Life Sciences Commons^™

Managing Bacterial Wilt, Caused By Erwinia Tracheiphila, On Muskmelon With Early Control Of Striped Cucumber Beetle ( Acalymma Vittatum (F)), And Through Varietal Selection, Ahmad Shah Mohammadi

Open Access Dissertations

Muskmelon (Cucumis melo L), is an important vegetable crop in the United States. It is grown throughout the US, and Indiana ranked 4th in production after California, Arizona and Georgia with 12.4 thousand metric tons and market value of $7.6 million in 2015. Bacterial wilt of cucurbits, which is caused by Erwinia tracheiphila (E. F. Smith), and vectored by striped cucumber beetle (Acalymma vittatum (F)), is one of the most serious diseases of muskmelon that influences muskmelon quality and yield. Many cultivars of muskmelon are grown around the United States, especially in the Midwest. Muskmelon cultivars differ in …

Investigating The Effects Of Ph On Alphaviral E3-E2 Glycoprotein Association, Organization, And Cellular Tropism, Jason Michael Sequra

Open Access Dissertations

In alphaviruses the role of E3 is required in protecting the fusion peptide region of E1 during intracellular transport. Throughout viral processing, the association of E2 and E3 is required for the successful trafficking and incorporation of E1 into the mature virion. This E3-E2 association has been observed to extend to mature virions in the solved structure for the envelope of Semliki Forest virus (SFV) and supported by the solved structure for the entire Venezuelan equine encephalitis virion (VEEV) with exclusive contacts being made between E3-E2. Immunization with monoclonal antibodies against VEEV E3 provided protection for mice challenged by lethal …

Characterizing The Effects Of Repetitive Head Trauma In Female Soccer Athletes For Prevention Of Mild Traumatic Brain Injury, Diana Otero Svaldi

Open Access Dissertations

As participation in women’s soccer continues to grow and the longevity of female athletes’ careers continues to increase, prevention of mTBI in women’s soccer has become a major concern for female athletes as the long-term risks associated with a history of mTBI are well documented. Among women’s sports, soccer exhibits the highest concussion rates, on par with those of men’s football at the collegiate level. Head impact monitoring technology has revealed that “concussive hits” occurring directly before symptomatic injury are not predictive of mTBI, suggesting that the cumulative effect of repetitive head impacts experienced by collision sport athletes should be …

Improving And Elucidating Factors Regulating Black Walnut (Juglans Nigra L.) Clonal Propagation, Micah E. Stevens

Open Access Dissertations

Black walnut (Juglans nigra L.) is a fine hardwood tree species native to the central hardwood region of the United States. High-quality black walnut timber is highly desirable. Traded in both regional and global markets, it has been used for veneer, and the manufacture of high-end products such as cabinets, furniture, and gunstocks. As a result of its high economic value, black walnut has been commercially cultivated for many years, and breeding programs have generated superior timber genotypes with improved marketable traits. Once elite genotypes were developed, it was quickly recognized that black walnut was recalcitrant to clonal propagation …

The Role Of Seed Attributes In Eastern Gray Squirrel Foraging, Mekala Sundaram

Open Access Dissertations

Seed attributes are important predictors of rodent foraging behaviors. I examined the role of seed attributes in eastern gray squirrel (Sciurus carolinensis) foraging behavior from an evolutionary, economic, ecological and biochemical perspective. From an evolutionary perspective (chapter 2), I found that squirrel foraging behaviors are influenced by a combination of phylogenetically conserved and evolutionarily labile seed traits, which supports a diffuse coevolutionary relationship between hardwood trees and squirrels and provides indirect evidence supporting the Janzen-Connell and handling time hypotheses. From an economic perspective (chapter 3), I found that eastern gray squirrels are homogenous with respect to their preferences for seed …

The Relationship Between Protein And Phosphorus Digestion And Retention In Growing Pigs And Broiler Chickens, Pengcheng Xue

Open Access Dissertations

Xue, Pengcheng. Ph.D., Purdue University, December 2016. The Relationship between Protein and Phosphorus Digestion and Retention in Growing Pigs and Broiler Chickens. Major Professor: Dr. Layi Adeola. The objective of this study was to investigate the relationship between protein and P digestion and retention in growing pigs and broiler chickens. The methodology of determining the digestibility of AA and P and the effect of dietary N and P on the digestion and retention of these two nutrients were investigated.

