Digital Commons Network^™

Individualized Bayesian Inference Identifies Novel Genetic Variants For Parkinson's Disease, Jin Ren, Yasaman J. Soofi, Md Asad Rahman, Qing Lu, Jinling Liu

Engineering Management and Systems Engineering Faculty Research & Creative Works

Parkinson's disease (PD) is a complex neurodegenerative disorder with a significant genetic component. While genome-wide association studies (GWAS) have been instrumental in identifying genetic variants associated with PD, the reliance on large sample sizes and population-level analyses may overlook variants with lower minor allele frequencies or individual-specific relevance. Individualized Bayesian Inference (IBI) offers a promising method to complement GWAS by identifying and prioritizing candidate genetic markers at both the individual and patients-like-me subgroup levels. This study evaluates the application of IBI to PD genetics, using GWAS as a baseline for comparison. We analyzed genetic data from the Fox Insight online …

Gender-Responsive Knowledge Management Strategies For Vegetable Farmers Of Atok, Benguet , Philippines, Marianne R. De Luna, Farawyn E. Sarmiento

The Philippine Agricultural Scientist

Knowledge transfer in Philippine vegetable production often follows centralized pathways that neglect gendered roles, perpetuating productivity gaps. This study evaluated gender-responsive knowledge management pathways and technology adoption among smallholder vegetable farmers in Atok, Benguet, Philippines. Using a mixed-methods approach combining household surveys (n = 85), Social Network Analysis (SNA), vignettes, and key informant interviews, data were disaggregated by sex to map institutional disparities. Results showed that while women farmers demonstrate higher college completion rates (29%), men farmers cultivate larger average plots (0.57 vs. 0.37 ha), have higher off-farm income, and enjoy greater irrigation access (70.69% vs. 59.26%). Additionally, women derive …

Physical Soil Health Indicators In Paired Certified Organic And Conventional Farms: A Multi-Case Study In The Philippines, Victorino A. Bato, Gina Villegas Pangga

The Philippine Agricultural Scientist

There is a common perception that organic products and practices are good for the health of consumers, plants, the environment, and particularly the soil. In the Philippines, organic agriculture was enacted into law (i.e., Republic Act No. 10068) in order to encourage farmers to shift to organic farming and reap its benefits, including better soil health through improved soil physical properties. This study compared certain soil physical properties of certified organic farms in the Philippines with those of a conventional cropping system. Results showed significantly higher soil aggregate stability (high values of percent water-stable aggregates and mean weight diameter, both …

Building Wellbeing Through Nature And Adventure For Justice-Involved Youth, Lewis Kogan, Meagan Ricks, Janna Coulter, Miranda Margetts, Lori Butterfield, Ben Ukoh-Eke

Outcomes and Impact Quarterly

Justice-involved youth often experience elevated levels of stress, mental health challenges, and reduced access to positive developmental opportunities. A nature- and adventure-based youth development program designed to strengthen resilience, self-efficacy, nature-connectedness, and well-being among justice-involved youth was piloted in 2025 to address these challenges. Pilot findings indicated improvements in resilience, self-efficacy, hopefulness, and connectedness to nature.

Bathurst Burr And Its Control, Department Of Primary Industries And Regional Development, Western Australia

Biosecurity factsheets

Bathurst burr (Xanthium spinosum) is a declared pest in Western Australia (WA). This factsheet describes the nature of the plant, requirements land owners/occupiers must adhere to, control methods, and how to search, detect, and report it.

Bathurst burr is a summer growing annual shrubby plant originating in South America. In south west Australia, some mature plants survive well into winter, with the result that burrs may be found for most of the year. The weed spreads entirely by burrs, which are usually carried by people or animals, attached to clothes, fur, or other fibre by their hooked spines. They may …

Noogoora Burr And Its Control, Department Of Primary Industries And Regional Development, Western Australia

Biosecurity factsheets

Noogoora burr, also known as cocklebur (Xanthium strumarium), is a declared pest in Western Australia (WA). This factsheet describes the nature of the plant with links to requirements that land owners/occupiers must adhere to and control methods.

Native to western United States of America. Locally abundant in parts of the Kimberley, especially near water courses. Occasionally found in the South West region of WA.

