Life Sciences Commons^™

Methods To Improve The Remediation Of Polycyclic Aromatic Hydrocarbons (Pahs) In Aerobic And Anaerobic Environments, Brian Wartell

Dissertations

Oil spills occur regularly in terrestrial environments and crude oil can contain many compounds that are highly resistant to degradation. Among these compounds are high levels of polycyclic aromatic hydrocarbons (PAHs) which are not only toxic but can also be carcinogenic and/or mutagenic. The first chapter of this dissertation includes an extensive review chapter on the variables affecting the anaerobic degradation of hydrocarbons, with a particular focus on PAHs. Electron acceptors, electron donors, temperature, salinity, pH all play key roles in determining the possibility effective of effective degradation occurring. Thus, by addressing solutions, such as biostimulation, improving environmental variables for …

Functionalized Carbon Nanotubes In Hydrophobic Drug Delivery, Kun Chen

Dissertations

The direct incorporation of carboxylated carbon nanotubes (f-CNTs) into hydrophobic drug particles during their formation via anti-solvent precipitation is presented. The approach is tested using two drugs namely antifungal agent Griseofulvin (GF) and antibiotic Sulfamethoxazole (SMZ) that have very different aqueous solubility. It is observed that the f-CNTs dispersed in the water serve as nucleating sites for crystallization and are readily incorporated into the drug particles without altering crystal structure or other properties. The results show that the hydrophilic f-CNTs dramatically enhance dissolution rate for both drugs. The increased degree of functionalization leads to higher hydrophilicity and therefore faster dissolution …

Systematics Of Malesian-Pacific Piper (Piperaceae), Rani Asmarayani

Dissertations

Comprised of ~2400 spp., Piper is a major clade in the magnoliid angiosperms. Three major groups are recognized in Piper, i.e., the Neotropical, Asian and South Pacific. Unlike Neotropical Piper,relationships in the Paleotropical Piper remain enigmatic. This study focused on the Paleotropical Piperwith emphasize on the Malesian-Pacific Piper, Malesia being the center of diversity of the genus in the Paleotropics. The goals are to evaluate relationships within Paleotropical Piper (chapter 1), to evaluate characters, morphological (chapter 1) and stem anatomical (chapter 2), that may distinguish clades, and to investigate the species boundaries focusing on the well-supported …

Development And Validation Of Hybrid Continuum/Structural Finite Element Model For Evaluating Foot And Ankle Biomechanics, Saif Alrafeek

Dissertations

Bone is composed of two structures: compact bone and spongy bone. Spongy bone porosity highly affects the strength and the physical endurance of bone to carry loads. Most studies use continuum finite element (FE) approaches to model spongy bone and neglect porosity. Neglecting porosity may not efficiently assist orthopaedic surgeons to treat patients who experience bone physical disability. The purpose of this study is to demonstrate an inexpensive approach that simulates spongy bone with more accurate capturing of porosity and less requirements of bone information. The approach is developed through investigating the mechanical characteristics of spongy bone; that is, by …

Stress Response Mechanisms Of Listeria Monocytogenes, Oindrila Paul

Dissertations

Listeria monocytogenes is a Gram-positive, facultative intracellular food-borne pathogen that causes the disease listeriosis. In order to establish an infection, L. monocytogenes must survive multiple stressors encountered within the gastrointestinal tract, including alterations in pH, bile, salt, and oxygen availability. This dissertation focused on understanding the stress response of L. monocytogenes to bile. Bile acts as a bactericidal agent by disrupting the membrane integrity and causing instability to macromolecules like DNA. Thus, a bacterium must be able to maintain its membrane architecture, composition and integrity.

Often times, bacteria will modulate their fatty acid composition in the membrane to cope with …

Puf Proteins: Regulation Of Condition-Specific Mrna Decay And Contributions To Ribosome Biogenesis In Yeast, Anthony Fischer

Dissertations

Regulation of protein expression is critical to organism survival. Multiple disease states arise from aberrant accumulation/aggregation of proteins or reduced production of key enzymes. Cells have many ways to manipulate protein levels, including transcription factors, chromatin modification, modification of messenger RNA (mRNA), and manipulation of proteolytic protein decay. Cells can indirectly control protein volume by controlling mRNA lifespan, which is directly correlated with protein output. Often, sequence-specific elements in mRNA contribute to this lifespan. The Puf family of RNA-binding proteins is ubiquitous throughout eukarya, and plays important cellular and developmental roles through mRNA lifespan regulation. Puf proteins contain a C-terminal …

