearcy, Owen Queen, Vincent Jodoin, Suzanne Lenhart, Christopher Strickland

Mathematical Modelling and Numerical Simulation with Applications

While substance use epidemiology has been an active area of mathematical research in recent years, the social and mental processes that are involved in the development of substance use disorders have presented challenges to advancing the epidemiological theory and how they differ from the contraction of pathogenic disease. Such distinction is especially pertinent in the context of the current United States opioid epidemic and its intersection with the recent COVID-19 pandemic, as both prescription drugs and social influence play major roles in the development of opioid use disorder. In this paper, we construct a stochastic network model capturing how individual …

Analysis And Numerical Investigation Of A Breast Cancer Treatment Model Incorporating Ketogenic Diet And Immune Boosters Via Optimal Control Theory, Kunnisai Muniroh, Ummu Habibah, Wuryansari Muharini Kusumawinahyu, Nur’Izzati Hamdan

Mathematical Modelling and Numerical Simulation with Applications

This paper develops a mathematical model to investigate breast cancer dynamics by incorporating tumor–immune interactions, ketogenic diet effects, and medical treatment. The model is formulated as a system of nonlinear ordinary differential equations and analyzed within an optimal control framework. Time-dependent control variables are introduced to represent treatment strategies aimed at minimizing tumor progression while reducing therapeutic costs. The model’s well-posedness is established through positivity and boundedness analysis. The necessary conditions for optimality are derived using Pontryagin’s Minimum Principle, resulting in a coupled system of state and adjoint equations. Numerical solutions are obtained using the fourth-order Runge–Kutta method combined with …

Bio-Papcz: Corn Starch-Based Composite Bioplastic Reinforced With Pineapple Leaf Fiber (Palf), Zinc Oxide (Zno), And Polyvinyl Alcohol (Pva), Marvin C. Caya, Shervin Austin C. Huang, Jovar Khalel J. Maghari, Ruel M. Levida

Sinaya: A Philippine Journal for Senior High School Teachers and Students

Plastic pollution poses a serious global threat, as petroleum-based plastics persist for centuries, and their surging production of over 450 million tons overwhelms ecosystems (Ritchie et al., 2023). Using a quantitative experimental research design, the study examined the effects of varying concentrations of cornstarch-based bioplastic reinforced with pineapple leaf fiber (PALF), polyvinyl alcohol (PVA), and zinc oxide (ZnO) on the bioplastic’s tensile strength and soil degradability. Sample C2 (ZnO 3.0 %w/w; PVA 9.0 %w/w) demonstrated the optimal tensile properties with a tensile strength of 0.76 MPa and an elongation at break of 6.40%, which was attributed to the addition of …

Comparing Individual Vs Mixed Treatments Of Chicken Bone Meal And Crab Shell Meal On The Growth Of Capsicum Annuum (Bell Pepper), Allthur Rudy R. Arroyo, John Rafael V. Capinia, Ethan Jude R. Reyes, Elnathan Jethro B. Sumalbag, Karl Benedict E. Viri, John Ray Cordova Estrellado, Kerry P. Cabral

Sinaya: A Philippine Journal for Senior High School Teachers and Students

The recycling of nutrient-rich food waste reduces reliance on synthetic fertilizers, enhances soil quality, and improves plant growth. Existing studies have demonstrated the effectiveness of food waste, such as bone meal (B) and crab shell meal (S), as fertilizers; however, their combined use has not been investigated. This study aims to evaluate the effect of varying proportions of B and S fertilizers on the growth of Capsicum annuum (bell pepper) employing a random complete block design with 10 treatments (pure B, pure S, and a 50:50 BS mix, each at 7 g, 14 g, and 21 g) plus a control …

Exploring The Metric Dimension Of The Graph Representing A Four-Ring Polycyclic Aromatic Hydrocarbon: Interstellar 1-Cyanopyrene, Andrei Matthew V. Robino, Sebastian Alex C. Traviña, Karl Benedict P. Narag, Mark Anthony B. Casao, Helix Raven C. Llanes, Azriel C. Alejo, Jonel C. Celamor

Sinaya: A Philippine Journal for Senior High School Teachers and Students

A graph's metric dimension is a parameter that denotes the minimum possible number of vertices in a subset that gives each vertex in the graph a unique representation. Despite extensive research on the metric dimension of polycyclic aromatic hydrocarbons (PAHs), there is currently no focused analysis on the metric basis and metric dimension of 1-cyanopyrene. In chemistry, graphs can be used to depict molecular structures. In this study, graph theory, specifically the concept of metric dimensions, is applied to the molecular structure of 1-cyanopyrene, which was detected in space for the first time in 2024. 1-cyanopyrene is a molecule made …

Experiences Of Bukidnon Farmers On The Use Of Carbonized Rice Hulls (Crh) Waste From Biomass Boilers As A Soil Conditioner, Dash Constantine S. Chamen, Queen Loraine D. Ban, Michael Justin O. Eluna, Pole Honson B. Gabitano, Ian Jay P. Saldo, Jhovel Roy D. Calo

Sinaya: A Philippine Journal for Senior High School Teachers and Students

The long-term use of agricultural products that adversely affect soil is a significant issue for farmers. This study explored the potential of carbonized rice hulls (CRH) waste from biomass boilers as a sustainable soil conditioner. The research investigated the specific soil conditioning properties of CRH and explored the lived experiences of nine (9) Bukidnon farmers to correlate their observations with the material’s chemical profile. The composition analysis identified a high silica content and essential micronutrients, such as calcium and magnesium, which act as nutrient restorers and pH regulators. The thematic analysis of semi-structured interviews, four themes emerged to summarize the …

Empowering Youth In A Changing Climate: Design, Implementation, And Evaluation Of A Salt Marsh Summer Science Program, Dan Levesque

Graduate Masters Theses

Climate change presents not only environmental challenges but also emotional challenges for today’s youth. This thesis documents the design, implementation, and evaluation of a field-based summer science program aimed at empowering adolescents with coastal salt marsh ecology while addressing climate change emotions and science identity development. The program, based in a Massachusetts salt marsh, was adapted from existing public environmental curricula and guided by place- and experience-based learning principles. Over Spring and Summer 2025, 13 students (ages 13-18) participated in extra-curricular field trips, hands-on research activities, and reflective discussions about the environment and the emotions it brings forth. Pre- and …

From Enhancement To Substitution: A Strategic Provocation On Simulation-Based Sport, Grant B. Morgan, Andreas Stamatis

Journal of Applied Sport Management

Advances in artificial intelligence, large-scale machine learning, and simulation technologies are rapidly transforming how sport is played, analyzed, and consumed. To date, most scholarly and industry discussions frame these technologies as tools that enhance embodied sport by improving performance, officiating, media production, and fan engagement. This paper extends that conversation by posing a more provocative strategic question: under what conditions might simulation move from enhancement to substitution? Focusing explicitly on sport as a business and entertainment enterprise, we argue that many of sport’s core sources of cultural and economic value—uncertainty of outcome, narrative continuity, legitimacy, and collective meaning—are structurally …