Digital Commons Network^™

New Strategies To Reveal Protein Candidates In Protein-Protein Interactome Study, Meng-Chieh Chen

Open Access Theses

Comprehensive protein-protein interaction network analysis can help reveal protein functions in a system-wide manner. A reliable knowledgebase of interaction networks is not only important for selecting the candidates for drug therapies, but also for evaluating the disease risk. In current interaction databases, 322579 interactions comprised of 56460 proteins have been reported (statistical analysis from APID: Agile Protein Interaction DataAnalyzer; http://bioinfow.dep.usal.es/apid/index.htm). The huge datasets are contributed mainly by yeast -two -hybrid (Y2H) screening and affinity-purification followed by mass spectrometry (AP-MS). High false positive rates and failing to cover certain interaction categories are the limitations of these two methods. Here, we developed …

Nitrate Removal From Subsurface Drainage By Denitrifying Bioreactor, Erin Chichlowski

Open Access Theses

Denitrifying bioreactors are an edge-of-field best management practice that reduce nitrate in runoff and subsurface drainage waters with minimum surface foot print and management requirements. The objectives of this study included evaluating a 173 m3 wood chip bioreactor for nitrate reduction and removal rates, the effects on phosphorus, and the impacts of the bioreactor's physical characteristics on effective nitrate reduction During periods of flow, weekly water samples were collected for lab analysis of nitrate+nitrite (nitrate-N), total nitrogen (TN), soluble reactive phosphorus (SRP), and total phosphorus (TP) and measurements were made of water temperature, dissolved oxygen, pH, oxidation reduction potential, temperature, …

Effects Of Hip And Ankle Moments On Running Stability: Simulation Of A Simplified Model, Rubin C. Cholera

Open Access Theses

In human running, the ankle, knee, and hip moments are known to play different roles to influence the dynamics of locomotion. A recent study of hip moments and several hip-based legged robots have revealed that hip actuation can significantly improve the stability of locomotion, whether controlled or uncontrolled. Ankle moments are expected to also significantly affect running stability, but in a different way than hip moments. Here we seek to advance the current theory of dynamic running and associated legged robots by determining how simple open-loop ankle moments could affect running stability. We simulate a dynamical model, and compare it …

Vegetation And Soil Characteristics Of Pine Plantations And Naturally Regenerated Hardwood Forests On The Hoosier National Forest, Patrick James Duffy

Open Access Theses

During the 1930s there was widespread erosion on farmland and subsequent land abandonment. As a result, Pinus strobus L. (white pine), P. resinosa Aiton (red pine), and P. echinata Mill. (shortleaf pine) were planted in the Midwest to prevent erosion and rehabilitate sites. These species were selected due to their wide availability at the time. Currently, it is the goal of the U.S. Forest Service to provide a more natural and sustainable landscape, in part by removing these non-native Pinus stands and by replacing them with native hardwood species. The ultimate success of hardwood restoration depends, in part, on the …

Assessing Positional Accuracy And Correcting Point Data For Digital Soil Mapping At Varying Scales, Minerva J. Dorantes

Open Access Theses

Accuracy, timeliness, and the effect of scale of soil maps are rarely assessed. The recent increase in the use of GIS technologies and modelling software in natural resources and land management, has increased the demand for soil information at a finer resolution worldwide. Most of the world's developing countries rely on soils information at a scale that is too coarse for practical planning, and have obstacles impeding collection of new data, such as civil war and a lack of collection resources. The United States has an exhaustive collection of soils data at a fine scale. However, its location information is …

Profit-Maximizing Responses To Climate Change In Commodity Agriculture: Does Adaptation Matter?, Sajeev Erangu Purath Mohankumar

Open Access Theses

Accumulation of greenhouse gases in the atmosphere has led to rising temperatures, and is expected to lead to a change in climate. Crop yields are vulnerable to these changes. Adaptation is expected to be key to combating climate change impacts, but the effectiveness of adaptation strategies is not well understood. Hence, there is a need to assess the impacts of climate change on agriculture and devise profitable adaptation strategies to combat its effects. This study uses historical and three projected climate data sets to simulate yields using the crop model Daycent, empirical relationships between weather and agronomic variables that influence …