An experiment was conducted in growing pigs to investigate the additivity of AID or SID of CP and AA in mixed …

The Effects Of Dietary Probiotic Inclusion On Skeletal Health Of Poultry And Its Possible Mechanisms, Feifei Yan

Open Access Dissertations

Probiotics are live microorganisms which may confer health benefits on the host when administered in appropriate amounts. Numerous studies have shown that probiotics improve bone health in humans and rodents with less information available on the skeletal health of avians given probiotics. The objective of this study was to determine the effects of probiotic supplementation on bone health of egg-laying and meat-type chickens. Dietary supplementation of a multi-species based probiotic reduced the percentage of shell-less eggs beginning at 4 wk following treatment and increased tibial and femoral bone mineral density in egg-laying hens at 7 wk post-treatment. Similarly, bone mineralization …

Synthesis And Performance Of Novel Supramolecular Tools For Single-Particle Cryogenic Electron Microscopy And Drug And Gene Delivery, Kyle J. Wright

Open Access Dissertations

High-resolution biomacromolecular structure elucidation is fundamentally important to structure-based drug design and basic research into complex biochemical processes. Cryo-EM is an emerging alternative to XRD and NMR that is complementary in many ways relative to XRD and NMR. Materials approaches to cryo-EM are anticipated to greatly facilitate the cryo-EM process, allowing progress toward a more high-throughput application of cryo-EM to address challenges in structural biology. ^ Various affinity-based approaches inspired by approaches previously introduced for 2D crystallization were developed for facilitation of cryo-EM. A library of affinity lipopolymer constructs were synthesized consisting of lipopolymers of various PEG molecular weights conjugated …

Complex Glycan Utilization Preferences Of Human Gut Bacteria, Yunus Emre Tuncil

Open Access Dissertations

Complex glycans, making up dietary fiber, have gained significance in recent years as they are the main energy source for the colonic microbiota which are physiologically important for the host health. Understanding glycan utilization strategies of the members of this community is essential to maximize beneficial health outcomes obtained from them. In order to investigate how the members of our gut microbiota utilize glycans and activate their respective polysaccharide utilization loci (PULs), we performed a series of time-course assays in which two model organisms, Bacteroides thetaiotamicron (Bt) and B. ovatus (Bo), were individually grown in a medium containing carbohydrates utilized …

Prevalence And Antimicrobial Resistance Patterns Of Salmonella Isolated From Poultry Farms, Carmen G. Velasquez Moreno

Open Access Theses

Antimicrobial agents are used in human medicine to treat infections by inhibiting the growth of bacteria. The same or similar drugs are used in in food-producing animals for therapeutic and sub-therapeutic purposes. Antimicrobial resistant bacteria that develop on farms are a public health risk as these organisms may contribute to treatment failures in infected humans. The main objective of this study was to determine the prevalence of Salmonella isolated from poultry farms in two different seasons to evaluate the effect of recommended biosecurity practices. Specifically, we identified Salmonella serotypes, measured antimicrobial resistance (AMR), and characterized AMR patterns. We hypothesized that …

Billbug (Sphenophorus Spp.) Chemical Ecology And Seasonal Biology In Indiana Turfgrass, Alexandra G. Duffy

Open Access Theses

Billbugs (Coleoptera: Curculionoidea: Sphenophorus) are serious pests of managed turfgrass across North America. Damage symptoms are most visible during stressful periods of the growing season and are commonly confused with disease, drought, or nutrient deficiency. Billbugs are frequently a perennial problem and when misdiagnosed, damage often results in seriously degraded stands of turfgrass that are easily encroached by weeds. Presently, management of billbugs relies heavily on chemical insecticides. Even then, the nationwide assemblage of multiple sympatric billbug species and the cryptic nature of the damaging larval stage makes management of these insects challenging. A better understanding of billbug biology …

Design And Plan Of A Modified Hydroponic Shipping Container For Research, John A. Houtman

Open Access Theses

As the world’s population continues to increase, food production will need to increase in order to meet the predicted rise in food demand. However, with increased pressure on cropland available from environmental effects and urbanization, new innovative methods of crop production need to be researched in order to increase agricultural production with limited land. This research focuses on the design of a single form of urban agriculture that is considered Zfarming and has the potential to produce quality urban agricultural produce through ground-based measures. This project produced detailed step-by-step analysis of the design process, develop variability within the modified hydroponic …