The United Arab Emirates Indigenous Essential Oil-Bearing Plants: Essential Oils Of Aerva Javanica And Cleome Amblyocarpa Grown In Sandy Soils Under Arid Conditions, Suzan Marwan Ramadan Shahin

Dissertations

Essential Oils (EOs) are expensive hydrocarbons produced exclusively by specific species in the plant’s kingdom. Nowadays, with the growing trends of a healthy lifestyle and enormous research-based discoveries, EOs became a popular, attractive topic, for both research and industry, with revenues reaching billions of dollars annually. The United Arab Emirates (UAE) has rich traditional herbal medicine, associated with topical and EO-aromatherapy applications, that (in most cases) not scientifically justified nor clarified. This dissertation investigated the EO-bearing plants of the UAE, providing a databank with comprehensive knowledge for all indigenous and naturalized EO-bearing plant species of the UAE wildflowers. Also, this …

The Influence Of The Educational Environment On College Student Activity Behaviors, Helen M. Ziegler

Dissertations

Healthy Campus 2020, an initiative that provides a framework to support campuses in improving the health of their students, staff, and faculty, recognizes physical activity as one of the top eleven priorities for positively influencing health risk behaviors in college populations (American College Health Association, 2012). However, there is not much research to support the best way to influence physical activity behaviors and what types of programs and facilities can provide the greatest impact. The purpose of this study was to investigate which components or programs within the higher education environment have the greatest influence on college students’ intention to …

Divergent Rnai Biology In Mites And Development Of Pest Control Strategies, Md Mosharrof Hossain Mondal

Dissertations

RNA interference (RNAi) has transformed genetics research by revolutionizing reverse genetics in the nearly three decades that have passed since its discovery. ~19-31 nt small non-coding RNAs play a central role in RNAi biology, and are found in all multicellular eukaryotes. In these animals, three major classes of small RNAs have been described: microRNA (miRNA), small interfering RNA (siRNA), and Piwi interacting RNA (piRNA), which are produced in distinct yet occasionally overlapping pathways. While miRNAs are involved in tuning endogenous gene expression, piRNAs and siRNAs are essential for defense against viruses and transposons. Argonaute proteins are the main effectors in …

The Effect Of An Historical Geology Course On Students’ Attitudes Towards Science And Their Knowledge Of Deep Time As A Threshold To Their Knowledge Of Evolution, Allan Nolan

Dissertations

In America there exists a conflict between a small group of its citizens and the concept of evolution. Researchers have studied this conflict and the ways in which teachers might approach educational methodologies that not only address evolution in a sensitive manner, but also remain legally acceptable.

This research was designed to address teaching evolution in the context of deep time – the concept that time is vast and that geology and biology operate in a timescale of hundreds of millions to billions of years. In previous peer-reviewed works, it has been stated that deep time acts as a threshold …

Myosin Assembly Into Elongating Thick Filaments Is Dependent On The Function Of Conserved Apmk-Related Kinase Unc-82 In C. Elegans, Natasha R. Schiller

Dissertations

The mechanism of assembly of sarcomeric myosins into elongating thick filaments is not well understood. The results of this study suggest a novel mechanistic model in which the AMPK-related kinase UNC-82, which is orthologous to mammalian ARK5/NUAK1 and SNARK/NUAK2, acts as an assemblase on sarcomeric myosin molecules, mediating their addition into the elongating thick filaments of C. elegans body-wall muscle. The classical genetic crosses performed in this study produced over 53 different worm strains that contain thick-filament-affecting mutations and/or transgenes in single-, double- or triple-mutant combinations. The phenotypes of these strain were documented and analyzed using viability assays, brood analysis, …

"Understanding Lgbtq+ Intimate Partner Violence & Challenges In, Dr. Juanita Yates

Dissertations

This research project is a focus on Intimate Partner Violence (IPV) within LGBTQ+

community and the challenges associated with seeking family support. IPV is defined as a violent

or aggressive behavior within the home, typically involving the violent abuse of an intimate spouse

or partner. However, IPV can happen on the street, in one’s home or even in a public place. Those

exposed to IPV can be children, men and women. IPV is a prevalent issue in our society (Bright

2008). According to Ristock (2005), violence in LGBTQ+ relationships may be referred to as

partner violence, relationship violence, or LGBTQ+ …

Fluorescent Probes And Functionalized Nanoparticles For Bioimaging: Synthesis, Photophysical Properties And Applications, Xinglei Liu

