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Biomolecular Function From Structural Snapshots, Roshanak Etemadpour Dec 2023

Biomolecular Function From Structural Snapshots, Roshanak Etemadpour

Theses and Dissertations

Biological molecules can assume a continuous range of conformations during function. Near equilibrium, the Boltzmann relation connects a particular conformation's free energy to the conformation's occupation probability, thus giving rise to one or more energy landscapes. Biomolecular function proceeds along minimum-energy pathways on such landscapes. Consequently, a comprehensive understanding of biomolecular function often involves the determination of the free-energy landscapes and the identification of functionally relevant minimum-energy conformational paths on these landscapes. Specific techniques are necessary to determine continuous conformational spectra and identify functionally relevant conformational trajectories from a collection of raw single-particle snapshots from, e.g. cryogenic electron microscopy (cryo-EM) …


Methodology To Investigate Protein-Protein Interactions Of Jun During Neuronal Differentiation Of Pc12 Cells, Heather L. Leskinen Dec 2023

Methodology To Investigate Protein-Protein Interactions Of Jun During Neuronal Differentiation Of Pc12 Cells, Heather L. Leskinen

Theses and Dissertations

In humans and other mammals, injury to the central nervous system (CNS) can cause a permanent loss of neuronal function, leading to cognitive defects, limb paralysis, and other neurological disabilities. In contrast, studies have shown that some non-mammalian vertebrates like zebrafish, have the remarkable ability to functionally regenerate axons after CNS injury by reactivating and sustaining the expression of regeneration-associated genes (RAGs). Some RAGs encode transcriptional regulators that dimerize to control downstream gene expression necessary for functional axonal recovery. Our lab has previously identified Jun as an important transcriptional regulator of regeneration after optic nerve injury in zebrafish. After axon …


Potential Moderating Impact Of Circulating Endocannabinoids On Resting State Networks And Post-Traumatic Stress Disorder, Emily Anne Albertina Dec 2023

Potential Moderating Impact Of Circulating Endocannabinoids On Resting State Networks And Post-Traumatic Stress Disorder, Emily Anne Albertina

Theses and Dissertations

Introduction: Traumatic injury increases risk for long-term adverse outcomes such as the development of post-traumatic stress disorder (PTSD). Research has found that risk for the development of PTSD after such an injury varies depending on individuals’ race/ethnic group and sex. Although prior work has explored relationships between injury and PTSD in these groups utilizing imaging paradigms (e.g., resting state functional connectivity) and biological paradigms (e.g., the endocannabinoid system), the relationship between these factors has been understudied. The present study explored the potential moderating effect circulating endocannabinoids may have on the relationship between resting state functional connectivity and post traumatic stress …


Elucidating Aposematic Patterns In North American Hylids, Joseph S. Cannizzaro Iv Dec 2023

Elucidating Aposematic Patterns In North American Hylids, Joseph S. Cannizzaro Iv

Theses and Dissertations

Recognizing form and function of animal defenses is paramount to understanding the ecological and evolutionary forces behind predator and prey dynamics. Color patterns are strongly related to defensive strategies in animals. Some rely on camouflage to avoid detection, while others are brightly colored and conspicuously signal their noxiousness to potential predators. Still others combine cryptic dorsal coloration with colorful patches that are concealed in resting position but are facultatively unveiled by special behavior or simply during activity. Such hidden conspicuous color patches may be an intermediate stage in the evolution from camouflage to aposematism. We investigated whether conspicuously colored thighs …


Nutrient Dynamics Of Freshwater Estuarine Sediments Disturbed By Dredging, Ryan Allan John Roekle Aug 2023

Nutrient Dynamics Of Freshwater Estuarine Sediments Disturbed By Dredging, Ryan Allan John Roekle

Theses and Dissertations

This study examined the nutrient environment of sediments in the Milwaukee River estuary and the dynamics of those nutrients during simulated disturbance experiments within the context of large-scale dredging remediation. Surface sediments were collected from throughout the Milwaukee estuary (including river, harbor, and nearshore stations) by PONAR, centrifuged to separate porewater (interstitial water) from solid material, and filtered to further isolate and stabilize dissolved material. Porewaters were analyzed for dissolved nutrients including ammoniacal nitrogen (AN), nitrate, nitrite, and soluble reactive phosphorus (SRP). Surface sediment porewaters within the estuary were often highly enriched in AN and SRP, which were often 10-2000x …