Characterization Of Mettl3/14-Mediated M6a Modification In Human Transcriptome Using Nanopore Direct Rna Sequencing, Emily Kurtyan, Andrew J. Stein, Kelly J. Abdalla, Zhangerjiao Yuan, Miten Jain, Fadia Ibrahim

Department of Biochemistry and Molecular Biology Faculty Papers

Post-transcriptional RNA modifications modulate diverse aspects of RNA metabolism. N6-methyladenosine (m6A), one of the most abundant internal RNA modifications, is deposited by the core methyltransferase complex, METTL3 and METTL14. Oxford Nanopore Technologies (ONT) platform permits direct, single RNA molecule sequencing while preserving native modifications. However, without rigorous benchmarking, the accuracy and reproducibility of modification detection remain uncertain. Here, we leveraged ONT to comprehensively profile bona fide m6A modifications in cellular RNAs at single-nucleotide resolution by integrating two direct RNA sequencing chemistries (RNA002 and RNA004) with the m6Anet and Dorado modification-detection models. We independently depleted METTL3 and METTL14 in human cells …

Insect Monitoring Without Pitfalls: Seven Steps For Robust Insect Sensing Systems, Jamie Alison, Luca Pegoraro, Jarrett Blair, Yuval Cohen, Birgen Haest, Jacob Idec, Jacob Kamminga, Jenna Lawson, Meng Li, Leandro Aparecido Do Nascimento, Charlotte L. Outhwaite, Benjamin Rutschmann, Maximilian Sittinger, Mariana Abarca, Et Al

Biological Sciences: Faculty Publications

1. Data shortages fuel controversy about an ongoing insect biodiversity crisis. Insects are immensely diverse and functionally critical for ecosystems, yet data on their trends remain patchy and biased. Sensors, ranging from camera traps and acoustic recorders to weather radar stations, are set to transform data collection in entomol- ogy. Meanwhile, AI models that extract biological information from sensors are improving at a startling rate.

2. Realising the potential of automated monitoring means progressing from proof- of-concept studies to scalable insect sensing systems. However, stakeholders face severe operational challenges when adopting a growing suite of sensors, models and protocols for …

Genomic Investigation Of Population Structure In A Secretive, Semi‐Fossorial Snake (Colubridae: Tropidoclonion Lineatum) Across The Great Plains, Taylor Probst, Cameron D. Siler, Drew R. Davis

School of Integrative Biological & Chemical Sciences Faculty Publications

With advances in genomic technologies, it has become increasingly feasible to generate large numbers of loci to address population genetic and phylogeographic questions. Nevertheless, many widespread and relatively abundant species remain unsampled using molecular approaches. The lined snake ( Tropidoclonion lineatum ), a semi‐fossorial snake distributed across the Great Plains, is one such example. Despite the historical recognition of multiple subspecies based on noted variation in morphological characters, no formal molecular investigation of population structure has been conducted to date due to a paucity of vouchered genetic samples. Here, we present the first genomic assessment of range‐wide population structure in …

Best Practices For Managing Human–Beaver Conflicts In North America: Balancing Ecological Benefits And Human Interests, Alec J. Sundelius, Jerry Altermatt, Doug Brimeyer, Derek J. Broman, Jared Duquette, Cory Mosby, Falyn Owens, Shawn Rossler, David B. Ruid, Brian F. Wakeling, H. Bryant White

Human–Wildlife Interactions Monographs

We explore the complexities of managing beaver (Castor canadensis) conflicts in North America, describing the most common approaches used by natural resource management agencies to address conflicts. We identify specific conflicts caused by beavers, the ecological benefits beavers provide, and the tools commonly used to address conflicts. We discuss regional differences in beaver management strategies, including ecosystem restoration and conflict prevention. We specifically discuss a variety of management practices including public education, land use management, trapping, translocation, exclusion, shooting, dam removal, repellants, and harvest incentive programs; we then review the challenges and benefits of these tools. We discuss …

