Digital Commons Network^™

Defining The Essential Genome Of Haemophilus Parainfluenzae And Conditionally Essential Genes Required For Its Survival In Biofilms And Serum Complement, Thaís Harder De Palma

Open Access Dissertations

Haemophilus parainfluenzae (Hp), a Gram-negative bacterium is found in different niches of the mouth, and it is very abundant in the supragingival plaque. While considered a commensal in the mouth, Hp is also a HACEK microorganism associated with endocarditis and considered an opportunistic pathogenic species. However, Hp remains a subject of limited investigation. Specifically, the genes necessary for Hp's survival and those that are conditionally essential for thriving under various environmental conditions are yet to be identified. This research addresses those questions using transposon sequencing (TnSeq) to identify the essential genome and the core essential genome in …

Development Of Localized Drug Delivery Strategies For The Treatment Of Cancers And Infectious Diseases, Weizhou Yue

Open Access Dissertations

Difficult-to-treat human diseases and disorders such as brain cancer and posterior segment eye diseases greatly threaten human health and quality of life. However, the presence of physiological barriers such as the blood-brain barrier (BBB), cornea, and the blood-retinal barrier, renders these organs highly impervious to most therapeutics. As a result, most therapeutics administered systemically have low therapeutic efficacy even with high doses and are often associated with systemic side effects and/or toxicity. Localized drug delivery strategies such as injectables/implants, or locally-acting dosage forms, can circumvent physiological barriers and directly introduce therapeutics to the site of action to improve bioavailability, and …

Measuring The Needle In The Haystack: Surface Enhanced Raman Spectroscopy (Sers) Detection Of Anionic Environmental Pollutants, Timo Küster

Open Access Dissertations

Detection of anionic environmental pollutants such as nitrate in seawater is essential to monitoring and maintaining water quality in coastal ecosystems. Current on-site methods for nutrient detection often require extensive sample preparation and have detection limits above concentration thresholds associated with nutrient limited conditions where small variations in concentration can lead to sudden ecological events, such as toxic algae blooms.

Surface Enhanced Raman Spectroscopy (SERS) is based on the enhancement of otherwise weak Raman scattering in the presence of nanostructured metal surfaces where analytes are within approximately 2 nm of the surface. For in situ measurements in an aqueous phase, …

Power And Sample Size Calculations For Evaluating Spillover Effects In Networks With Non-Randomized Interventions, Ke Zhang

Open Access Master's Theses

Determining the appropriate sample size that is needed to achieve a desired level of statistical power is an integral aspect of study design, as it ensures that studies are adequately powered and that their results are reliable and meaningful. Adequate statistical power can also address some practical and ethical considerations. Various methodologies for power and sample size calculations have been developed for distinct types of studies. However, the implications for power when estimating spillover effects in sociometric network-based studies with non-randomized interventions (SNS-NRIs) remain inadequately explored. In this study, we first conducted a series of simulations to evaluate how the …

Recovering The Full Network Using A Sampling Bias Adjustment In Sampled Network, Ryan Humphreys

Open Access Master's Theses

This project aimed to investigate the differences in terms of network structural characteristics between full and sampled networks and to develop a new weighted generalized estimating equations model (WGEE) in order to mitigate the sampling bias and obtain less biased sample estimates for model coefficients and standard errors. The applications of such an approach are of interest in the field of network analysis and public health studies. The Transmission Reduction Intervention Project (TRIP) is an HIV study using risk networks and is a key motivator for this work. Two other motivating examples were constructed where it was found that sampled …

Historical And Technical Analysis Of A Baltimore Album Quilt Top, Susan E. Day

Open Access Master's Theses

Almost 200 years after their creation, quilts in the Baltimore Album style continue to fascinate scholars and collectors. They encompass the most intricate of appliqué designs accomplished with sophisticated skills. Their designers remain little-known. A previously unresearched and unfinished Baltimore Album Quilt top is described and analyzed. It is compared to three other historic Baltimore Album Quilts from museum collections, all inscribed and dated between 1845 and 1850, all originating from northern Baltimore County, Maryland, and all interrelated through designs or inscriptions.

