Digital Commons Network^™

Hydrodynamic And Biochemical Impacts On The Development Of Hypoxia In The Louisiana-Texas Shelf - Part 2: Statistical Modeling And Hypoxia Prediction, Yanda Ou, Bin Li, Z. George Xue

Faculty Publications

This study presents a novel ensemble regression model for forecasts of the hypoxic area (HA) in the Louisiana-Texas (LaTex) shelf. The ensemble model combines a zero-inflated Poisson generalized linear model (GLM) and a quasi-Poisson generalized additive model (GAM) and considers predictors with hydrodynamic and biochemical features. Both models were trained and calibrated using the daily hindcast (2007-2020) by a three-dimensional coupled hydrodynamic-biogeochemical model embedded in the Regional Ocean Modeling System (ROMS). Compared to the ROMS hindcasts, the ensemble model yields a low root-mean-square error (RMSE) (3256 km2), a high R2 (0.7721), and low mean absolute percentage biases for overall (29%) …

Advanced Insights Regarding Both Micro- And Macro-Molecules In Various Environments: Showcasing The Local Mode Theory As A Powerful Tool., Alexis A. A. Delgado

Chemistry Theses and Dissertations

A majority of the research featured in my dissertation has involved the derivation of direct quantitative measures of intrinsic strength from quantum chemical calculations of molecular systems. In my works I applied Local Vibrational Mode Theory (LVMT) to 1) transform normal modes to local modes, via the elimination of all mode-mode coupling, to obtain local mode force constants (i.e. direct measures of intrinsic strength), 2) in combination with the Unified Reaction Valley Approach, unravel detailed information about bond breaking/formation processes that occur along a reaction, and 3) decompose individual normal modes into percentages of local mode contributions. This dissertation encompasses …

A New Spin On The Bacterial Flagellum: Its Normal Niche And Displacement, Alan L. Gillen

Faculty Publications and Presentations

Antoni van Leeuwenhoek observed individual living cells for the first time in history in 1674. Two years later, he noted microbes with long, thin appendages protruding from globular cells that seemed to provide locomotion, like “little feet” as they moved in drops of water. He gave credit to God in his writings over these new moving wonders. These appendages are now known as flagella (fig. 1), meaning “little whips” (from Latin).

More than 300 years later, Dr. Michael J. Behe used the flagellum and its nanomotor to introduce the concept of “irreducible complexity”—the idea that a structure is so complex …

Relationship Conflict And Depressive Symptoms In Couples: The Moderating Role Of The Broad Autism Phenotype, Chelsea Carson

Psychology Theses and Dissertations

Although there is substantial empirical support for a bidirectional association between relationship conflict and depression among couples, few studies have assessed this association among parents with a child on the autism spectrum. Further, individual characteristics that may moderate the conflict-depression link are not well understood, such as the Broad Autism Phenotype (BAP; i.e., milder, but qualitatively similar forms of autism characteristics), which are often elevated in parents of children on the autism spectrum. The present study tested the bidirectional relation between conflict and depressive symptoms in parents of a child on the autism spectrum and assessed BAP as a moderator …

Genetic Freedom Of The Seas In The Age Of Extractivism: Marine Genetic Resources In Areas Beyond National Jurisdiction, Irus Braverman

Contributions to Books

Published as Chapter 4 in Laws of the Sea: Interdisciplinary Currents, Irus Braverman, ed.

Areas beyond national jurisdiction are the largest environment on earth and marine genetic resources are its new, and perhaps final, frontier. It is no wonder, then, that the scope and protection of marine genetic resources in this oceanic space have been hotly contested and that a new doctrine for ocean governance has been coined in this context: mare geneticum. This chapter examines different definitions of marine genetic resources debated in the ongoing treaty negotiations over areas beyond national jurisdiction (the BBNJ), the conflicting interests involved, and …

Amphibious Legal Geographies: Toward Land–Sea Regimes, Irus Braverman

Contributions to Books

Published as ine introduction to Laws of the Sea: Interdisciplinary Currents, Irus Braverman, ed.