Dissertations

The development of new organic molecular probes with excellent photophysical properties and high fluorescence quantum yields is of considerable interest to many research areas including one- and two-photon fluorescence microscopy, fluorescence-based sensing methodologies, and cancer therapy. Series of organic linear-/non-linear optical molecules including squaraine derivatives, and fluorene derivatives as well as other bioconjugates are designed and synthesized during the doctoral study for the aim of ion detection (Chapter 5), photo dynamic therapy, and deep-tissue imaging (Chapter 4). These optical probes are capable of absorbing light in the near infrared (NIR) window and thus have deeper penetration and cause less photodamage …

Direct And Indirect Controls On Bee Community Composition, Caroline Marie Devan

Dissertations

Bees are important pollinators, critical for the continued survival of plants in both natural and agricultural ecosystems. Diverse bee communities have been shown to increase richness in plant communities and plant reproduction depends upon bee community richness. Yet there is growing concern that pollinators, especially bees, are declining globally. This dissertation focuses on evaluating the mechanisms responsible for bee community composition in order to promote bee conservation in natural systems and their restoration in human-dominated urban and agricultural landscapes.

Bee populations are impacted directly by three things: floral resources, nesting resources and risk, primarily from natural enemies. Bees are indirectly …

Root Dynamics Of Crop Plants In A High Carbon Dioxide World: Effects Of Elevated Versus Ambient Carbon Dioxide Levels And No-Till Versus Conventional Agricultural Management, Charlotte Barker

Dissertations

Due to the continuing increases is atmospheric carbon dioxide levels and its potential effect on food sources, there is an interest in evaluating the effect of elevated CO₂ concentration versus ambient CO₂ concentration in agricultural crop plants although more studies have focused on the aboveground portions of plants rather than the roots. Additionally, the conservation agricultural method, no-till, has been widely suggested as a possible method of increasing soil organic carbon and increasing soil moisture in a hotter world.

This research involves two major agricultural plants, Sorghum bicolor (sorghum), and Glycine max (soybean) grown under four conditions including …

Personality In California Sea Lions (Zalophus Californianus) And Harbor Seals (Phoca Vitulina): Methodological Convergence And Species-Specific Emotional Repertoires, Amber De Vere

Dissertations

Despite the wide acceptance of animal personality as a valid area of study, research on marine mammal personality remains remarkably scarce. What literature does exist predominantly focuses on bottlenose dolphins (Frick, 2016; Highfill & Kuczaj, 2007; Kuczaj, Highfill & Byerly, 2012; Lilley, de Vere, Yeatre & Kuczaj, 2018; Moreno, Highfill & Kuczaj, 2017). There is also strong evidence for individual differences in grey seals (Robinson et al., 2015; Twiss & Franklin, 2010; Twiss, Culloch & Pomeroy, 2011; Twiss, Cairns, Culloch, Richards & Pomeroy, 2012), and preliminary research has provided evidence of broad personality factors in pinniped species using behavioral coding …

A Mechanistic Understanding Of Self-Propagating Amyloid-Β Oligomer Conformations In Alzheimer Disease, Dexter Nathanael Dean

Dissertations

Alzheimer disease (AD) is a fatal neurodegenerative disorder characterized by the widespread deposition of proteinaceous plaques abundant in amyloid-β (Aβ) aggregates. Although the plaques mainly contain high molecular weight, insoluble Aβ fibrils, the low molecular weight soluble aggregates called oligomers have been shown as the primary toxic species responsible for synaptic dysfunction and neuronal loss in AD. The process of aggregation is nucleation-dependent, but also highly stochastic and inhomogeneous resulting in biophysically diverse assemblies. Recent advances in the field indicate a potential correlation between the phenotypic diversity observed in AD subtypes and aggregate polymorphism. Therefore, understanding the molecular mechanisms which …

The Influence Of Conservation Tillage And Conventional Tillage On Soil Bacterial Diversity In Southern Illinois, Nasser Syed

Dissertations

Agriculture in the Midwest United States (Illinois, Indiana, Iowa, Michigan, Minnesota, Ohio, and Wisconsin) is a critically important component of the United States economy and also for world exports of food grain. This is well reflected in the 2012 Census of Agriculture which showed that these states had a market value of crop and livestock products sold in excess of $80,000,000,000 (USDA, 2012). Within the U.S. the three Midwest states, Illinois, Iowa, and Minnesota are ranked 2nd, 3rd, and 4th for the economic value of crops sold. This economic value of agriculture in the Midwest encompasses not only corn, soybeans, …