Research questions address the maker(s) of the top, the identity and circumstances of the intended recipient, and the …

Pharmacist-Administered Influenza Vaccination In Children And Corresponding Regulations, Dana M. Gates, A. Cohen, Kelly Orr, Aisling R. Caffrey

Pharmacy Practice and Clinical Research Faculty Publications

In our retrospective cohort study, we evaluated trends in pharmacist-administered pediatric influenza vaccination rates in the United States and corresponding state-level pharmacist pediatric vaccination authorization models, including minimum age requirements, vaccination protocols, and/or prescription requirements. An administrative health claims database was used to capture influenza vaccinations in children less than 18 years old with 1 year of continuous enrollment and joinpoint regression was used to assess trends. Of the 3,937,376 pediatric influenza vaccinations identified over the study period, only 3.2% were pharmacist-administered (87.7% pediatrician offices, 2.3% convenience care clinics, 0.8% emergency care, and 6.0% other locations). Pharmacist-administered pediatric influenza vaccination …

A Pathogen Outside Its Host: F. Tularensis Survival In Water, Aisling Macaraeg

Senior Honors Projects

Francisella tularensis is a Gram-negative pathogenic bacterium and is the causative agent for tularemia. While our understanding of F. tularensis survival in the environment is limited, it is clear they can persist in freshwater aquatic environments for long periods of time. Currently, there is a gap in knowledge with the understanding of the genes involved with the long-term survival of F. tularensis in an aquatic environment. In the laboratory setting, it has been found that lower temperatures seem to allow longer survival. The aim of this project is to identify laboratory conditions that allow F. tularensis to survive longterm in …

Freely Dissolved Organochlorine Pesticides (Ocps) And Polychlorinated Biphenyls (Pcbs) Along The Indus River Pakistan: Spatial Pattern And Risk Assessment, Muhammad Sohail, Syed Ali Musstjab Akber Shah Eqani, Habib Bokhari, Muhammad Zaffar Hashmi, Nadeem Ali, Ambreen Alamdar, Joel E. Podgorski, Dave Adelman, Rainer Lohmann

Graduate School of Oceanography Faculty Publications

Freely dissolved OCPs and PCBs were measured by using polyethylene passive samplers at 15 sites during 2014 throughout the stretch of the Indus River to investigate the spatial pattern and risk assess. Levels (pg/L) of dissolved ∑OCPs and ∑PCBs ranged from 34 to 1600 and from 3 to 230. Among the detected OCPs, dissolved DDTs (p,p′-DDE, followed by p,p′-DDT) predominated with levels of 0.48 to 220 pg/L. The order of occurrence for other studied OCPs was as follows: HCB, endosulfans, chlordanes, and HCHs. Spatially, dissolved (pg/L) ∑OCPs varied (p < 0.05) as the following: surface water of the alluvial riverine zone (ARZ) showed the highest levels (114) followed by the frozen mountain zone (FMZ) (52.9), low-lying zone (LLZ) (28.73), and wet mountain zone (WMZ) (14.43), respectively. However, our zone-wise PCB data did not exhibit significant differences (p > 0.05). Principal component analysis/multilinear regression results …

Regulation Of Genetically Engineered (Ge) Mosquitoes As A Public Health Tool: A Public Health Ethics Analysis, Zahra Meghani

Philosophy Faculty Publications

Background: In recent years, genetically engineered (GE) mosquitoes have been proposed as a public health measure against the high incidence of mosquito-borne diseases among the poor in regions of the global South. While uncertainties as well as risks for humans and ecosystems are entailed by the open-release of GE mosquitoes, a powerful global health governance non-state organization is funding the development of and advocating the use of those bio-technologies as public health tools.

In August 2016, the US Food and Drug Agency (FDA) approved the uncaged field trial of a GE Aedes aegypti mosquito in Key Haven, Florida. The …

Online Sale Of Small Turtles Circumvents Public Health Regulations In The United States, Lauren E. Montague, Juliana M. Macrotrigiano, Niamh E. Keane, Hannah E. Marquardt, Jennifer A. Sevin, Nancy E. Karraker