A Decision Analytic Approach To Hierarchical Decisions For Double-Crested Cormorant Conflict Resolution, Kelly F. Robinson, Travis O. Brenden, Alex Maguffee, Charles R. Bronte, Randall M. Claramunt, Thomas R. Cooper, Robin L. Debruyne, Brian S. Dorr, James F. Farquhar, Jana R. Lantry, James R. Jackson, David G. Fielder, Rachel L. Pierce, Doug Schultz

United States Department of Agriculture Wildlife Services: Staff Publications

Double-crested cormorants (Nannopterum auritum) are piscivorous, migratory waterbirds that often conflict with fisheries interests in North America, stemming from depredation effects on fish populations. A new permitting process in the United States allows natural resource agencies to request permits for lethal take of cormorants in special instances like depredation of managed fish stocks. This rule does not include guidance for when cormorant take might be actionable. We developed a hierarchical structured decision making (SDM) framework for evaluating whether, when, and how much cormorant take might be necessary. A broad-scale, or “umbrella,” SDM framework established the overarching problem, objectives …

State Of The Fisheries: Status Reports Of The Fisheries And Aquatic Resources Of Western Australia 2024/25, Stephen J. Newman, Ainslie Denham, Lebo Selemela, Jenny Moore

Status Reports of the Fisheries and Aquatic Resources

The Status Reports of the Fisheries and Aquatic Resources of Western Australia (SRFAR) provides an annual update on the state of the fish stocks and other aquatic resources of Western Australia (WA). These reports outline the most recent assessments of the cumulative risk status for each of the aquatic resources (assets) within WA’s six bioregions using an Ecosystem Based Fisheries Management (EBFM) approach. The Department of Primary Industries and Regional Dveelopment’s (DPIRD) risk based EBFM framework is the WA Government’s basis for management of all of WA’s aquatic resources.

Assets examined in each bioregion include the meso-scale ecosystems and aquatic …

The Cranial Nerves And Electrical Stimulation, Devin K. P. Adair

Dissertations, Theses, and Capstone Projects

Cranial nerves provide afferent pathways that enable bottom-up modulation of central autonomic and cognitive neural pathways. Because these pathways project to brainstem nuclei such as the nucleus tractus solitarius and engage neuromodulatory systems, including the locus coeruleus, electrical stimulation offers a mechanistically grounded approach to influencing brain function. This thesis tested whether active transcutaneous auricular vagus nerve stimulation (taVNS) produces physiological responses indicative of parasympathetic engagement, defined as decreases in heart rate, increases in heart rate variability, and decreases in respiration relative to a dose-matched earlobe control condition. Using cardiac and respiratory measures as physiological markers, taVNS at the tragus …

Riluzole As A Dual-Targeted Radiosensitizer For Osteosarcoma: Targeting Tumor Cells And Angiogenic Vasculature To Enhance Single High-Dose Radiotherapy Efficacy, Pooja P. Rao

Dissertations, Theses, and Capstone Projects

Osteosarcoma (OS), the most common primary bone malignancy of children and young adults, is intrinsically radioresistant, and outcomes for patients with unresectable or metastatic disease have not improved in over four decades. Single-dose radiation therapy (SDRT) is a potent modality against radioresistant, highly vascularized sarcomas, but its application in OS is constrained by dose-dependent normal tissue toxicity. Radiosensitizers achieving tumor control at lower doses therefore offer a direct route to widening the therapeutic window. Critically, OS radioresistance is not tumor-cell-autonomous. It emerges from two coordinated compartments: aberrant DNA repair and antioxidant capacity intrinsic to the tumor cell, and a radioprotective, …

Architects Of Mrna Fate: Molecular And Cellular Control Of P-Body Organization In The Drosophilia Melanogaster Female Germline, Samantha Milano

Dissertations, Theses, and Capstone Projects

Processing bodies (P-bodies) are cytoplasmic ribonucleoprotein condensates that regulate mRNA storage, translational repression, and decay. While the biochemical principles governing condensate assembly have been extensively studied in vitro, how P-body organization is established and dynamically regulated in vivo to control specific mRNA populations remains poorly understood. This dissertation investigated the molecular and cellular mechanisms that govern P-body architecture and function in the Drosophila melanogaster female germline. First, I identified the conserved LSm protein Trailer Hitch (Tral) as a central organizer of P-body architecture. Using quantitative confocal and super-resolution microscopy combined with chemical perturbations, I showed that Tral coordinates the …

