Digital Commons Network^™

An Insight Into The Biological Functions, The Molecular Mechanism And The Nature Of Interactions Of A Set Of Biologically Important Proteins., Adam A. Aboalroub

USF Tampa Graduate Theses and Dissertations

Characterization of protein structural properties is crucial to determine its role in normal and pathological conditions. In this dissertation, we have employed NMR spectroscopy in a combination of other biochemical and biophysical techniques to investigate the catalytic function, the molecular mechanism, and nature of the interactions of bmAANAT3, Cdc37, and TIMP2, respectively.

In the first project, we have employed an arylalkylamine N-acetyltransferases (AANATs) from Bombyx mori (bmAANAT3) to determine the role of the acetyl-group in coordinating the catalytic cycle in this family of enzymes. We have found that the occupancy of the acetyl-moiety in the catalytic funnel of these enzymes …

Intrinsically Disorder Proteins And Liquid-Liquid Phase Transitions In Neurodegenerative Diseases, April Lynn Darling

USF Tampa Graduate Theses and Dissertations

Neurodegenerative diseases have a negative impact on health and economics, effecting more than 20 million people in the United States and costing around $800 billion in 2018. Additionally, most neurodegenerative diseases such as Alzheimer’s Disease (AD), Amyotrophic Lateral Sclerosis (ALS), Frontotemporal Dementia (FTD), and several others are fatal and have no cure or effective treatment. Many of these diseases have a common theme of protein aggregates being present in disease tissue. These aggregates are thought to be toxic to the cell and prevention of pathological aggregation and elimination of these cellular aggregates may serve as a potential therapeutic approach to …

Novel Strategies On Characterizing Biologically Specific Protein-Protein Interaction Networks, Bi Zhao

USF Tampa Graduate Theses and Dissertations

The function, behavior, and environmental response of biological systems are essentially determined by the complex interaction and regulation of biomolecules inside the systems. Therefore, it is critical to characterize the inter-molecular interaction and regulation of biomolecules inside these systems. In this direction, many experimental techniques have been developed and these techniques have been used in many different model systems under various conditions. Consequently, a massive amount of data has been generated. These data cover multiple aspects of molecular interaction and regulation, such as protein-protein interaction, microRNA-RNA interaction, gene expression profiles, etc. While carrying rich information, these data may also contain …

Biology Student Perceptions Of Information Literacy Instruction In The Context Of An Essential Skills Workshop Series, Amy Jankowski, Yadéeh E. Sawyer

University Libraries & Learning Sciences Faculty and Staff Publications

The University Libraries at the University of New Mexico reconfigured their established library instruction program for biology as part of a broader grant-funded essential skills workshop series for STEM students. This initiative standardized supplementary instruction through seven in-person and online workshops delivered to students through the Biology Department’s four core undergraduate laboratory courses. Post-workshop feedback data were gathered from students throughout the two-year grant period. The present study analyzes this data set—including 3,797 completed student surveys from both library and non-library workshops over the course of four semesters—with the goal of understanding STEM student perceptions of the value of information …

Position-Specific Metabolic Probing And Metagenomics Of Microbial Communities Reveal Conserved Central Carbon Metabolic Network Activities At High Temperatures, Scott C. Thomas, Kevin O. Tamadonfar, Cale O. Seymour, Dengxun Lai, Jeremy A. Dodsworth, Senthil K. Murugapiran, Emiley A. Eloe-Fadrosh, Paul Dijkstra, Brian P. Hedlund

Life Sciences Faculty Research

Temperature is a primary driver of microbial community composition and taxonomic diversity; however, it is unclear to what extent temperature affects characteristics of central carbon metabolic pathways (CCMPs) at the community level. In this study, 16S rRNA gene amplicon and metagenome sequencing were combined with 13C-labeled metabolite probing of the CCMPs to assess community carbon metabolism along a temperature gradient (60–95°C) in Great Boiling Spring, NV. 16S rRNA gene amplicon diversity was inversely proportional to temperature, and Archaea were dominant at higher temperatures. KO richness and diversity were also inversely proportional to temperature, yet CCMP genes were similarly represented across …

Evaluating Fluid Fluxes From Deep-Sea Seepage Habitats, Leigha E. Peterson

Electronic Theses and Dissertations

The permanently dark deep-sea, located at oceanic water depths greater than 200 m, represents the largest potential habitat space on Earth. The physicochemical conditions of the planet’s largest biome are tightly coupled to the exchange of matter and energy from terrestrial and sea-floor end-members. In fact, global ocean and climate systems are significantly impacted by deep-sea processes. Seafloor vents and seeps appear to act as geologic exchange conduits, returning recycled materials to the hydrosphere to sustain another generation of life. Despite submarine seepage having control on global elemental cycling, it is estimated that less than 1% of the deep-sea has …