Digital Image Correlation Of Heterogeneous Deformations In Polycrystalline Material With Electron Backscatter Diffraction, Javier Esquivel

Open Access Theses

This work establishes the ability to conduct digital image correlation (DIC) investigations at varying length scales. DIC allows for a computational method of strain field measurements using multiple images to track random speckle patterns on material surfaces. The use of a powder silicon oxide speckle allows for high optical magnification correlation using conventional load frames. Self-assembling gold nanoparticles provide sub-micron resolution speckle patterns to study microstructure influences on deformation using scanning electron microscopy. The complex microstructure in aerospace grade aluminum and nickel-based superalloys, give rise to varied deformation fields, which can be studied using electron backscatter diffraction. Specimen preparation techniques, …

Principle Of Bio-Inspired Insect Wing Rotational Hinge Design, Fan Fei

Open Access Theses

A principle for designing and fabricating bio-inspired miniature artificial insect flapping wing using flexure rotational hinge design is presented. A systematic approach of selecting rotational hinge stiffness value is proposed. Based on the understanding of flapping wing aerodynamics, a dynamic simulation is constructed using the established quasi-steady model and the wing design. Simulations were performed to gain insight on how different parameters affect the wing rotational response. Based on system resonance a model to predict the optimal rotational hinge stiffness based on given wing parameter and flapping wing kinematic is proposed. By varying different wing parameters, the proposed method is …

Application Of Bayesian Networks In Consumer Service Industry, Yuan Gao

Open Access Theses

Gao, Yuan. M.S.I.E., Purdue University. December 2014. Application of Bayesian Networks in Consumer Service Industry. Major professor: Vincent G. Duffy The purpose of the present study is to explore the application of Bayesian networks in the consumer service industry to model causal relationships within complex risk factor structures using aggregate data. An analysis of the Hawaii tourism market was conducted to find out how visitor characteristics affect their behavior and experience as consumers during the trips, and influence the tourism market outcomes represented by measurable factors. Two hypotheses were proposed regarding the use of aggregate data and the influence of …

Disrupting Infrastructure: Social Media And Accessing Digital Publics, Carolyn K. Grant

Open Access Theses

This thesis investigates infrastructural barriers to effecting change through social media participation. Though social media is said to hold "democratic potential" by enabling open access to the digital public sphere, in reality it is often still the most privileged voices that get heard. Even in success cases of the power of social media like the Arab Spring, situational contexts lead to particular infrastructural access points that are not universally transferable, and still tend to favor mainstream perspectives. Barriers to amplifying marginalized voices include inadequate systems for digital memory and sharing algorithms that promote the visibility of the already visible. These …

The Impact Of An Omega-3 Enriched Diet On Hyperactivity And Biochemistry In An Animal Model For Attention-Deficit/Hyperactivity Disorder, Nadine M. Hammoud

Open Access Theses

Attention-deficit/hyperactivity disorder (ADHD) is the most diagnosed behavioral disorder in children. It affects around 5% of children worldwide and 11% of children in the United States, with rates increasing. Pharmaceutical treatments, such as amphetamines and methylphenidates, are not effective for everyone and are known to have unwanted side effects. While the etiology of the disorder is not yet fully understood, there are clear genetic and environmental components. Nutritional insufficiencies have recently become a popular environmental risk factor under investigation. Essential fatty acids (EFA), omega-3 polyunsaturated fatty acids (PUFA) in particular, are needed for proper brain development and function. Our lab …

Automatic Extraction Of Plots From Geo-Registered Uas Imagery Of Crop Fields With Complex Planting Schemes, Anthony A. Hearst

Open Access Theses

Complex planting schemes are common in experimental crop fields and can make it difficult to extract plots of interest from high-resolution imagery of the fields gathered by Unmanned Aircraft Systems (UAS). This prevents UAS imagery from being applied in High-Throughput Precision Phenotyping and other areas of agricultural research. If the imagery is accurately geo-registered, then it may be possible to extract plots from the imagery based on their map coordinates. To test this approach, a UAS was used to acquire visual imagery of 5 ha of soybean fields containing 6.0 m2 plots in a complex planting scheme. Sixteen artificial targets …