Investigation Of The Role Of The G-Protein-Coupled Estrogen Receptor In Memory Consolidation In Gonadectomized Male Mice, Gustavo Dalto Barroso Machado Aug 2023

Investigation Of The Role Of The G-Protein-Coupled Estrogen Receptor In Memory Consolidation In Gonadectomized Male Mice, Gustavo Dalto Barroso Machado

Theses and Dissertations

Estrogens are cholesterol-derived hormones that play crucial physiological and pathological roles in both sexes and across the lifespan. Many research groups have replicated the beneficial roles of 17-beta-estradiol (E2), the most potent estrogen, in memory consolidation in the past decades, even though some mechanisms are still unclear. The rapid effects of E2 in memory formation are attributed to its binding to different estrogen receptors (ER), notably the intracellular receptors ER and ER, as well as the membrane ER called G protein-coupled estrogen receptor (GPER). Previous work from our laboratory demonstrated that acute post-training infusion of E2 into the dorsal hippocampus …


The Impact Of A Body Self-Compassion Program On Body Image And Experiences Of Exercise, Gretchen Paulson Aug 2023

The Impact Of A Body Self-Compassion Program On Body Image And Experiences Of Exercise, Gretchen Paulson

Theses and Dissertations

Body image concerns are a prevalent and pervasive issue among young adult women and are associated with a host of physical and psychological consequences including disordered eating, depression, and anxiety. Body image concerns play a role in physical activity and exercise behavior, where negative body image is related to lower levels of exercise engagement. Self-compassion is a way of relating to oneself with kindness and understanding, particularly in the presence of suffering or feelings of inadequacy. Self-compassion consists of three interrelated components: self-kindness, common humanity, and mindfulness, and has demonstrated effectiveness in reducing body image concerns, while fostering positive body …


Using Music To Modify Step-Rate And Running Biomechanics In Healthy Runners, Erin Marie Lally Aug 2023

Using Music To Modify Step-Rate And Running Biomechanics In Healthy Runners, Erin Marie Lally

Theses and Dissertations

Context: Running-related injury (RRI) is a significant public health issue that may be caused by injurious running biomechanics. Increasing step-rate (SR) using gait retraining may prevent and treat RRI. The Optimizing Performance Through Intrinsic Motivation and Attention for Learning (OPTIMAL) theory indicates enhanced expectancies, autonomy, and external focus of attention will optimize motor learning. Music has been shown to create enhanced expectancies, can provide incidental choices (autonomy), directs attention externally, and may increase compliance. No studies have investigated if music can be used to alter SR and running biomechanics or strategies that may improve compliance to gait retraining. Objective: The …


The Biological Bases Of Political Attachment: Neurobiological Correlates Of Ideology And Partisanship, Carisa Bergner Aug 2023

The Biological Bases Of Political Attachment: Neurobiological Correlates Of Ideology And Partisanship, Carisa Bergner

Theses and Dissertations

To fully understand the foundations of political attachments in an increasingly polarized environment, political scientists must reconcile traditional theories of political attitudes and behavior with insight gained from neurobiological approaches. The purpose of this research is to investigate the neurobiological correlates of strength of political ideology and partisanship, as well as the neurobiological correlates of ideological and partisan orientation. To do so, both structural and functional neuroimaging analyses were conducted on a diverse sample of patients at a Level 1 Trauma Center. Results indicate that strong ideological attachment is significantly associated with decreased volume in the left insula, though partisan …


The Effects Of Task Complexity On Knee Mechanics And Joint Coordination Variability During A Side-Step Cutting Task, Carter Michael Schmitz Aug 2023

The Effects Of Task Complexity On Knee Mechanics And Joint Coordination Variability During A Side-Step Cutting Task, Carter Michael Schmitz

Theses and Dissertations

Injury to the anterior cruciate ligament (ACL) is a very common and debilitating injury suffered by athletes of all ages, genders, and abilities. Practitioners attempt to minimize risks by implementing ACL prevention programs designed to physically prepare athletes for the demands of sport, however, the success of these programs is very inconsistent. The majority of past ACL prevention programs prioritize constrained run and cut activities, the removal of motor variability - attempting to “idealize” mechanics - and limited task complexity. Due to the inherent complexities that exist within sport, it is possible that more task complexity and motor variability is …