Schism Or Communion? A Discussion Of The Morality Of Online Learning Through A Christian/Catholic Lens, Michael K. Barbour, Jason Paul Siko, Mark Beadle, Greg Bitgood

Journal of Catholic Education

While massive open online courses (MOOCs) garnered plenty of attention at the beginning of the decade, initial findings about their value have been disappointing. In particular, only a narrow range of participants appear to be successful in completing and passing these unmonitored courses: white, educated, affluent males. One prominent Catholic scholar, Jonathan Malesic, went as far as saying that the very nature of MOOCs does not align with Catholic teachings of learning through social interaction, adapting to the needs of the learner, and teaching (i.e., successfully) the masses. Further, by extension, he applied these criticisms to online learning in general. …

Understanding The Mechanisms Between Job Stress And Employee Sleep: A Daily Diary Study, Marijana L. Arvan

USF Tampa Graduate Theses and Dissertations

The present study investigated how three job stressors, workload, unfinished tasks, and mistreatment from coworkers and supervisors, manifest in sleep impairment. Using the transactional model of stress, allostatic load model, the cognitive activation theory of stress (CATS), and findings from the sleep medicine literature, each job stressor was predicted to have three distinct pathways to sleep quality: an affective path (anger or anxiety), a cognitive path (anticipatory stress or rumination), and a behavioral path (sleep hygiene behaviors). The proposed models argued for two-stage mediation, in which the cognitive and affective strains of job stressors impact sleep quality both directly and …

Mitigating Barriers To Chronic Disease Risk Factor Prevention And Management In Disadvantaged Communities, Krys M. Johnson

USF Tampa Graduate Theses and Dissertations

Background: The incidence and prevalence of chronic disease (CD) has increased in recent decades due to the advent of CD management and life-extending technologies. To address this burden on the population and healthcare system, evidence-based CD prevention programs have been developed to reduce the incidence and therefore the prevalence of these diseases. Despite the development and dissemination of effective interventions, African-Americans and Hispanics have disproportionately higher prevalence of CD and associated risk factors and disproportionately lower participation in CD prevention programs. Overweight/obesity and CDs may have intergenerational effects, with overweight adults being more likely to have overweight children who are …

Ethnic Identity As A Protective Factor In Early Adolescent Youth Depression: An Investigation Of Differences By Race And Gender, Leah Bonilla

USF Tampa Graduate Theses and Dissertations

Adolescent mental illness is a major concern in the Unites States. The adolescent stage is a critical developmental period of physical and mental changes, thus it is important to understand protective factors associated with positive wellbeing. The current study aimed to explore: (a) the associations among race, gender, ethnic identity, and depressive symptoms among eighth grade adolescents, (b) to what extent are there differences in degree of depressive symptoms among youth based on race and gender, and (c) to what extent a strong sense of ethnic identity serves as a protective factor against the development of depression among youth with …

Schism Or Communion? A Discussion Of The Morality Of Online Learning Through A Christian/Catholic Lens, Michael K. Barbour, J. P. Siko, M. Beadle, G. Bitgood

While massive open online courses (MOOCs) garnered plenty of attention at the beginning of the decade, initial findings about their value have been disappointing. In particular, only a narrow range of participants appear to be successful in completing and passing these unmonitored courses: white, educated, affluent males. One prominent Catholic scholar, Jonathan Malesic, went as far as saying that the very nature of MOOCs does not align with Catholic teachings of learning through social interaction, adapting to the needs of the learner, and teaching (i.e., successfully) the masses. Further, by extension, he applied these criticisms to online learning in general. …

Engineering Of Bio-Mimetic Substratum Topographies For Enhanced Early Colonization Of Filamentous Algae, Ali Khoshkhoo, Andres L. Carrano, David M. Blersch, Kamran Kardel

Manufacturing Engineering: Faculty Publications (2015-2023)

This work reveals a set of surface topography parameters that are significant for algal attachment to natural rock substrata. Topography analysis of rock surfaces from a stream identifies three descriptive areal parameters (Smr, Sv, and Sa) that correlate with the presence of natural periphyton community. A method was developed and validated to reverse engineer and manufacture artificial substrata with topographic complexity defined by these parameters, using computational modeling and additive manufacturing. Results from colonization experiments with filamentous algae show statistically significant increases in early biomass accrual rates on substrata with higher values of …

Surface Pegylation Suppresses Pulmonary Effects Of Cuo In Allergen-Induced Lung Inflammation, Marit Ilves, Pia Anneli Sofia Kinaret, Joseph Ndika, Piia Karisola, Veer Marwah, Vittorio Fortino, Yuri Fedutik, Manuel Correia, Nicky Ehrlich, Katrin Loeschner, Alexandros Besinis, Joanne Vassallo, Richard D. Handy, Henrik Wolff, Kai Savolainen, Dario Greco, Harri Alenius

School of Engineering, Computing and Mathematics

No abstract provided.