Respiratory And Laryngeal Function In Teachers Pre- And Posta 1-Hour Vocal Loading Challenge, Nicole E. Herndon

Open Access Theses

Teachers use their voice as a key part of their profession, often speaking at an increased loudness for multiple hours a day. This places teachers at a high risk for voice disorders, which costs the United States billions of dollars annually. Vocal fatigue, or worsening of the voice as the day progresses, is a common complaint from teachers. The present study investigated respiratory and laryngeal function in teachers pre and post a 1-hour vocal loading challenge. Six teachers and three student teachers (total of 9 subjects) produced four speech tasks and completed two perceptual ratings pre and post a 1-hour …

The Decline Of Cisco Coregonus Artedi At Its Southern Range Extent: Stock Biology And Management Implications, Andrew E. Honsey

Open Access Theses

The cisco Coregonus artedi is distributed throughout northern North America and is relegated to coldwater, oligotrophic systems. Populations of cisco located at the species' southern range extent, including northern Indiana and southern Michigan, have drastically declined over the past century, seemingly due to a combination of climate warming and exacerbation of hypolimnetic hypoxic conditions via intensive land-use and resulting increases in nutrient loading. Apart from their decline, information on southern ciscoes is lacking, including basic stock demography and genetic variability. Such information may shed light on the likely sustainability (or lack thereof) of remaining populations. The first portion of this …

Defining Management Strategies To Maximize Net Soil Carbon And Nitrogen Retention In Turfgrass Systems, Quincy D. Law

Open Access Theses

Soil carbon (C) sequestration has been proposed as a method to reduce atmospheric carbon dioxide (CO2 ). Managed turf areas are both a source and a sink for greenhouse gases (GHGs) including CO 2 , methane (CH4 ), and nitrous oxide (N2 O), among others. Management practices, including turfgrass selection and mowing, influence the amount of C and N stored in the soil, as well as the direct and indirect GHG emissions. Thus, the objective of this research was to determine how turfgrass selection (both species and cultivar) and mowing practices (such as frequency and grass clipping management) influence the …

Spatial And Temporal Patterns Of Geo-Tagged Tweets, Yue Li

Open Access Theses

With over 500 million current registered users and over 500 million tweets per day, Twitter has caught the attention of scientists in various disciplines. As Twitter allows users to send messages with location tags, a massive amount of valuable geo-social knowledge is embedded in tweets, which can provide useful implications for human geography, urban science, location-based service, targeted advertising, and social network studies. This thesis aims to determine the lifestyle patterns of college students by analyzing the spatial and temporal dynamics in their tweets. Geo-tagged tweets are collected over a period of six months for four US Midwestern college cites: …

Analyzing The Importance Of Diversifying Beyond Tobacco For Small-Scale Farmers In Malawi, Mphatso Charity Mbulukwa

Open Access Theses

This thesis analyses potential agricultural alternatives to production and marketing of tobacco in Malawi. I study existing patterns of crop and income diversification and factors that limit crop diversification. I also provide an analysis of the current profitability of different important cash crop alternatives that are commonly grown among smallholder farmers and compare their profitability to that of tobacco.

Following a review and synthesis of available literature on alternatives to tobacco, analysis is presented that relies upon data collected in 2009 from 380 households in Kasungu and Machinga districts of Malawi. Simpsons Index of diversification was used to measure the …

Quality And Safety Attributes Of Sun-Dried Raisins From Afghanistan, Stacy A. Mccoy

Open Access Theses

Raisins are an important export commodity for Afghanistan, however, Afghan packers are challenged to export to markets seeking high quality products due to limited knowledge regarding their quality and safety. To evaluate this, Afghan raisin samples from pre-, semi-, and post-processed raisins were obtained from a raisin packer in Kabul, Afghanistan. The raisins were analyzed and compared to U.S. standards for processed raisins. The samples tested did not meet U.S. import standards for embedded sand, but the process used to clean the raisins is suitable to maintain food safety standards.