Natural Resources Science Faculty Publications

In the United States (U.S.), pet turtles have been associated with outbreaks of salmonellosis, a serious and sometimes-fatal intestinal illness caused by Salmonella bacteria, with nearly 300,000 people being infected in some years. Children are particularly susceptible because of their propensity to put items, including small turtles, in their mouths. In 1975, a U.S. federal regulation prohibited the sale of turtles <4 inches (101.6 mm) in size, except for the purposes of export, scientific, or educational purposes. This regulation was established to reduce the incidence of salmonellosis, particularly in small children. Previous research has not evaluated the availability of turtles <4 inches in size on websites selling wildlife. We monitored 16 websites in 2021 and quantified listings of small turtles. We determined whether information on Salmonella, the 1975 federal regulation, or related state regulations were provided on the websites and determined legality of sales of small turtles by state regulations. We found that all 16 websites openly advertised and sold turtles <4 inches in size, but only half of these websites provided information about Salmonella and/or …

Dengue Virus Downregulates Tnfr1- And Tlr3-Stimulated Nf-Kb Activation By Targeting Ripk1, Darshika J. Udawatte, Diane M. Lang, Jeffrey R. Currier, Carey L. Medin, Alan L. Rothman

Cell and Molecular Biology Faculty Publications

Dengue virus (DENV) infection is the most prevalent arthropod-borne virus disease and is endemic in more than 100 countries. Several DENV proteins have been shown to target crucial human host proteins to evade innate immune responses and establish a productive infection. Here we report that the DENV NS3 protein targets RIPK1 (Receptor Interacting Protein Kinase I), a central mediator of inflammation and cell death, and decreases intracellular RIPK1 levels during DENV infection. The interaction of NS3 with RIPK1 results in the inhibition of NF-κB activation in response to TNFR or TLR3 stimulation. Also, we observed that the effects of NS3 …

Assessing The Role Of Multiple Mechanisms Increasing The Age Of Dengue Cases In Thailand, Angkana T. Huang, Saki Takahashi, Henrik Salje, Lin Wang, Bernardo Garcia-Carreras, Kathryn Anderson, Timothy Endy, Stephen Thomas, Alan L. Rothman, Chonticha Klungthong, Anthony R. Jones, Stefan Fernandez, Sopon Iamsirithaworn, Pawinee Doung-Ngern, Isabel Rodriguez-Barraquer, Derek A.T. Cummings

Cell and Molecular Biology Faculty Publications

The mean age of dengue hemorrhagic fever (DHF) cases increased considerably in Thailand from 8.1 to 24.3 y between 1981 and 2017 (mean annual increase of 0.45 y). Alternative proposed explanations for this trend, such as changes in surveillance practices, reduced mosquito–human contact, and shifts in population demographics, have different implications for global dengue epidemiology. To evaluate the contribution of each of these hypothesized mechanisms to the observed data, we developed 20 nested epidemiological models of dengue virus infection, allowing for variation over time in population demographics, infection hazards, and reporting rates. We also quantified the effect of removing or …

Treatment, Clinical Outcomes, And Predictors Of Mortality Among A National Cohort Of Admitted Patients With Acinetobacter Baumannii Infection, Haley J. Appaneal, V. Lopes, Kerry L. Laplante, Aisling R. Caffrey

Pharmacy Practice and Clinical Research Faculty Publications

The objectives were to analyze treatment, clinical outcomes, and predictors of mortality in hospitalized patients with Acinetobacter baumannii infection. This was a retrospective cohort study of inpatients with A. baumannii cultures and treatment from 2010 to 2019. Patients who died during admission were compared to those who survived, to identify predictors of inpatient mortality, using multivariable unconditional logistic regression models. We identified 4,599 inpatients with A. baumannii infection; 13.6% died during admission. Fluoroquinolones (26.8%), piperacillin-tazobactam (24%), and carbapenems (15.6%) were used for treatment. Tigecycline (3%) and polymyxins (3.7%) were not used often. Predictors of inpatient mortality included current acute respiratory …

Treatment Heterogeneity In Pseudomonas Aeruginosa Pneumonia, Aisling R. Caffrey, J. Appaneal, J. Xin Liao, Emily C. Piehl, Vrishali Lopes, Laura A. Puzniak