Telepsychiatry Therapy As New Media For People With Mental Disorders Treatment (Case Study Of The People With Mental Disorders Health Workers To Reach Out Far Patients), Sri Wahyuningsih

Library Philosophy and Practice (e-journal)

Introduction. There are weak economic conditions of patients, such as costs, distance, transportation and supported by a minimal number of psychiatrists at Lawang Mental Hospital, the best alternative for Lawang Mental Hospital is offering innovation namely providing telepsychiatry therapy services to mental patients in Wonorejo Village, Singosari District Malang, which was allegedly by Ardimulyo Public Health Center staff in Singosari Subdistrict, that the presence of patients with the most mental disorders was 37 in the village of Wonorejo. The purpose of this study was to explore and analyze Telepsychiatry Therapy as a New Media For People With Mental Disorders …

Wet Cupping For Hypertension: A Systematic Review And Meta-Analysis, Shuting Lu, Shizheng Du, Anne Fish, Cong Tang, Qingqing Lou, Xuefang Zhang

Nursing Faculty Works

To assess the efficacy and safety of wet cupping in adults with hypertension, we conducted a systematic review and meta-analysis using 13 databases. Wet cupping alone or in combination with antihypertensive medication or acupuncture was used. Seven randomized trials were included, most not of high methodological quality. A few small studies suggested that wet cupping alone versus antihypertensive medication significantly reduced blood pressure and Traditional Chinese Medicine syndrome (hypertension-related symptoms). However based on current evidence, no firm conclusions can be drawn and no clinical recommendations made. Research projects included need validation. Studies indicate that wet cupping is a safe therapy.

Multiscale Model Of Regional Population Decline In Little Brown Bats Due To White‐Nose Syndrome, Andrew M. Kramer, Claire S. Teitelbaum, Ashton Griffin

KIP Articles

The introduced fungal pathogen Pseudogymnoascus destructans is causing decline of several species of bats in North America, with some even at risk of extinction or extirpation. The severity of the epidemic of white‐nose syndrome caused by P. destructans has prompted investigation of the transmission and virulence of infection at multiple scales, but linking these scales is necessary to quantify the mechanisms of transmission and assess population‐scale declines. We built a model connecting within‐hibernaculum disease dynamics of little brown bats to regional‐scale dispersal, reproduction, and disease spread, including multiple plausible mechanisms of transmission. We parameterized the model using the approach of …

Learning Also Calls From Abroad, And Fhsu Answers, July 04, 2019, Tisa Mason Ed.D.

Heart of a Tiger Columns

No abstract provided.

Toward A Coordinated Global Observing System For Seagrasses And Marine Macroalgae, Frank Muller-Karger, Chuanmin M. Hu, Enrique Montes-Herrera, Mengqiu Wang

Marine Science Faculty Publications

No abstract provided.

Edb-Fn Targeted Peptide–Drug Conjugates For Use Against Prostate Cancer, Shang Eun Park, Kiumars Shamloo, Timothy A. Kristedja, Shaban Darwish, Marco Bisoffi, Keykavous Parang, Rakesh Tiwari

Pharmacy Faculty Articles and Research

Prostate cancer (PCa) is the most common malignancy in men and is the leading cause of cancer-related male mortality. A disulfide cyclic peptide ligand [CTVRTSADC] 1 has been previously found to target extra domain B of fibronectin (EDB-FN) in the extracellular matrix that can dierentiate aggressive PCa from benign prostatic hyperplasia. We synthesized and optimized the stability of ligand 1 by amide cyclization to obtain [KTVRTSADE] 8 using Fmoc/tBu solid-phase chemistry. Optimized targeting ligand 8 was found to be stable in phosphate buered saline (PBS, pH 6.5, 7.0, and 7.5) and under redox conditions, with a half-life longer than 8 …