The Characterization Of The Transcription Factor Msab And Its Role In Staphylococcal Virulence, Justin Batte

Dissertations

Staphylococcus aureus is a common human pathogen that is responsible for a wide range of infections, ranging from relative minor skin infections to life-threatening disease such as bacteremia, septicemia, and endocarditis. S. aureus possesses many different virulent factors that aid in its ability to cause this wide array of infections. One major virulence factor includes the production of capsular polysaccharide (CP). The production of CP plays a major role in the virulence response during infection specifically by providing S. aureus an antiphagocytic mechanism that allows the pathogen to evade phagocytosis during an infection. S. aureus has developed complex genetic regulatory …

Roles Of Phospholipases And Ribosomal S6 Kinase In Lipid Remodeling And Growth In Arabidopsis Response To Phosphate Deprivation, Yuan Su

Dissertations

Phosphate (Pi) is one of three macronutrients for plants, which is vital for plant growth and development. Understanding the mechanism by which plants respond and adapt to Pi deficiency not only unveils functions of genes and pathways involved, but also provides potential tools to manipulate crops to better stand Pi stress in low Pi-containing lands. One of the significant metabolic changes in plants under Pi starvation is the membrane lipid remodeling that converts Pi-containing lipids such as phospholipids to Pi-free lipids, such as glycolipids. To elucidate the metabolism and regulation of lipid remodeling, this dissertation characterizes the role of two …

The Ecology Of Nest Cavity Use By Arboreal Ants In The Brazilian Cerrado: Resource Availability, Nest Modification, And Trophic Interactions, Galen Priest

Dissertations

Arboreal ants in the Brazilian Cerrado rely on cavities in living trees as nest sites. These cavities are created by a community of, wood-boring beetles, which act as ecosystem engineers. Despite the importance of these cavities as a resource, little is known about their natural abundance and heterogeneity, how ants use and modify them as nest sites, and how this interaction between cavities and their ant occupants influences trophic interactions on cerrado trees. Here I use natural history observations and manipulative experiments to address these questions. In the first chapter I quantified the occurrence, heterogeneity, and use of beetle-created cavities …

Dna Binding Kinetics Of Large Antiviral Hairpin Polyamides, Jacquelyn Niederschulte

Dissertations

While vaccines exist for the some of the most problematic strains of human papillomavirus (HPV), a double stranded DNA virus, there is currently no cure. HPV remains one of the most commonly sexually transmitted infections and is responsible for virtually all cervical cancers and genital warts. Natural products Distamycin A and netropsin have inspired the hairpin Nmethylpyrrole (Py)/N-methylimidazole (Im) polyamides (PAs) studied here. The larger hairpin PAs, designed to bind to sites of 10 or more DNA bp, have been shown to be effective antivirals against oncogenic HPV strains 16, 18, and 31, while smaller hairpin PAs are not. Despite …

The Ecology And Feeding Behavior Of Mosquitoes In The Galapagos Islands, Samoa S. Asigau

Dissertations

Mosquitoes remain important vectors in transmitting wildlife diseases. This dissertation aims to understand the role that mosquitoes play in transmitting wildlife diseases such as avian malaria, a protozoan parasite belonging to the genus Plasmodium. Using data from wild-caught mosquitoes captured in multiple years and across multiple islands on the Galapagos Archipelago, we describe distributional patterns of mosquitoes, their range limits and assess whether there exists a disease-free refuge as occurs in Hawaii. We show that altitudinal ranges for disease transmission of avian malaria may not be bounded by a stable disease-free refuge, since mosquitoes are found at all elevations, …

Interactions And Pathogen Transmission Between Carnivores In Madagascar, Fidisoa Rasambainarivo

Dissertations

Introduced carnivores exert considerable pressure on native predators through predation, competition and disease transmission. Improved understanding of determinant factors of interactions and pathogen transmission between introduced and endemic wildlife may help to predict disease emergence, avoid pathogen spillover and help control outbreaks. Using non-invasive camera traps, I identified areas where transmission of pathogens might happen through records of shared space-use within a protected area in Eastern Madagascar. I showed that indirect interactions between animals were more likely to occur near the research station which may constitute a disease transmission hotspot for carnivores in the landscape. Secondly, I investigated the associations …

Thermodynamics In Large Hairpin Polyamide-Dna Interactions, Yang Song

Dissertations

Human papillomavirus (HPV) is a common sexually transmitted virus responsible for cervical cancers, and its infection is currently incurable. Only a few vaccines against high-risk HPV strains are available. Hairpin polyamides (PAs) in different sizes (8-20 units long) bind DNA in different lengths. They have been shown to have different anti-HPV activities in cell culture.