This introduction presents an overview of the key concepts discussed in the subsequent chapters of this book. The book discusses the juridical thinking that has enshrined the land/sea divide into contemporary governmental infrastructures, disciplinary traditions, and regulatory apparatuses, and charts the disastrous implications that such a legal fixation on the land/sea binary has wrought on human and other-than-human lifeworlds. As the collection proceeds, a second broad theme emerges, building on the first: when one rethinks the abstraction of law as played out on the ground, the …

Online Randomised Factorial Trial Of Electronic Screening And Brief Intervention For Alcohol Use In Pregnancy: A Study Protocol, Steven J. Ondersma, Lisa Todd, Samantha Jablonski, Chaarushi Ahuja, Kathryn Gilstad-Hayden, Gregory Goyert, Amy M. Loree, Jaimee Heffner, Kimberly A. Yonkers

Center for Health Policy and Health Services Research Articles

INTRODUCTION: Approximately 1 in 7 pregnant women in the USA report past-month alcohol use. Strong evidence connects prenatal alcohol exposure with a range of adverse perinatal outcomes, including the spectrum of conditions known as fetal alcohol spectrum disorders. Screening and Brief Intervention (SBI) has been recommended for pregnant women but has proven difficult to implement. This study will test the efficacy of single-session technology-delivered SBI (electronic SBI) for alcohol use in pregnancy, while simultaneously evaluating the possible additional benefit of tailored text messages and/or booster sessions in a 3×2 factorial trial.

METHOD AND ANALYSIS: This full factorial trial will use …

The Kinetics And Cellular Imaging Of Multi-Color Fluorescent And Chemiluminescent Compounds, Bo Li

Chemistry Theses and Dissertations

A three-dimensional display is a useful method which can provide spatially accurate representations of high-resolution images with a 360^° view. Therefore, it has potential to be applied widely in the medical area, entertainment industry and for military applications. According to the first-generation 3D digital light photoactivatable dye display (3D Light PAD), N-phenyl spirolactam rhodamine B was used as photoactivatable compound that could be switched from non-fluorescent to fluorescent using ultraviolet light. However, the detailed mechanism, how other rhodamine derivatives would perform in 3D Light PAD, and what other factors in this system could improve the imaging quality remained unclear. …

Exploring Biology Beyond The Classroom, Staff Report

University of Mississippi News

Off-campus courses give students hands-on opportunities in biodiversity locations

The Effects Of Polymorphisms Of Viral Protein R Of Hiv-1 On The Induction Of Apoptosis In Primary Cells And The Characterization Of Twelve Novel Bacillus Anthracis Bacteriophage, Jacob D. Fairholm

Theses and Dissertations

Viral protein r (Vpr) of Human immunodeficiency virus type 1 (HIV-1) plays an important role in the ability of the virus to infect cells and cause disease. Two polymorphisms to Vpr have been shown to result in differences in disease progression in infected individuals. R36W tends to result in rapid disease progression while R77Q results in long-term non-progression. In order to better understand how these polymorphisms result in these different disease phenotypes, our lab has recently shown that in cell culture, the R36W polymorphism results in increased viral replication and greater induction of cell death. On the other hand, infection …

A Comprehensive Phylogeny Of Stick And Leaf Insects (Insecta: Phasmatodea) Reveals Widespread Taxonomic Incongruence, Jackson B. Linde

Theses and Dissertations

Stick and leaf insects (Insecta: Phasmatodea) are a mesodiverse order of insects distributed across the world. These masters of masquerade crypsis are riddled with analogous morphological characters and lack a robust taxonomic framework. It seems that convergent evolution and the re-evolution of complex traits like wings and ocelli is perhaps the rule rather than the exception in stick insects. To investigate the re-acquisition of traits in this unique study system, a robust phylogenetic framework is essential. Our analyses combine traditional Sanger data with a transcriptomic backbone to provide the most corroborated phylogenetic analyses to date. To accomplish this, we employ …

Elucidating The Relationship Between Self-Reported Disability And Functional Movement In Individuals With Chronic Low Back Pain, Kelsey Ampudia Clark

Theses and Dissertations

INTRODUCTION: Low back pain (LBP) is often exacerbated by movement and, during functional movements, people with LBP tend to inherently modify their posture and movement patterns to avoid aggravating their pain further. Therefore, analysis of spinal movement in people with LBP is necessary and may lead to the identification of movement-based clusters for optimal treatment. PURPOSE: The overall purpose of this study was to investigate how movement patterns in people with chronic LBP relate to their subjective level of pain-related disability. First, we determined which spinal movements best discriminate between people with chronic LBP and asymptomatic controls; second, we ascertained …

Absence Of Association Of Tinnitus With Pre-Existing Hypertension: A Population-Based Study, Po-Hsiu Huang, Sudha Xirasagar Mbbs., Ph.D., Jin-Hua Chen, Yen-Fu Cheng, Nai-Wen Kuo, Herng-Ching Lin