Correction To: Toward A Comprehensive View Of Cancer Immune Responsiveness: A Synopsis From The Sitc Workshop., Davide Bedognetti, Michele Ceccarelli, Lorenzo Galluzzi, Rongze Lu, Karolina Palucka, Josue Samayoa, Stefani Spranger, Sarah Warren, Kwok-Kin Wong, Elad Ziv, Diego Chowell, Lisa M Coussens, Daniel D De Carvalho, David G Denardo, Jérôme Galon, Howard L Kaufman, Tomas Kirchhoff, Michael T Lotze, Jason J Luke, Andy J Minn, Katerina Politi, Leonard D Shultz, Richard Simon, Vésteinn Thorsson, Joanne B Weidhaas, Maria Libera Ascierto, Paolo Antonio Ascierto, James M Barnes, Valentin Barsan, Praveen K Bommareddy, Adrian Bot, Sarah E Church, Gennaro Ciliberto, Andrea De Maria, Dobrin Draganov, Winson S Ho, Heather M Mcgee, Anne Monette, Joseph F Murphy, Paola Nisticò, Wungki Park, Maulik Patel, Michael Quigley, Laszlo Radvanyi, Harry Raftopoulos, Nils-Petter Rudqvist, Alexandra Snyder, Randy F Sweis, Sara Valpione, Roberta Zappasodi, Lisa H Butterfield, Mary L Disis, Bernard A Fox, Alessandra Cesano, Francesco M Marincola

Articles, Abstracts, and Reports

Following publication of the original article [1], the author reported that an author name, Roberta Zappasodi, was missed in the authorship list.

Key Inflammatory Pathway Activations In The Mci Stage Of Alzheimer’S Disease, Jagan A. Pillai, Sean Maxwell, Lynn M. Bekris, Stephen M. Rao, Mark R. Chance, James B. Leverenz

Faculty Scholarship

Objective: To determine the key inflammatory pathways that are activated in the peripheral and CNS compartments at the mild cognitive impairment (MCI) stage of Alzheimer’s disease (AD). Methods: A cross-sectional study of patients with clinical and biomarker characteristics consistent with MCI-AD in a discovery cohort, with replication in the Alzheimer’s Disease Neuroimaging Initiative (ADNI) cohort. Inflammatory analytes were measured in the CSF and plasma with the same validated multiplex analyte platform in both cohorts and correlated with AD biomarkers (CSF Aβ42, total tau (t-tau), phosphorylated tau (p-tau) to identify key inflammatory pathway activations. The pathways were additionally validated by evaluating …

Matrix Metalloproteinase Activity In The Lung Is Increased In Hermansky-Pudlak Syndrome., Ross Summer, Rachana Krishna, Deleila Schriner, Karina Cuevas-Mora, Dominic Sales, Rachel Para, Jesse Roman, Carl Nieweld, Bernadette R. Gochuico, Freddy Romero

Center for Translational Medicine Faculty Papers

BACKGROUND: Hermansky-Pudlak syndrome (HPS) is a rare autosomal recessive disorder characterized by oculocutaneous albinism and platelet dysfunction and can sometimes lead to a highly aggressive form of pulmonary fibrosis that mimics the fatal lung condition called idiopathic pulmonary fibrosis (IPF). Although the activities of various matrix metalloproteinases (MMPs) are known to be dysregulated in IPF, it remains to be determined whether similar changes in these enzymes can be detected in HPS.

RESULTS: Here, we show that transcript and protein levels as well as enzymatic activities of MMP-2 and -9 are markedly increased in the lungs of mice carrying the HPS …

Flyers With Drive, Michelle Tedford

Materials from the University of Dayton Magazine Website

The UD Motorsports Club is off to a running start. This includes overhauling vintage cars for a local auto museum.

How Do Ecological Resilience Metrics Relate To Community Stability And Collapse?, Caleb P. Roberts, Dirac L. Twidwell Jr, David G. Angeler, Craig R. Allen

Department of Agronomy and Horticulture: Faculty Publications

The concept of ecological resilience (the amount of disturbance a system can absorb before collapsing and reorganizing) holds potential for predicting community change and collapse—increasingly common issues in the Anthropocene. Yet neither the predictions nor metrics of resilience have received rigorous testing. The crossscale resilience model, a leading operationalization of resilience, proposes resilience can be quantified by the combination of diversity and redundancy of functions performed by species operating at different scales. Here, we use 48 years of sub-continental avian community data aggregated at multiple spatial scales to calculate resilience metrics derived from the cross-scale resilience model (i.e., cross-scale diversity, …

The Landscape Of Rights And Licensing Initiatives For Data Sharing, Sam Grabus, Jane Greenberg

Copyright, Fair Use, Scholarly Communication, etc.