Unraveling Hemispheric Specializations In The Mouse Auditory Cortex: From Diseased Model Comparisons To Development, Demetrios Neophytou

Dissertations, Theses, and Capstone Projects

Hemispheric specialization is a fundamental organizing principle of mature auditory cortical function, allowing the left and right Auditory Cortex (ACx) to perform complementary computations on complex sounds. This division of labor is conserved across species, and mice recapitulate key forms of auditory cortical lateralization, providing access to the synaptic and circuit mechanisms that generate it. Disrupted hemispheric organization is also associated with neurodevelopmental disorders characterized by severe communication impairments, including Rett Syndrome (RTT). Despite this, we know little about how lateralized auditory circuits are assembled during development or why they become differentially vulnerable to neurodevelopmental disruption. Here, using a mouse …

Collecting Holistic Evidence On Agroecology Performance To Accelerate Sustainable Food System Transitions, Sarah K. Jones, Andrea Cecilia Sánchez, Chris Dickens, Matthias S. Geck, Chaturangi Wickramaratne, Veronique Alary, Peter Bolo, Dennis Junior Choruma, Somphasith Douangsavanh, Modou Gueye Fall, Gatien Falconnier, Shweta Gupta, Chris Kettle, Smitha Krishnan, Sylvia Nyawira, Guillermo Orjuela-Ramirez, Boko Michel Orounladji, Piedad Pareja, Telma Sibanda, Christine Lamanna

All Peer-Reviewed Publications

A growing body of research shows the potential of agroecology for enabling a shift to planet-friendly and socially just agrifood systems through context-specific transition pathways. We conduct a scoping review to identify and evaluate the potential of 42 existing agroecology adherence and/or agricultural performance assessment tools to generate credible, legitimate, salient and transferable evidence to inform these transitions. Results show that while multiple relevant tools exist, each of them can be strengthened in at least one area. While most tools are transferable (low time and resource requirements) and have legitimacy (open access with transparent methods), tools have variable saliency (holistic …

Machine Learning-Enabled Chemical Ecology For Integrated Pest Management: From Volatiles To Field Applications, Steve B.S. Baleba, Victor O. Omondi, Pascal Aigbedion-Atalor, Emmanuel Peter, Souleymane Diallo, Komi Mensah Agboka

All Peer-Reviewed Publications

Machine learning is transforming chemical ecology by accelerating the discovery and deployment of semiochemical-based tools for precision pest management. These advances are particularly important in the face of climate change, pesticide resistance, and the growing need for sustainable agricultural intensification. This review synthesizes how machine learning can be applied across the semiochemical discovery and implementation pipeline, from chemical signal detection to field deployment and decision support for integrated pest management. We review major machine learning approaches and demonstrate how they extract biologically relevant information from high-dimensional chemical, electrophysiological, behavioral, sensor, and field datasets. These methods accelerate semiochemical discovery, prioritize candidate …

Killer Whales (Orcinus Orca) In The Indo-Pacific: A Review Of Their Distribution, Population Structure, And Ecology, Paola Lacetera, Paul Tixier, Isabella M. Reeves, Maeva Terrapon, Aaron Barnes, Christophe Guinet, Simon H. Elwen, John Totterdell, Jennah Tucker, Paul Cross, Georgia K. Bisset, John Dickie, John P.Y. Arnould

Research outputs 2022 to 2026

Aim: Killer whales, Orcinus orca, are cosmopolitan top predators showing highly variable ecology and behaviour across populations. In the Indo-Pacific, baseline knowledge in general remains scarce, limiting the assessment of their vulnerability to the accelerated environmental changes, including expanding fisheries this region is undergoing.

Methodology: This review synthesises 170 sources found between 2000–2025 to evaluate the current knowledge on distribution, population structure, and feeding ecology (including depredation) of killer whales in the Indo-Pacific, and to identify priorities for future research and management.