Publications

OBJECTIVES: Whether tinnitus is associated with pre-existing hypertension remains uncertain. This study explored the association between tinnitus and pre-existing hypertension. METHODS: We obtained data on a retrospective cohort of 542 884 cases ≥18 years old with a first-time tinnitus diagnosis from Taiwan's National Health Insurance Research Database. We used propensity-score matching to select 542 884 matched controls and performed multiple logistic regression analyses to estimate the adjusted odds of prior hypertension among patients with tinnitus versus controls. RESULTS: Bivariate analysis showed no significant difference in the prevalence of prior hypertension between the tinnitus and no-tinnitus groups (35.58% vs 35.5%, P …

The Effects On Soil Fungal Community Of Excluding Select Above-Ground Herbaceous Species In A Montane Longleaf Pine Savanna Restoration Area, Sean Davis

Master of Science in Integrative Biology Theses

Due to anthropogenic pressures, by the 1990s longleaf pine forests were at 3% its peak area. Restoration is difficult as vegetation communities constitute a mosaic across the longleaf range. Hence, vegetation description is important wherever longleaf pine communities exist. Vegetation strongly associates with specific soil fungi operational taxonomic units (OTUs) and description of longleaf pine ecosystems are incomplete without description of microbial taxa.

My goals were to begin describing soil fungal communities of the longleaf pine at Sheffield Wildlife Management Area (SWMA) and describe changes to the fungal community after the removal of dominant plants in a longleaf savanna. I …

Genome Sequence Of Sn1, A Bacteriophage That Infects Sphaerotilus Natans And Pseudomonas Aeruginosa, K.M. Damitha Gunathilake, Denise M. Tremblay, Pier-Luc Plante, Ellen Jensen, Kenneth Nickerson, Sylvain Moineau

Kenneth Nickerson Papers

Phage SN1 infects Sphaerotilus natans and Pseudomonas aeruginosa strains. Its genome consists of 61,858 bp (64.3% GC) and 89 genes, including 32 with predicted functions. SN1 genome is very similar to Pseudomonas phage M6, which contains hypermodified thymidines. Genome analyses revealed similar base-modifying genes as those found in M6.

Phage SN1 was isolated in 1979 from activated sludge samples obtained from a wastewater treatment plant (Lincoln, Nebraska, USA) using S. natans ATCC 13338 as the host (1, 2). An early study showed that the siphophage SN1 has unusual bases in its genome as confirmed by cellulose thin-layer chromatography (1). Its …

Genome Sequence Of Sn1, A Bacteriophage That Infects Sphaerotilus Natans And Pseudomonas Aeruginosa, K.M. Damitha Gunathilake, Denise M. Tremblay, Pier-Luc Plante, Ellen C. Jensen, Kenneth Nickerson, Sylvain Moineau

School of Biological Sciences: Faculty Publications

Phage SN1 infects Sphaerotilus natans and Pseudomonas aeruginosa strains. Its genome consists of 61,858 bp (64.3% GC) and 89 genes, including 32 with predicted functions. SN1 genome is very similar to Pseudomonas phage M6, which contains hypermodified thymidines. Genome analyses revealed similar base-modifying genes as those found in M6.

The Discovery Of Novel 14-3-3 Binding Proteins Atg9a And Ptov1 And Their Role In Regulating Cancer Mechanisms, Colten Mitchell Mcewan

Theses and Dissertations

14-3-3 proteins are among a family of phospho-binding proteins that are known to regulate many essential cellular mechanisms. By binding to sites of phosphorylation, 14-3-3s are integrated into multiple signaling pathways that govern critical processes, such as apoptosis, cell cycle progression, autophagy, glucose metabolism, and cell motility. These processes are crucial for tumorigenesis and 14-3-3 proteins are known to play a central role in facilitating cancer progression. In this study, my colleagues and I discover two novel 14-3-3 interacting proteins, ATG9A and PTOV1, that are both vital to essential cellular functions and describe various mechanisms that these two proteins regulate. …

A Randomized Controlled Trial Of Telehealth Mindful Parenting Training On Executive Function In Autistic Children And Their Parents, Vanessa Zhou

Clinical Psychology Dissertations

This randomized controlled trial study explored the effect of telehealth mindful parenting group intervention on executive function in autistic children and their parents. Participants included 83 caregivers (29-54 years) of autistic children (5-18 years) in the United States who were randomized into either the immediate (n = 40) or waitlist-control group (n = 43). Of the participants randomized, 55 caregivers (immediate = 33; waitlist = 22) followed the protocol and were included in the primary analysis. Caregivers in the sample (mean age of 42.97 years) were mostly white (73%), married (76%), female (80%), biological mothers (67%), from Washington …