Lower Food Web Dynamics In Lakes Michigan And Huron: Spatial And Temporal Responses To Recent Oligotrophication, Margaret Hutton Stadig

Open Access Theses

Nutrient abatement programs, originally enacted to counter eutrophication have successfully suppressed nutrient loads and relative primary production in marine and freshwater systems. Recently, the additive impacts of invasive filter feeders have further reduced offshore primary production in several aquatic systems throughout the world. It has been hypothesized that the biological activity of these invasive species may sequester nutrients within the nearshore benthic environment, creating steep gradients in primary production between nearshore and offshore habitats. In the Laurentian Great Lakes, past studies of oligotrophication have primarily focused on food web responses in offshore habitats. Organisms at higher trophic levels have been …

A Comparison Of The Efficacy Of Radiant And Immersion Frying Using Hash Brown Patties As A Model Food Matrix, Kaitlin R. Kaczay

Open Access Theses

Radiant frying is an alternative technique to traditional immersion frying. While enjoyed by consumers, immersion fried foods are typically high in fat. Radiant frying uses infrared energy to produce finished products with similar sensory characteristics to traditional frying, but with significantly less fat. This research compared the efficacy of radiant and immersion frying using hash brown patties as a model food matrix by measuring temperature profiles, heat flux profiles, moisture and oil contents, peak shear force, color, mottling, and crust thickness as well as executing semi-trained and untrained sensory evaluations. The FryLess 100K Radiant Fryer was used for all experimentation. …

The Impact Of Tickling Rats On Human-Animal Interactions And Rat Welfare, Megan Renee Lafollette

Open Access Theses

Rats initially fear humans which can lead to negative affect, poor welfare, and difficult handling. Also, modeling and measuring positive affect states in rats can pose an additional challenge. Heterospecific play, or “tickling,” is a handling habituation technique that mimics rat rough-and-tumble play that is being used to study positive affect. It can also be used to reduce fear of human, improve welfare, and elicit a positive affect state. However, current studies implementing the technique in laboratory rats use a wide variety of protocols to achieve differential results. Unlike in laboratory environment, pet store rats experience high levels of novelty …

Mathematical Analysis Of Feedback Targets Of Bmp Signaling In Drosophila Embryonic Development, Yan Luo

Open Access Theses

Bone morphogenetic proteins (BMPs) drive a range of cellular processes especially in the early stages of embryonic development. This family of proteins acts as one of the most important extracellular signals in development pattern formation across the animal kingdom. Cells in embryos differentiate into different cell types in response to the concentration level of BMP. This complex process is regulated by multiple regulators that serve to tune the signal response.

Extensive experimental and computational research has been performed to analyze BMP regulation in Drosophila, a widely studied model organism, and has advanced our understanding of animal development. Because of …

Residual Effects Of Nitrogen Fertilization On Soil Nitrogen Pools And Corn Growth, Meghan E. Moser

Open Access Theses

Given the dynamic nature of soil nitrogen (N), inorganic N fertilization to corn (Zea mays L.) has potential to alter N pool balance by creating an accumulation or depletion of soil N. Current corn N recommendations in the common corn-soybean rotation of Indiana strive to find the best N rate that maximizes producer profit. Increasing our understanding of soil N will inform producers if they should adjust fertilizer rates for corn to influence maintenance of organic N and Carbon. Our objective was to determine residual N effects from fertilized corn in a corn-soybean rotation by measuring (1) soil N …

Dopamine D1 Receptor Activity In The Basolateral Amygdala Is Important For Mediating Fear, Reward And Safety Discrimination Learning, Ka Ho Ng

Open Access Theses

Post traumatic stress disorder (PTSD) patients frequently show impairment in safety learning (Jovanovic, Kazama, Bachevalier, & Davis, 2012). Since the amygdala is known to be critical for emotional processing(Wassum & Izquierdo, 2015) and dopamine signaling in the amygdala is important for mediating both fear and reward learning, current experiments examined the role of dopamine signaling in the BLA in mediating both safety learning and reward seeking. We manipulated dopamine D1 receptor activity with a D1 receptor agonist (SKF 38393) or D1 receptor antagonist (SCH23390) either systemically or infused directly into the BLA 20 minutes prior to training rats in a …

Evaluation Of Thermal Process Lethality In Meat For Non-Pathogenic Escherichia Coli As A Surrogate For Salmonella, Morgan Alyse Redemann

Open Access Theses

Non-typhoidal Salmonella is the leading cause of foodborne illness in the United States, resulting in about 20,000 hospitalizations and nearly 380 deaths annually. The meat processing industry has been especially plagued by Salmonella, from meat-inherent sources and more alarmingly, cross-contamination. For ready-to-eat (RTE) meat products specifically, this can cause significant problems in processing facilities ensuring safe product for consumption, resulting in foodborne illness.