Exploring The Perceived Psychosocial Experiences Of Recreational Runners With Patellofemoral Pain: A Grounded Theory Approach, Kenneth Ildefonso May 2023

Exploring The Perceived Psychosocial Experiences Of Recreational Runners With Patellofemoral Pain: A Grounded Theory Approach, Kenneth Ildefonso

Theses and Dissertations

Patellofemoral pain (PFP) is a specific type of patellar or retropatellar pain aggravated by at least one physical activity that loads the patellofemoral joint during weight bearing on a flexed knee such as running (Crossley et al., 2016). Previous PFP research has highlighted the importance of psychosocial variables among PFP populations including recreational runners (Vicenzino et al., 2022). Upon reviewing the existing literature, much of it appears to be atheoretical and lack construct clarity. The purpose of this dissertation was to explore the perceived psychosocial experiences of recreational runners with PFP. This dissertation aimed to (1) document recreational runners’ perceived …


Estimating Energy Cost Of Physical Activities From Video Using 3d-Cnn Networks, Pragya Shrestha Chansi May 2023

Estimating Energy Cost Of Physical Activities From Video Using 3d-Cnn Networks, Pragya Shrestha Chansi

Theses and Dissertations

This research proposes a machine learning model that can estimate the energy cost of physical activities from video input. Currently, wearable sensors are commonly used for this purpose, but they have limitations in terms of practicality and accuracy. A deep learning model using three dimensional convolutional neural network (3D-CNN) architecture was used to process the video data and predict the energy cost in terms of metabolic equivalents (METs). The proposed model was evaluated on a dataset of physical activity videos and achieved an average accuracy of 71% on energy category prediction task and an root mean squared error (RMSE) of …


Body Bound, Rachel Allison May 2023

Body Bound, Rachel Allison

Theses and Dissertations

Body Bound is an exhibition catalog that corresponds to an exhibition of objects on display in the Emile Mathis Gallery that opened on February 23, 2023. The Exhibition traces the historically grounded and long-standing tradition of using bodily material as the basis for bookmaking. This practice has not subsided entirely in its traditional form but has also branched off and informed contemporary book-making practices. Contemporary books, specifically artist books, are a part of a longer history of using and presenting bodies with books. This exhibition includes historical books and contemporary artist books from the UWM special collections as well as …


Leveraging Biomedical Ontological Knowledge To Improve Clinical Term Embeddings, Fuad Hatem Abuzahra May 2023

Leveraging Biomedical Ontological Knowledge To Improve Clinical Term Embeddings, Fuad Hatem Abuzahra

Theses and Dissertations

ABSTRACT Leveraging Biomedical Ontological Knowledge to Improve Clinical Term Embeddings by Fuad Abu Zahra The University of Wisconsin-Milwaukee, 2023 Under the Supervision of Dr. Rohit J. Kate This research is on obtaining and using word embeddings for natural language processing tasks in the biomedical domain. Word embeddings are vector representations of words commonly obtained from large text corpora. This research leverages the biomedical ontology of SNOMED CT as an alternate source for obtaining embeddings for clinical terms. The existing graph-based methods can only give embeddings for concepts (i.e., nodes of the graph) of an ontology, hence we developed a novel …


Impact Of The Pre-A Motif On Truncated Hemoglobin N Activity, Alexander Shayne Drena May 2023

Impact Of The Pre-A Motif On Truncated Hemoglobin N Activity, Alexander Shayne Drena

Theses and Dissertations

Tuberculosis (TB) remains the leading cause of death by an infectious agent and therefore a global health crisis, according to the most recent report by the World Health Organization. This is due, in part, to Mycobacterium tuberculosis’ impressive defensive mechanisms against immune response, as well as the rise of Multi-Drug Resistant strains that have recently developed. Towards the turn of the century, a small heme protein called truncated hemoglobin N (trHbN) was discovered to protect the bacteria against reactive nitrogen species by converting nitric oxide (NO) to nitrate at rates far exceeding those of myoglobin and closer to those of …


Does State Of Mind Predict Prototype-Based Category Learning In Older Adults?, Kana Kimura May 2023