Pharmacy Practice and Clinical Research Faculty Publications

We have previously identified substantial antibiotic treatment heterogeneity, even among organism-specific and site-specific infections with treatment guidelines. Therefore, we sought to quantify the extent of treatment heterogeneity among patients hospitalized with P. aeruginosa pneumonia in the national Veterans Affairs Healthcare System from Jan-2015 to Apr-2018. Daily antibiotic exposures were mapped from three days prior to culture collection until discharge. Heterogeneity was defined as unique patterns of antibiotic treatment (drug and duration) not shared by any other patient. Our study included 5300 patients, of whom 87.5% had unique patterns of antibiotic drug and duration. Among patients receiving any initial antibiotic/s with …

Ser-109: An Oral Investigational Microbiome Therapeutic For Patients With Recurrent Clostridioides Difficile Infection (Rcdi), Sahil Khanna, Sims, Thomas J. Louie, Monika Fischer, Kerry L. Laplante, Jessica Allegretti, Brooke R. Hasson, Allyson T. Fonte, Christopher Mcchalicher, David S. Ege, Jessica A. Bryant, Timothy J. Straub, Christopher B. Ford, Matthew R. Henn, Elaine E.L. Wang, Lisa Von Moltke, Mark H. Wilcox

Pharmacy Practice and Clinical Research Faculty Publications

Clostridioides difficile infection (CDI) is classified as an urgent health threat by the Centers for Disease Control and Prevention (CDC), and affects nearly 500,000 Americans annually. Approximately 20–25% of patients with a primary infection experience a recurrence, and the risk of recurrence increases with subsequent episodes to greater than 40%. The leading risk factor for CDI is broad-spectrum antibiotics, which leads to a loss of microbial diversity and impaired colonization resistance. Current FDA-approved CDI treatment strategies target toxin or toxin-producing bacteria, but do not address microbiome disruption, which is key to the pathogenesis of recurrent CDI. Fecal microbiota transplantation (FMT) …

Impact Of Clopidogrel On Clinical Outcomes In Patients With Staphylococcus Aureus Bacteremia: A National Retrospective Cohort Study, Aisling R. Caffrey, J. Appaneal, Kerry L. Laplante, Vrishali V. Lopes, Erlinda R. Ulloa, Victor Nizet, George Sakoulas

Pharmacy Practice and Clinical Research Faculty Publications

Activated platelets have known antimicrobial activity against Staphylococcus aureus. Accelerated clearance of platelets induced by S. aureus can result in thrombocytopenia and increased mortality in patients. Recent studies suggest that P2Y12 inhibition protects platelets from accelerated clearance. We therefore evaluated the effect of P2Y12 inhibition on clinical outcomes in patients with S. aureus bacteremia across a large national cohort. Our retrospective cohort (2010 to 2018) included patients admitted to Veterans Affairs (VA) hospitals with blood cultures positive for S. aureus and treated with standard-of-care antibiotics. Employing propensity score-matched Cox proportional hazards regression models, we compared clinical outcomes in …

Identification Of Sars-Cov-2 Main Protease Inhibitors From A Library Of Minor Cannabinoids By Biochemical Inhibition Assay And Surface Plasmon Resonance Characterized Binding Affinity, Chang Liu, Tess Puopolo, Huifang Li, Ang Cai, Navindra P. Seeram, Hang Ma

Biomedical and Pharmaceutical Sciences Faculty Publications

The replication of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is mediated by its main protease (M^pro), which is a plausible therapeutic target for coronavirus disease 2019 (COVID-19). Although numerous in silico studies reported the potential inhibitory effects of natural products including cannabis and cannabinoids on SARS-CoV-2 M^pro, their anti-M^pro activities are not well validated by biological experimental data. Herein, a library of minor cannabinoids belonging to several chemotypes including tetrahydrocannabinols, cannabidiols, cannabigerols, cannabichromenes, cannabinodiols, cannabicyclols, cannabinols, and cannabitriols was evaluated for their anti-M^pro activity using a biochemical assay. Additionally, the binding affinities …

The Comparative Effectiveness Of Ceftolozane/Tazobactam Versus Aminoglycoside- Or Polymyxin-Based Regimens In Multi-Drug-Resistant Pseudomonas Aeruginosa Infections, Aisling R. Caffrey, J. Appaneal, J. Xin Liao, Emily C. Piehl, Vrishali Lopes, Ryan J. Dillon, Laura A. Puzniak, Kerry L. Laplante