Genome Sequence Of Sn1, A Bacteriophage That Infects Sphaerotilus Natans And Pseudomonas Aeruginosa, K.M. Damitha Gunathilake, Denise M. Trembly, Pier-Luc Plante, Ellen C. Jensen, Kenneth W. Nickerson, Sylvian Moineau

School of Biological Sciences: Faculty Publications

Phage SN1 infects Sphaerotilus natans and Pseudomonas aeruginosa strains. Its genome consists of 61,858 bp (64.3% GC) and 89 genes, including 32 with predicted functions. SN1 genome is very similar to Pseudomonas phage M6, which contains hypermodified thymidines. Genome analyses revealed similar base-modifying genes as those found in M6.

Spatial And Temporal Characteristics Of California Commercial Fisheries From 2005 To 2019 And Potential Overlap With Offshore Wind Energy Development, Yi-Hui Wang, Ryan K. Walter, Crow White, Benjamin I. Ruttenberg

Physics

As climate change accelerates and fisheries management continues to evolve, California's commercial fisheries are changing. To improve the understanding of recent California fisheries dynamics, we compiled and analyzed commercial landings receipts to characterize temporal and spatial variation in landing and value of key fisheries groups within the exclusive economic zone across the state from 2005 to 2019. We found that California fisheries continue a shift first observed in the 1980s from higher‐biomass, lower‐value species, such as coastal pelagic species and market squid, toward lower‐biomass, higher‐value species, such as Dungeness crab Cancer magister and groundfish. Over the 15‐year time series analyzed, …

Robust And Efficient Assessment Of Potency (Reap) As A Quantitative Tool For Dose-Response Curve Estimation, Shouhao Zhou, Xinyi Liu, Xinying Fang, Vernon M Chinchilli, Michael Wang, Hong-Gang Wang, Nikolay V Dokholyan, Chan Shen, J Jack Lee

Faculty, Staff and Student Publications

The median-effect equation has been widely used to describe the dose-response relationship and identify compounds that activate or inhibit specific disease targets in contemporary drug discovery. However, the experimental data often contain extreme responses, which may significantly impair the estimation accuracy and impede valid quantitative assessment in the standard estimation procedure. To improve the quantitative estimation of the dose-response relationship, we introduce a novel approach based on robust beta regression. Substantive simulation studies under various scenarios demonstrate solid evidence that the proposed approach consistently provides robust estimation for the median-effect equation, particularly when there are extreme outcome observations. Moreover, simulation …

Dual Leucine Zipper Kinase Regulates Dscam Expression Through A Noncanonical Function Of The Cytoplasmic Poly(A)-Binding Protein, Monika Singh, Bing Ye, Jung Hwan Kim

Faculty, Staff and Student Publications

Dual leucine zipper kinase (DLK) plays a pivotal role in the development, degeneration, and regeneration of neurons. DLK can regulate gene expression post-transcriptionally, but the underlying mechanism remains poorly understood. The Drosophila DLK, Wallenda (Wnd), regulates the expression of Down syndrome cell adhesion molecule (Dscam) to control presynaptic arbor growth. This regulation is mediated by the 3′ untranslated region (3′UTR) of Dscam mRNA, which suggests that RNA binding proteins (RBPs) mediate DLK function. We performed a genome-wide cell-based RNAi screen of RBPs and identified the cytoplasmic poly(A)-binding protein, pAbp, as an RBP that mediates Wnd-induced increase in Dscam expression. Genetic …

Experimental Design And Construction Of The First Rotor Induced Collision Cell (Ricc) For Studying High Velocity Molecular Impacts, Abraham Lehi De La Cruz Hernandez

Theses and Dissertations

The identification and characterization of molecular biomarkers using mass spectrometry on an orbiting or fly-by spacecraft is one of the preferred analytical techniques in the search for life beyond the Earth. However, analysis is complicated by unwanted molecular dissociation occurring when sampled native molecules impact the instrument at high velocity. The mechanisms of chemical changes produced in high velocity impacts have been studied experimentally in some cases; however, there are significant experimental limitations to these techniques. Here I present the design, construction, and testing of a new experimental technique to produce high velocity molecular and microparticle collisions under a controlled …

Genetic Diversity Of Honeybee Colonies Predicts Gut Bacterial Diversity Of Individual Colony Members, Calum Bridson, Latha Vellaniparambil, Rachel E. Antwis, Werner Müller, R. Tucker Gilman, Jennifer K. Rowntree

School of Biological and Marine Sciences

No abstract provided.