Results: Occurrence was highly variable, from sporadic sightings in most tropical sectors to seasonal and year-round presence at …

Remote Sensing Integrated Modeling Of Fall Armyworm Parasitoid Interactions In Africa Using Fractional Differential Equations, Marian Adan, Steeven Belvinos Affognon, Henri E.Z. Tonnang, Klaus Greve, Christian Borgemeister, Georg Goergen

All Peer-Reviewed Publications

The invasion of fall armyworm (Spodoptera frugiperda; FAW) into Africa poses a major threat to agricultural systems, particularly maize production, necessitating effective biological control strategies. This study presents an ecological modelling framework that integrates temperature data with fractional differential equations (FDEs) to investigate interactions between FAW and its parasitoid natural enemies. By incorporating temperature-driven effects on life-history traits and ecological memory dynamics, the model captures key features of host–parasitoid interactions under variable environmental conditions. Equilibrium states corresponding to FAW extinction, parasitoid extinction, and coexistence were analytically derived, and sensitivity analysis of the FAW reproduction number highlighted its central role in …

Sec-Saxs And Sans Analyses Of The Talin•Vinculin Complex, Gilbert Reyes

Dissertations, Theses, and Capstone Projects

Focal adhesions (FA) are integrin-based cell-matrix adhesion sites composed of adaptor proteins that facilitate the generation of traction forces important for biological functions such as cell migration, embryo development, wound healing, tissue organization and stability, and immune responses. Mature FA are observed when both autoinhibited multi-domain scaffolding protein talin and membrane-cytoskeletal protein vinculin are activated and interact thus promoting the assembly and function of FA. While research has resolved truncated sections of autoinhibited talin and recruitment of vinculin due to mechanotransduction that exposes cryptic vinculin binding sites (VBS), little is known about the global modifications of full length talin in …

The Role Of External Factors In Shaping Carbohydrate Conformational Landscapes, Murat Yaman

Dissertations, Theses, and Capstone Projects

Carbohydrates (glycans) are among the most structurally diverse biomolecules and participate in a wide range of biological processes, including molecular recognition, cell adhesion, immune response, host-pathogen interactions, and cellular signaling. Their biological functions are governed by a complex interplay between sequence, stereochemistry, conformational flexibility, and environmental factors. However, the structural heterogeneity and dynamic nature of glycans present significant challenges for both experimental characterization and theoretical modeling. In particular, the relationships between glycan structure, conformational dynamics, and the resulting potential energy surfaces remain incomplete.

This dissertation investigates how external factors modulate the potential energy surfaces of carbohydrates through a combination of …

Never Say Never: The Interdependence Of No-Till And Strategic Deep Tillage In Sustainable Production Systems, Therese Mcbeath, Stephen Davies, John A. Kirkegaard

Grain and Other Field Crops Research Articles

No-till (NT) farming systems are a defining feature of modern conservation agriculture (CA), providing benefits for soil and water conservation, operational efficiency, and resource use efficiency. However, long-term NT adoption across Australian dryland cropping systems has also intensified inherent and emergent soil constraints, including subsurface compaction, topsoil water repellence, acidity, and nutrient stratification. These constraints limit crop water use and yield potential. In the sandy soils of southern and western Australia, strategic deep tillage (SDT) has been developed in otherwise NT systems to alleviate these constraints. Advances in machinery design and controlled traffic systems have enabled deeper, more effective amelioration …

An Evaluation Of Next Generation Biological Control Methods For The Invasive Brown Treesnake In The Mariana Islands, Jonathan Q. Richmond, Tim Harvey-Samuel, Melia G. Nafus, Adam Perez, Renee Bellinger, Antoinette J. Piaggio, Riley Taitingfong, Margaret E. Hunter, Robert N. Fisher

United States Department of Agriculture Wildlife Services: Staff Publications

No abstract provided.

International Society Of Sports Nutrition Position Stand: Diets For Body Weight Reduction, Alan Aragon, Bill I. Campbell, Brad J. Schoenfield, Jeffrey Stout, Douglas Kalman, Paul J. Arciero, Shawn Arent, Richard Kreider, Lem Taylor, Laurent Bannock, Robert E.C. Wildman, Chad Kerksick, Jose Antonio

Faculty Scholarship

The International Society of Sports Nutrition (ISSN) has developed an official position on diets for body weight reduction. This critical analysis of the literature is intended to provide a scientific foundation for practitioners, coaches, and trainees regarding the effects of the major diet types in adults who are generally healthy, physically active, and/or athletic, while drawing from clinical research in those with overweight/obesity, when relevant. This position stand does not address acute dehydration-based weight cutting, pharmacotherapy (i.e. GLP-1RAs), or bariatric surgery. The following 15 points constitute the Position Statement of the Society; the Research Committee has approved them.