Previous Afghan raisin shipments have been rejected from the U.S. …

Synthesis Of Multilayered Microparticles For Targeted Drug Delivery, Elizabeth Mercer

Open Access Theses

Microparticles have been shown to be valuable in targeted drug delivery which can lead to an increased dose delivered to a targeted location, reduced patient side effects, and improved patient outcomes. The designed multilayered microparticles have the clinical application to deliver hydrophobic drugs to a targeted area. The composition of the microparticles consists of a poly-lactic acid (PLA) polymer core surrounded by a polymeric shell composed of Poly(lactic-co-glycolic acid)-Poly(ethylene glycol)-Maleimide(PLGA-PEG-Mal). The maleimide promotes conjugation of the collagen binding peptide, SILY. Targeting to type I collagen allows for this microparticle system to attach to exposed collagen in atherosclerotic vessels.

A novel …

Designing Sustainable Mentoring Programs: Examining The Role Of Social Community In The Stem College Student Experience, Joi-Lynn Mondisa

Open Access Theses

In order to begin to understand how to design programs that promote community development and produce beneficial outcomes for community members, we must first define the elements and functions of such a community. In this thesis, I define social community as an environment where like-minded individuals engage indynamic, multidirectional interactions that facilitate social support . Using a human-integrated systems approach, I propose a social community model for STEM minority mentoring programs to understand how a community's design plays a role in the learning and enrichment of its members. The social community model is comprised of three main components: program …

Management Of Bacterial Wilt On Muskmelon Using Actigard, Fawzia Mumtaz

Open Access Theses

Bacterial wilt of muskmelon caused by Erwinia trachephila (E.F. Smith), is one of the most important diseases of cucurbits, particularly muskmelon, in the world. This pathogen is transmitted by the striped cucumber beetle,Accalyma vittatum (F.), and causes serious economic losses in fruit yield and quality. Control of this disease is usually accomplished by applying insecticides to kill the beetles before disease transmission occurs. The goal of this study was to reduce the bacterial wilt incidence or beetle feeding on muskmelon using an alternative control method, the plant activator acibenzolar-S-methyl (Actigard) ® . The potential for using acibenzolar-S-methyl as a …

Design And Analysis Of A Cable-Driven Test Apparatus For Flapping-Flight Research, Stephen J. Musick

Open Access Theses

The biology, physiology, kinematics, and aerodynamics of insect flight have been a longstanding fascination for biologists and engineers. The former three are easily obtained through the observation of the organic species. The latter though, is very difficult to study in this fashion. In many cases, aerodynamic forces and fluid-body interactions can be simulated with computational fluid dynamics; another option is to use dynamically-scaled, experimental set-ups to measure physically these values.

An archetypal, experimental set-up may include one or two scaled wings, where each wing is actuated to achieve upwards of three degrees of freedom. The three degrees of freedom correspond …

Potential Impact Of Neonicotinoid Insecticides On Honey Bees (Apis Mellifera) In Muskmelon Production, Kira L. Nixon

Open Access Theses

Honey bees (Apis mellifera ) provide pollination services to many agricultural crops, including cucurbits. Neonicotinoids are commonly applied to cucurbits where honey bee colonies are often rented for sufficient pollination and proper fruit set. The goals of this study were to determine the potential impact of neonicotinoid residues on honey bees in muskmelon production and to determine the extent and duration of striped cucumber beetle control among treatments. The neonicotinoids evaluated were imidacloprid and its metabolites imidacloprid olefin and 5-hydroxyimidacloprid, thiamethoxam and its metabolite clothianidin, and acetamiprid. Thiamethoxam applied as a FarMore ® seed treatment resulted in a highest …

Effect Of Post-Anthesis Fungicide Applications To Manage Fusarium Head Blight In Winter Wheat, Anna Noversoke

Open Access Theses

Fusarium head blight (FHB) of wheat, caused by the fungus Fusarium graminearum, is currently considered one of the most economically important diseases on wheat in the North Central United States. The fungus causes light-weight "tombstone" grains to form and produces the mycotoxin deoxynivalenol (DON), reducing the yield and quality of the grain. Currently, farmers rely heavily on the sterol demethylase Inhibitor (DMI) triazole fungicide Prosaro (Bayer CropScience) to protect their crop from this disease. The optimal fungicide application timing is traditionally believed to be early anthesis - Feekes Growth Stage (FGS) 10.5.1. However, environmental conditions and uneven flowering across a …