The development of standard lethality compliance guidelines by the United States Department of Agriculture Food Safety and Inspection Service (USDA-FSIS) within Appendix A assists processors in confirming that Salmonella is inactivated in RTE beef and poultry products, …

The Impact Of Sleep Disruption On Mouse Physiology, Behavior, And Welfare, Amanda L. Robinson-Junker

Open Access Theses

Laboratory mice are nocturnal, spending most of their daylight hours asleep. But they live in the diurnal world of human investigators and husbandry staff, who primarily work during this rest period. In humans, lack of sleep or sleep that occurs outside the normal circadian sleep period (as in shift work) has adverse effects. These include increased risk of cardiovascular disease, cancer, metabolic disorder, mood disorders, type II diabetes, and obesity. However, it is unknown if mice experience sleep disruption due to these human activities, and, if so, what the adverse effects may be. This is an important question, not only …

Forest Industry Byproducts Improve Soil Quality And Increase Pepper Growth In Three Soils Infested With Phythophthora Blight, Xiaojun Zhao

Open Access Theses

Phytophthora blight is a serious threat to the Midwest vegetable industry, because the oomycete pathogen responsible for this disease, Phytophthora capsici, has a wide host range, can spread quickly in fields, and produces resilient oospores that can survive in soil for years. Phytophthora capsici has become resistant to commonly used fungicides and resistant crop varieties are rare. Amending soil with complex organic substrates has potential to improve soil quality and suppress soil-borne pathogens including P. capsici. Indiana has a significant forest industry with many residual products that could be used as locally available amendments to meet this goal. …

Genomic And Transcriptomic Analysis Of Biofilm Formation In Persistent And Transient L. Monocytogenes, Clara Assisi

Open Access Theses

The Next Generation Sequencing (NGS) has been popularized and aid in the advancement of many fields of science. The other field of science that is being revolutionized is food science and technology, especially food safety. NGS application in food safety, especially the whole genome sequencing analysis (WGS), has been widely used for tracing back the source of outbreaks. The other application of NGS that is also being developed is the analysis of global transcriptomic or RNA-sequencing (RNA-Seq). In this research, we utilize NGS (Ilumina MiSeq Sequencing platform) to perform sequence comparison and identify single nucleotide polymorphisms (SNPs) and observe the …

Physiological Aspects Of Relative Changes In Nitrogen And Plant Density Stress Tolerances Over A 38-Year Period Of Us Maize Hybrid Introductions, Keru Chen

Open Access Dissertations

Incremental gains in grain yield of maize hybrids over the decades are the consequence of genotype, environment and management interactions. Historically, genetic improvements in newer hybrids have included longer active grain filling periods (achieved by advancing silking and extending functional stay green in maize leaves); stronger source and sink during grain filling; enhanced tolerance to higher density; and canopy architecture changes. Newer hybrids were known to accumulate more dry matter and nitrogen in the post-silking period, but achieving a more comprehensive knowledge of pre-silking and post-silking dynamics required further understanding of dry matter and nitrogen partitioning in individual organs, as …

Gonadal Intersex In Teleosts: Mechanisms, Molecular Biomarkers And Diagnostic Assays, Ahmed M.E. Abdel-Moneim Mohamed

Open Access Dissertations

Natural and synthetic estrogenic and androgenic compounds are continuously released into aquatic ecosystems. Exposure of teleost fishes to these contaminants can negatively impact sex differentiation and reproductive output. Specifically, development of gonadal intersex in gonochoristic (fixed sex) fish species has been studied extensively in relation to exposure to this class of compounds. The main objectives of this dissertation were to: 1) conduct field and laboratory studies to investigate the molecular signaling pathways behind the development of gonadal intersex; and 2) establish molecular biomarkers and assays for testing the ability of environmental pollutants to develop this condition using a battery of …