The Use Of Objective Assessments In The Evaluation Of Technical Skills In Cardiothoracic Surgery: A Systematic Review, Nabil Hussein, Jef Van Den Eynde, Connor Callahan, Alvise Guariento, Can Gollmann-Tepeköylü, Malak Elbatarny, Mahmoud Loubani

2020-Current year OA Pubs

OBJECTIVES: With reductions in training time and intraoperative exposure, there is a need for objective assessments to measure trainee progression. This systematic review focuses on the evaluation of trainee technical skill performance using objective assessments in cardiothoracic surgery and its incorporation into training curricula.

METHODS: Databases (EBSCOHOST, Scopus and Web of Science) and reference lists of relevant articles for studies that incorporated objective assessment of technical skills of trainees/residents in cardiothoracic surgery were included. Data extraction included task performed; assessment setting and tool used; number/level of assessors; study outcome and whether the assessments were incorporated into training curricula. The methodological …

Assessment Of Microplastics In Southeastern Florida Forage Fishes, Maria Kappos

All HCAS Student Capstones, Theses, and Dissertations

Microplastics threaten the health of numerous marine organisms at all trophic levels. Currently, the topic is well studied among larger predators such as marine birds, dolphins, pelagic fishes, and even herbivorous organisms such as manatees. However, knowledge of microplastics present in organisms at lower trophic levels is poorly understood. The aim of this study was to assess the presence of microplastics in lower trophic level forage fishes. To gain a clear depiction of microplastics in the forage fishes of South Florida, four locations were sampled. These locations were classified into two categories, urban (Port Everglades and Northern Biscayne Bay) and …

A Winning Approach: Teaching Science Communication Skills Through Small-Group Workshops, Serena B. Gumusoglu, Maria Noterman Soulinthavong, Jennifer Barr

Higher Learning Research Communications

Objectives: Research almost always culminates in the communication of findings. Despite the necessity of grant and manuscript writing throughout academic careers, scientific trainees often receive little guided practice in written communication. To fill this gap, we designed, implemented, and evaluated a voluntary writing initiative for biomedical students at a research-intensive (R1) university in the midwestern United States called Writing Initiative in Neuroscience (WIN).

Method: WIN consisted of didactic and workshop components. The didactic component included discussions with topic-specific experts on writing grants and manuscripts for the public and for non-academic scientific careers. The workshop component consisted of small group-based peer …

Stratigraphic And Paleoenvironmental Analysis Of The Early Pleistocene Lake Tecopa Beds, Southeastern California, Marie Nicole White

Electronic Theses and Dissertations Archive

Paleo-Lake Tecopa was one of many lakes in the southwestern United States during the Pleistocene (2.5 – 0.012 Ma), which were controlled by Milankovitch-driven climatic cyclicity. While most studies emphasize the basin-filling lakes of the middle Pleistocene, this study investigates the early Pleistocene lacustrine deposits interpreted to represent alternating playa/shallow lake conditions. Geologic mapping, stratigraphic analysis, and mineralogical assessment via X-ray diffraction shows a significant lake phase in the east-central basin from ~2.5 to ~1.7 Ma. During this time, periods of alternating shallow lacustrine and beach/nearshore facies may reflect the 41-kyr obliquity cycles characteristic of the early Pleistocene. Faulting, soft-sedimentary …

Synoptic Observations Of Sediment Transport And Exchange Mechanisms In The Turbid Ems Estuary: The Edom Campaign, Maren Ds Van, C Maushake, J-W Mol, Keulen D Van, J Jürges, J Vroom, H Schuttelaars, T Gerkema, K Schulz, Th Badewien, M Gerriets, A Engels, A Wurpts, D Oberrecht, Aj Manning, T Bailey, L Ross, V Mohrholz, Dml Horemans, M Becker, D Post, C Schmidt, Pjt Dankers

School of Biological and Marine Sciences

No abstract provided.

A Typology Of Foster Home Quality Elements In Relation To Foster Youth Mental Health, Paul Sorenson

Dissertations and Theses

Foster care has been one of the primary interventions in society's efforts to address child maltreatment. The foster parents and foster homes follow a process of certification intended to ensure that maltreated children be placed in substitute care that supports and encourages positive outcomes. One of the outcomes of principle concern is mental health. Few studies have been conducted that explore the makeup of certified foster homes with respect to the cumulative impact of multiple indicators of quality on mental health outcomes of foster youth.

This study sought to identify a typology of foster homes based on theorized indicators of …