1. Diets for …

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Bioactive Peptides From The Cucurbitaceae Family: From Identification And Health-Promoting Functions To Industrial Utilization, Himani R. Kekiri Obada Gamage, Mahya Bahmani, Utpal Bose, Mekhala Vithana, Michelle L. Colgrave, Angéla Juhász

Research outputs 2022 to 2026

Cucurbitaceae is a major plant family within the kingdom Plantae, encompassing popular food crops such as zucchini, squash, pumpkins, and melons. With the growing interest in discovering novel bioactive peptides (BPs) from various plant sources, Cucurbitaceae crops have emerged as a popular candidate for isolating nutrient-enriched peptides due to their diverse applications in the nutritional and pharmaceutical sectors, with experimentally evidenced antihypertensive, antidiabetic, antimicrobial, and anticancer properties. However, current investigations are limited to a few economically important species and are seed-centric within this family, with limited in vivo and clinical validations for their in vitro functional properties. In this review, …

Exploring The Backgrounds, Experiences, Motivations, And Development Of School-Based Wheelchair Sport Coaches, Deborah Shapiro, Scott Douglas, Jp Barfield, Laurie A. Malone

Journal of Coach Development

Coaching in adapted sport is a complex and demanding practice that requires both specialized technical expertise and a deep understanding of disability. This study explored the motivations, backgrounds, and developmental pathways of interscholastic school-based wheelchair sport coaches. We examined how coaches are introduced to wheelchair sport coaching, their initial and ongoing development, and their perspectives on effective coaching and training practices. A total of 17 coaches (10 men, 7 women) with 1 to 17 years of experience in wheelchair sports coaching from 7 interscholastic wheelchair sports teams participated in one 60-minute mini focus group discussion and responded to a set …

Paper Wasp Species Polistes Fuscatus (Hymenoptera: Vespidae) Tracks Urban Lead (Pb) Levels More Than Polistes Dominula, Lindsey R. Kemmerling, Anna L. Lovat, Allison A. Hanka, Emilie C. Snell-Rood

The Great Lakes Entomologist

Lead (Pb) is a persistent, toxic pollutant with widespread but inequitably distributed impacts, especially for humans in urban areas. The impacts of lead pollution on other organisms is largely unknown, even as they commonly experience exposure to lead alongside humans. We tested hypotheses regarding the lead concentrations of paper wasps across a gradient of pollution relative to soil and human lead levels, and correlations with wasp body condition. We collected two species of paper wasp across an urban gradient of lead pollution: Polistes fuscatus (Fabricius) (Hymenoptera: Vespidae), native to our study location, and Polistes dominula (Christ), nonnative to our study …

Long-Term Monitoring And Response Of Papaipema Sciata Bird (Lepidoptera: Noctuidae) To Prescribed Fire In Michigan (Usa), Gregory J. Norwood, Logan M. Rowe, Brett A. Degregorio, David L. Cuthrell, Aaron D. Meredith, Steven M. Gray

The Great Lakes Entomologist

The Culver’s root borer moth (Papaipema sciata) (Lepidoptera: Noctuidae) is a rare Noctuid that requires Culver’s root (Veronicastrum virginicum) to complete its lifecycle within remnant native grasslands and open woodlands in the midwest and northeast United States. We report on 26 years of monitoring this species’ colonization of Culver’s root stems at Algonac State Park (ASP) in Michigan, where prairies have been maintained by prescribed fire since 1990. P. sciata is considered fire sensitive because eggs spend the dormant season in the combustible prairie litter and duff near host plants. The objectives were to determine the …

Volume 9 (2026) Climate And Responsibility

International Journal on Responsibility

This issue focuses on the various ways responsibility affects environmental justice. Specifically, this volume urges us to think about how societal and individual (in)action influences ecological crises and what informs this behavior, with a specific focus on religious and Indigenous beliefs and values.