Pharmacy Practice and Clinical Research Faculty Publications

Pseudomonas aeruginosa infections are challenging to treat due to multi-drug resistance (MDR) and the complexity of the patients affected by these serious infections. As new antibiotic therapies come on the market, limited data exist about the effectiveness of such treatments in clinical practice. In this comparative effectiveness study of ceftolozane/tazobactam versus aminoglycoside- or polymyxin-based therapies among hospitalized patients with positive MDR P. aeruginosa cultures, we identified 57 patients treated with ceftolozane/tazobactam compared with 155 patients treated with aminoglycoside- or polymyxin-based regimens. Patients treated with ceftolozane/tazobactam were younger (mean age 67.5 vs. 71.1, p = 0.03) and had a higher comorbidity …

Colistin-Associated Stevens-Johnson Syndrome And Toxic Epidermal Necrolysis Reactions: A Retrospective Case-Non-Case Pharmacovigilance Study, Richard Tang, L. Lopes, Aisling R. Caffrey

Pharmacy Practice and Clinical Research Faculty Publications

Background: Stevens-Johnson syndrome (SJS) and toxic epidermal necrolysis (TEN) are life-threatening skin reactions. Colistin is a last resort antibiotic with a historically poor safety profile. The association between colistin and SJS/TEN has not been previously quantified.

Research design and methods: We identified colistin and SJS/TEN adverse event reports from the Food and Drug Administration Adverse Event Reporting System (FAERS) and calculated effect estimates using OpenEpi.

Results: From January 2013 through March 2021, 964 adverse events were reported for colistin. Colistin was listed as a secondary suspect drug in 13 SJS/TEN adverse event reports (1.3%), with a reporting odds ratio of …

An Interpretative Phenomenological Study Of Undergraduate Student Wellness: Exploring Generation Z Student Wellness Experiences During The Covid-19 Pandemic, Kristen Pepin

Open Access Dissertations

Qualitative research exploring undergraduate student wellness during a pandemic was scarce prior to the outbreak of COVID-19 and is still lacking. Studies investigating student wellness during pandemics often fracture the concept by quantitatively researching specific wellness dimensions (Cao et al., 2020; Galea et al., 2020; Tang et al., 2020) as opposed to exploring the construct from a holistic perspective. Additionally, few studies aim to understand how undergraduate students make meaning of wellness and their lived wellness experiences, specifically during a pandemic. Furthermore, emerging research (Huckins et al., 2020) corroborates the extant literature that posit student health behaviors were declining in …

Probiotics For Eastern Oyster Hatcheries: Commercial Formulations And Effect On Microbial Communities, Evelyn Takyi

Open Access Dissertations

In the United States of America, oyster production is an important component of the seafood industry in many coastal communities. Oysters provide ecological, economic, and cultural services. Several hatcheries providing eastern oyster, C. virginica, seed to oyster farms face significant losses owing to Vibrio spp. infections causing massive larval mortalities. Probiotics have been proposed as a potential preventive measure to limit the impact of bacterial diseases in shellfish hatcheries. The probiotic bacterium Phaeobacter inhibens S4 has been shown to protect C. virginica larvae from Vibrio coralliilyticus RE22 (RE22) infection. A liquid formulation of this probiotic has been developed for …

Covid-19 Vaccination: Applications Of The Ttm With Consideration For Myths And Barriers, Allegra Sacco

Open Access Master's Theses

The present study applied the Transtheoretical Model (TTM) to better understand readiness, including decisional balance (DCBL; pros and cons) and self-efficacy (SE), as well as myths and barriers for COVID-19 vaccination. Using existing TTM-, COVID-19-, and vaccination-related literature, definitions for each Stage of Change (SOC) and measurement items for each DCBL, SE, Myths, and Barriers scales were developed. 528 adults ages 18 to 75 completed an online questionnaire containing the scales. For DCBL, exploratory factor analysis/principle component analysis (EFA/PCA) revealed three correlated factors (one pros, two cons) (n₁ = 8, α = .97; n₂ = 5, α …

Barcoding And Its Application For Visualizing Ecological Dynamics, Vitul Agarwal, Colleen B. Mouw