The interaction between PA and DNA is stabilized by two types of molecular forces: attractive and repulsive forces. Attractive forces include hydrogen bonds, van der Waals contacts and electrostatic forces between PA and DNA. Repulsive forces include the hydrophobic effect, which forces the PA out …

Haemosporidian Parasites And Host Immune Function Of Galapagos Avifauna, Maricruz Jaramillo

Dissertations

The large number of emergent infectious diseases witnessed in the past few decades has increased interest in the ecology and distribution of potentially threatening pathogens worldwide. Island species are often considered more vulnerable to parasites due to their impoverished parasite communities, long isolation from disease and low genetic diversity. Avian surveys done by our group on the Galapagos Islands have found various pathogens infecting their endemic avifauna, including haemosporidian parasites of the genera Plasmodium and Haemoproteus. My research seeks to understand the relationships between two haemosporidian parasites (blood parasites) and their multiple bird hosts in Galapagos and to explore …

Molecular Determinants Of Trim5Α Restriction And Recruitment Of Autophagic Effectors, Sabrina Imam

Dissertations

TRIM5α is an anti-viral restriction factor that inhibits the lifecycle of retroviruses. TRIM5α binds to and forms a hexameric lattice around the retroviral capsid, thereby initiating its antiviral activities, which include: (1) inhibition of viral infection; (2) inhibition of viral reverse transcription; (3) disassembly of the capsid; and (4), activation of innate signaling pathways. The formation of this assembly also activates the E3 ubiquitin ligase function of TRIM5α. Ubiquitin modification is associated with directing substrates to particular cellular pathways. We and others have shown that TRIM5α cytoplasmic bodies colocalize with proteins involved in the autophagy pathway, and we hypothesized that …

Role Of Micrornas In Impaired Gut Permeability Following Ethanol And Burn Injury, Niya Latrice Morris

Dissertations

Every year there are nearly 500,000 reported burn injuries in the United States; half of which occur under the influence of alcohol. Clinical studies have shown that burn patients who are intoxicated at the time of injury have a worse prognosis; including increased risk of multiple organ dysfunction syndrome (MODS) and sepsis. The etiology behind these pathological consequences of ethanol and burn injury remains to be elucidated. The Gut-lymph hypothesis of MODS theorizes that trauma (e.g. ethanol and burn injury) results in a redistribution of blood flow to protect more vital organs which leads to ischemia/hypoxia (diminished oxygen delivery) in …

Uncovering The Mechanisms Underlying The Immunogenicity Of Adenovirus Vaccine Vectors, Natalie Nidetz

Dissertations

Vaccination is historically the most effective tool for preventing infectious disease but current vaccine strategies fail to generate robust immunity to major infectious diseases such as HIV and malaria. Therefore, newer vaccine approaches are needed. Vaccines generated from viral, adenovirus based, vectors (AdVs) have proven highly immunogenic in multiple disease models. However, the clinical use of many AdVs is limited by the presence of pre-existing antibodies in human populations, which prevent expression of antigenic genes during immunization with AdVs based on common adenovirus (Ad) serotypes, such as HAdV-5C. Immunization with rare serotype based AdVs, such as HAdV-28D, are not affected …

A Discrete Loop In Serca N-Domain Plays A Role In Serca Headpiece Dynamics And Function, Olga N. Raguimova

Dissertations

The sarco/endoplasmic reticulum calcium ATPase (SERCA) is the major regulator of Ca2+ levels in the cell. Deficient calcium handling in the heart has been linked to heart failure, a leading cause of death in developed countries. As of today, targeting SERCA to enhance cardiac function has not been successful due to lack of details about SERCA structural dynamics during Ca2+ transport.

In my research, I utilized MD simulations and variety of physical assays to determine the role of Nβ5-β6 loop in regulation of SERCA structural dynamics during Ca2+ transport. Previous MD simulations by our lab predicted that the Nβ5-β6 loop …