Over the last twenty years, a wide variety of resources have been developed to address the rights and licensing problems inherent with contemporary data sharing practices. The landscape of developments is this area is increasingly confusing and difficult to navigate, due to the complexity of intellectual property and ethics issues associated with sharing sensitive data. This paper seeks to address this challenge, examining the landscape and presenting a Version 1.0 directory of resources. A multi-method study was pursued, with an environmental scan examining 20 resources, resulting in three high-level categories: standards, tools, and community initiatives; and a …

Design And Synthesis Of Novel Agents For The Treatment Of Tropical Diseases, Linda Corrinne Barbeto

USF Tampa Graduate Theses and Dissertations

Infectious diseases have had an impact on populations since the beginning of humanity. Despite huge advances in the fight against these conditions, they continue to be the leading cause of death and disability for a large portion of the world’s populace. Those most adversely affected predominately live in the more improvised areas of the developing world. Often treatments are made inaccessible to these areas due to cost, complicated administration requirements, severe side effects, and / or compound instability. Even when treatments are available the accelerated development of resistance has created an urgent need for the creation of new molecules with …

Challenges Of Implementing An Individual Randomized Controlled Trial (Women First: Preconception Maternal Nutrition Study) In A Rural Study Site: A Case Study From Pakistan, Sumera Aziz Ali, Umber S. Khan, Farina Abrejo, Sarah Saleem, Michael K. Hambidge, Nancy F. Krebs, Jamie E. Westcott, Robert L. Goldenberg, Elizabeth M. Mcclure, Omrana Pasha

Community Health Sciences

Persistent global disparities in maternal and neonatal outcomes associated with poor maternal nutrition provided the genesis of the Women First (WF) study, an individually randomized controlled trial on preconceptional maternal nutrition. This article describes the challenges that arose in implementing this trial related to nutrition or diet of the mother, in District Thatta-Pakistan. During different phases of the study, we encountered problems in identifying the eligible participants, taking consent from couples, randomizing participants in different arms, conducting biweekly follow-up visits on time, ensuring compliance to the intervention, and measuring the primary outcome within the 24 hours of birth. Each challenge …

The Multifaceted Effects Induced By Floods On The Macroinvertebrate Communities Inhabiting A Sinking Cave Stream, Octavian Pacioglu, Nicoleta Ianovici, Mărioara N. Filimon, Adrian Sinitean, Gabriel Iacob, Henrietta Barabas, Alexandru Pahomi, Andrei Acs, Hanelore Muntean, Lucian Pârvulescu

International Journal of Speleology

First-order sinking cave streams experience considerable hydrological variability, including spates and periods of base-flow during dry seasons. Early-summer flooding on a first-order stream sinking in Ciur-Ponor Cave (Romania) represented a suitable opportunity to test the response of the macroinvertebrate community and of basal food resources quantity and diversity to such a disturbance event. The invertebrate community and basal resources (i.e., woody debris, leaves, fine particulate organic matter and epilithon) were collected from three sampling sites, before and after the flood. The sampling strategy followed an up-downstream gradient of both species diversity and quantity of allochtonous organic matter decrease as the …

Wing Design Using Sail, Leonid Scott

Scholarly Horizons: University of Minnesota, Morris Undergraduate Journal

In engineering spaces where modeling is difficult, engineers seek a variety of well performing solutions in order to concentrate resources on promising areas of the problem space. We call this process illumination. Gaire et al have designed an algorithm specifically for illumination of problem spaces where the underlying model is computationally expensive. This algorithm, Surrogate Assisted Illumination (SAIL) uses an evolutionary algorithm called MAP-Elites to do illumination. However, SAIL introduces a Gaussian process to simulate the computationally expensive model, and Bayesian optimization for quality control of the Gaussian process. SAIL has demonstrated potential for finding a variety of well performing …

Microcosms: An Examination Of Insects In 17th-Century Dutch Still Lifes, Olivia Carlson

Scholarly Horizons: University of Minnesota, Morris Undergraduate Journal

There are many 17th-century Dutch flower still life paintings, and if you pass by one quickly during a visit at a museum, you may see nothing more than a bouquet of arranged flowers. But if you stop at one and look long enough, you will find visual treats that would have been missed when only glancing at the piece. Maybe you’d see the careful composition, or perhaps a shell or a figurine. Most often, however, you will discover insects; some are hidden in the bouquet, and some are very prominently displayed on top of the flowers or on a ledge. …