Does State Of Mind Predict Prototype-Based Category Learning In Older Adults?, Kana Kimura

Theses and Dissertations

Category learning plays an important role in day-to-day lives across all ages, allowing us to organize related experiences, develop expectations, and determine how we behave given those expectations. Despite its importance, the current body of literature on category learning in older adults is much smaller than that of other memory domains. Thus, little is known about how well older adults learn new concepts and what factors best promote learning novel categories. One factor that may affect category learning abilities is an individual’s state of mind. A number of studies demonstrate the effects of sleep, stress, affect, and motivation on cognition, …


Structural And Functional Characterization Of Pyridoxal-5’-Phosphate-Dependent L-Arginine Desaturases, Trevor Robert Melkonian May 2023

Structural And Functional Characterization Of Pyridoxal-5’-Phosphate-Dependent L-Arginine Desaturases, Trevor Robert Melkonian

Theses and Dissertations

Pyridoxal-5’-Phosphate (PLP)-dependent enzymes are ubiquitous throughout nature with over 140 unique activities characterized. This diverse reactivity has been attributed to PLP’s ability to act as an “electron sink” during catalysis. In recent years, a novel oxidase activity was characterized with the discovery of MppP, an enzyme in the biosynthetic pathway of mannopeptimycin, that catalyzes the first step in the production of the non-proteinogenic amino acid L-enduracididine. MppP catalyzes the four-electron oxidation of L-arginine to 4-hydroxy-(2,3)-dehydroarginine, using only the PLP cofactor and molecular oxygen, with no assistance from metals or other organic cofactors. Shortly after MppP was reported, Ind4 was characterized. …


Can Alfalfa Nutrient Concentrate Serve As A Feed Ingredient For Feeding Juvenile Yellow Perch (Perca Flavescens)?, William J. Sullivan May 2023

Can Alfalfa Nutrient Concentrate Serve As A Feed Ingredient For Feeding Juvenile Yellow Perch (Perca Flavescens)?, William J. Sullivan

Theses and Dissertations

This study evaluated the potential of alfalfa nutrient concentrate (ANC) used in feed for yellow perch. We assessed the quality of ANC based on pellet functionality, digestibility, and growth performance of perch fed with diets including various levels of ANC (0-20 g/100 g diet) to replace fishmeal protein in a control diet based on a 9-week feeding with three replications per diet. Pellet bulk density, durability, water stability, and oil retention capacity increased with fishmeal replacement. Growth rate, feed conversion ratio, satiation feed intake, and protein retention were similar for fish fed different diets (P>0.05). Fish fed ANC-20 had …


Educational Environments And Children's Physical Activity And Sedentary Behaviors, Nathan R. Tokarek May 2023

Educational Environments And Children's Physical Activity And Sedentary Behaviors, Nathan R. Tokarek

Theses and Dissertations

Children and adolescents spend the majority of their day engaged in sedentary behaviors (SB), while also not meeting physical activity (PA) recommendations. The failure to develop and maintain health enhancing behaviors from a young age may impact an individual throughout their life. With children and adolescents spending a large proportion of their waking hours in a school setting, the educational environment presents an opportunity in which children and adolescents’ PA and SB can be positively influenced. Therefore, the purpose of this dissertation was to explore how children and adolescent’s school time PA and SB are associated with the educational setting, …


Monitoring Welfare In Captive Chimpanzees (Pan Troglodytes) Using Individual Positional Behavior And Substrate Use Profiles, Joseph Lara May 2023

Monitoring Welfare In Captive Chimpanzees (Pan Troglodytes) Using Individual Positional Behavior And Substrate Use Profiles, Joseph Lara

Theses and Dissertations

The welfare of captive chimpanzees partly depends on the structural features present in their enclosure. An individual’s manner of expressing positional behaviors depends on these environmental characteristics and may be reflective of their physical and mental health. This thesis seeks to further the scientific understanding of the relationships between positional behavior, substrate use and captive chimpanzee welfare. In pursuit of this goal, I designed and installed a novel vertical climbing aid onto a climbable platform structure within an enclosure at the chimpanzee sanctuary, Chimp Haven, in an effort to encourage mobility and vertical space use in the enclosure’s residents. Additionally, …