Bayesian Causal Inference Of Cell Signal Transduction From Proteomics Experiments, Robert D. O. Ness

Open Access Dissertations

Cell signal transduction describes how a cell senses and processes signals from the environment using networks of interacting proteins. In computational systems biology, investigators apply machine learning methods for causal inference to develop causal Bayesian network models of signal transduction from experimental data. Directed edges in the network represent causal regulatory relationships, and the model can be used to predict the effects of interventions to signal transduction. Causal inference approaches applied to proteomics experiments use statistical associations between observed signaling protein concentrations to infer a causal Bayesian network model, but there is no experimental and analysis framework for applying these …

The Biology And Management Of Palmer Amaranth (Amaranthus Palmeri S. Wats) In Indiana, Douglas J. Spaunhorst

Open Access Dissertations

Palmer amaranth is a pernicious summer annual weed that has evolved resistance to six herbicide sites of action in the U.S. and threatens agriculture production. In 2011, Palmer amaranth was identified in flood plains in two southern Indiana counties (Posey and Vanderburgh). Determining if Palmer amaranth can survive and reproduce in northern Indiana may provide insight if this weed will be problematic for northern row crop producers. The objectives of our research were to identify fields containing Palmer amaranth and determine the distribution of herbicide resistance traits in Indiana; determine the influence of tillage frequency and tillage intervals on Palmer …

Dynamic Regulation Of Dna Demethylation And Rna-Directed Dna Methylation In Arabidopsis, Kai Tang

Open Access Dissertations

DNA methylation is an important epigenetic mark present in many eukaryotes, and is involved in many crucial biological processes, such as gene imprinting, regulation of gene expression, and genome stability. Proper genomic DNA methylation patterns are achieved through the concerted action of DNA methylation and demethylation pathways. In the model plant species Arabidopsis thaliana, ROS1 (REPRESSOR OF SILENCING 1) is one of the DNA demethylases and the key component in the demethylation pathway. Dysfunction of ROS1 leads to increase in DNA methylation level at thousands of genomic loci. However, the features of ROS1 targets are not well understood. In the …

Repurposing Non-Antimicrobial Drugs To Treat Multi-Drug Resistant Bacterial And Fungal Infections, Shankar Thangamani

Open Access Dissertations

Bacterial and fungal resistance to conventional antimicrobials is a burgeoning global health epidemic that necessitates urgent action. Even more alarming, the development of new antimicrobials to treat these multidrug-resistant pathogens has not kept pace with the rapid emergence of resistance to current antimicrobials. Antimicrobial drug development through the traditional de novo process is a risky venture given the significant financial and time investment required by researchers and limited success rate of translating these compounds to the clinical setting. This has led researchers to mine existing libraries of clinical molecules in order to repurpose old drugs for new applications (as antimicrobials). …

Mechanistic Insight Into The Role Of Dietary Fibers And Short Chain Fatty Acids In The Regulation Of Metabolism And Inflammation In The Pig, Hui Yan

Open Access Dissertations

Dietary fiber is a diverse mixture of polysaccharides exerting multiple functions as it passes through the gastrointestinal tract (GIT). Besides the influence on nutrient digestibility, dietary fiber affects growth performance and host metabolism via modulation of gut microbial community structure and production of short chain fatty acids (SCFA). A series of in vivo experiments were conducted to determine the effects of dietary fiber on pig growth performance and gut microbial community as well as host metabolism. In the first study, a comparison between soluble and insoluble fibers was conducted in terms of pig growth, gut microbial structure and SCFA production …

Antibacterial Activity Of Essential Oil Encapsulated Sodium Iota-Carrageenan Fibers, Carlos D. Carter

Open Access Theses

Spoilage microorganisms cause food waste and loss of quality. While the foodborne pathogen outbreaks lead to thousands of hospitalizations and deaths. Essential oils (EOs), plant extracts, possess the required antimicrobial activities and thus their usage stands out as a feasible approach for controlling the undesirable bacterial growth in food systems. However, EOs are highly volatile and lose their activity upon exposure to environmental conditions. In this regard, their encapsulation in Generally Recognized As Safe (GRAS) matrices such as food grade polysaccharides especially iota-carrageenan could be one of the viable alternatives. Iota-carrageenan, sulfated polysaccharide from marine algae, is being used in …