Watershed Delineation In The Field: A New Approach For Mobile Applications Using Lidar Elevation Data, Samuel Adam Noel

Open Access Theses

With the advancement of mobile devices, opportunities to take watershed management tasks out of the office and into the field can be realized. In turn, field workers can utilize these technologies to expedite the decision-making process so that they may focus on meeting with clients and addressing agricultural watershed management issues. High-resolution (∼1.5 m postspacing) elevation data gathered by light detection and ranging (LiDAR) provides the topographic detail necessary to model hydrology at the field-scale (∼1 km2).

Non-artifactual surface depressions lead to erroneous surface flow patterns when using existing algorithms. So a sequential depression-filling algorithm (SDFA) has been developed to …

Creating Initial Digital Soil Properties Map Of Afghanistan, Shams R. Rahmani

Open Access Theses

Afghanistan is a country with a population of more than 31 million people and is located in south central Asia. The total arable land in the country is 12%, 5% is irrigated and the remaining 7% is rainfed. Due to the lack of available soil information, poor farming practices and land management planning severely affect the yield of agriculture products. In order to ensure sustainable agriculture and prevent land degradation problems, understanding spatial variability of soil is crucial. The overall objective of this research study was to use digital soil mapping techniques to identify the soil resources and generate a …

Identifying Conditions To Optimize Lactic Acid Production From Food Waste, Raymond M. Redcorn

Open Access Theses

There is an increased demand for lactic acid for the production of biopolymers and to aid nutrient removal in wastewater treatment. Food waste offers a source of soluble sugars to produce lactic acid, which does not increase land demand, but digestion conditions have yet to be optimized when co-digested with primary sludge. Food waste was collected from cafeteria waste bins, homogenized and seeded with primary sludge. A Box Behnken Response surface design was used to optimize lactic acid production based on pH, temperature, loading rate, and retention time. Subsequent experiments verified and refined those conditions to optimize for both yield …

Growth Of Post-Weaned Grazing Dairy Heifers When Evaluating The Effects Of Providing Shade Or Parasite Control, Mohammad W. Sahar

Open Access Theses

Reduced heat stress and lower gastrointestinal parasite loads can increase growth rate in heifers, potentially reducing the age at first breeding and lowering the costs associated with raising replacement dairy heifers. Providing shade is a recommended practice for reducing heat stress of grazing animals and is considered important for their wellbeing and productivity. However, limited information is available on the growth performance of young grazing dairy heifers when they are provided shade. Likewise, numerous products exist to prevent gastrointestinal parasites in animals. The development of new anthelmintic products, such as LongRange® (eprinomectin), increase the need for research to help understand …

Review Of The Pathogenesis And Treatment Of Acute Spinal Cord Injury And Investigation Into The Use Of Urine 3-Hpma As A Novel Biomarker Of Secondary Injury After Acute Spinal Cord Injury In The Dog, Andrea Sangster

Open Access Theses

Acute spinal cord injury (ASCI) has two pathophysiological stages of injury: the primary injury and the secondary injury cascade. Primary injury includes the initial or mechanical insult to the spinal cord. Secondary injury is a cascade of biochemical events that propagates damage of adjacent, healthy tissue increasing the overall volume of spinal cord tissue that is affected. Acrolein is a toxic byproduct of lipid peroxidation produced during secondary injury. A metabolite of acrolein-glutathione adduct found in urine, 3-HPMA, has recently been shown to increase after spinal cord injury in a rat model. The aim of our study was to apply …

The Effects Of Heat Stress On Immunity In Laying Hens And Dairy Cattle, Rebecca Ann Strong

Open Access Theses

With the increase in global climate change and the population growth driving the high demand for additional food production, heat stress (HS) is a major concern in the livestock industry across all species. Animals experience HS when exposed to high environmental temperatures outside their thermal neutral zone. The level of the effects can vary due to the length and intensity of HS to which the animal is exposed to. In experiment one, laying hens with access to cooled perches during HS had a lower heterophil to lymphocyte ratio compared to the control hens after 4 h of acute heat stress, …