Graduate School of Oceanography Faculty Publications

Time is perceived to be unidirectional and continuous in the philosophy of science. This continuity can play a crucial role in time series analysis as events are generally seen as an outcome of the past, or subject to events that occurred previously in time. In this study, we describe an ordinal approach to perceiving ecological time series – one that relies on pattern formation with both antecedent and future events. Our approach defines a limited set of structural shapes that can occur for past, present, and future time points. Such a library of all possible shapes can then be …

A Parametric Study On A Paper-Based Bi-Material Cantilever Valve, H. Heidari-Bafroui, Ashutosh Kumar, Amer Charbaji, Winfield Smith, Nassim Rahmani, Constantine Anagnostopoulos, Mohammad Faghri

Mechanical, Industrial & Systems Engineering Faculty Publications

The novel paper-based Bi-Material Cantilever (B-MaC) valve allows the autonomous loading and control of multiple fluid reagents which contributes to the accurate operation of paper-based microfluidic devices utilized for biological and chemical sensing applications. In this paper, an extensive parametric study is presented to evaluate the effects of key geometric parameters of the valve, such as paper direction, cantilever width, paper type, tape type, and sample volume, in addition to the effects of relative humidity and temperature on the functionality of the B-MaC and to provide a better understanding of the rate of fluid flow and resulting deflection of the …

Antibiotic Treatment Ameliorates The Impact Of Stony Coral Tissue Loss Disease (Sctld) On Coral Communities, G E. Forrester, Laura Arton, Argel Horton, Katie Nickles, Linda M. Forrester

Natural Resources Science Faculty Publications

Stony coral tissue loss disease has spread widely in the Caribbean and causes substantial changes to coral community composition because of its broad host range and high fatality rate. To reduce SCTLD impacts, intervention programs throughout the region have divers treating corals with antibiotics. We assessed the effect of antibiotic treatment in the British Virgin Islands by comparing coral communities at 13 treated sites to those at 13 untreated sites. The prevalence of white syndromes (assumed to be primarily SCTLD), the severity of white syndrome lesions, partial colony mortality and complete colony mortality all showed a qualitative pattern consistent with …

Usage Statistics: Project Counter R5 Tr_J1 Report Fy2021 - Journal Requests (Excluding Oa_Gold) By Title, Andrée Rathemacher

Technical Services Reports and Statistics

Project COUNTER R5 Report TR_J1 for the University of Rhode Island for the period from July 1, 2020 - June 30, 2021. The TR_J1 report is defined as "Journal Requests (Excluding OA_Gold)." This report presents an annual total only and only includes those platforms successfully configured for automated harvesting via SUSHI.

File for download is Excel spreadsheet generated by Alma Analytics.

Results:

• Total Item Requests - 696,705
• Unique Item Requests - 513,492

Usage Statistics: Project Counter R5 Tr_B1 Report Fy2021 - Book Requests (Excluding Oa_Gold) By Title, Andrée Rathemacher

Technical Services Reports and Statistics

Project COUNTER R5 Report TR_B1 for the University of Rhode Island for the period from July 1, 2020 - June 30, 2021. The TR_B1 report is defined as "Book Requests (Excluding OA_Gold)." This report presents an annual total only and only includes those platforms successfully configured for automated harvesting via SUSHI.

File for download is Excel spreadsheet generated by Alma Analytics.

Results:

• Total Item Requests - 84,955
• Unique Title Requests - 38,932

Translational Nano-Medicine: Targeted Therapeutic Delivery For Pain, Cancer And Inflammatory Diseases, Mansoor Amiji

Amgen Seminar Series in Chemical Engineering

Tremendous advances in molecular and personalized medicine also present challenges for translation of innovative experimental approaches into clinically relevant strategies. To overcome some of these challenges, nanotechnology offers interesting solutions for disease prevention, diagnosis, and treatment. For many systemic diseases, overcoming biological barriers and target specific delivery are the key challenges. Additionally, newer generations of molecular therapies, such as gene therapy, oligonucleotides, and RNA interference (RNAi) require robust and highly specific intracellular delivery strategies for effective and clinically meaningful therapeutic outcomes. In this presentation, I will cover several of our approaches for development of multifunctional engineered nano-systems for targeted therapies …

Editorial: Conflicts And Compromises Between Food Safety Policies And Environmental Sustainability, Patrick Baur, Janne Lundén, Michele Jay-Russell

Fisheries, Animal and Veterinary Sciences Faculty Publications

No abstract provided.