Civil and Environmental Engineering Commons^™

Temporal Endogenous Gene Expression Profiles In Response To Lipid-Mediated Transfection, Timothy M. Martin, Sarah A. Plautz, Angela K. Pannier

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Background — Design of efficient nonviral gene delivery systems is limited as a result of the rudimentary understanding of the specific molecules and processes that facilitate DNA transfer.

Methods — Lipoplexes formed with Lipofectamine 2000 (LF2000) and plasmid-encoding green fluorescent protein (GFP) were delivered to the HEK 293T cell line. After treating cells with lipoplexes, HG-U133 Affymetrix microarrays were used to identify endogenous genes differentially expressed between treated and untreated cells (2 h exposure) or between flow-separated transfected cells (GFP+) and treated, untransfected cells (GFP–) at 8, 16 and 24 h after lipoplex treatment. Cell priming studies were conducted using …

Temporal Endogenous Gene Expression Profiles In Response To Polymer-Mediated Transfection And Profile Comparison To Lipid-Mediated Transfection, Timothy M. Martin, Sarah A. Plautz, Angela K. Pannier

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Background Design of efficient nonviral gene delivery systems is limited by the rudimentary understanding of specific molecules that facilitate transfection.

Methods Polyplexes using 25-kDa polyethylenimine (PEI) and plasmid encoding green fluorescent protein (GFP) were delivered to HEK 293T cells. After treating cells with polyplexes, microarrays were used to identify endogenous genes differentially expressed between treated and untreated cells (2 h of exposure) or between flow-separated transfected cells (GFP+) and treated, untransfected cells (GFP–) at 8, 16 and 24 h after lipoplex treatment. Cell priming studies were conducted using pharmacologic agents to alter endogenous levels of the identified differentially expressed genes …

Vulnerability Of Crops And Native Grasses To Summer Drying In The U.S. Southern Great Plains, Naama Raz-Yaseef, Dave P. Billesbach, Marc L. Fischer, Sebastien C. Biraud, Stacey A. Gunter, James A. Bradford, Margaret S. Torn

Department of Agricultural and Biological Systems Engineering: Faculty Publications

The Southern Great Plains are characterized by a fine-scale mixture of different land-cover types, predominantly winter-wheat and grazed pasture, with relatively small areas of other crops, native prairie, and switchgrass. Recent droughts and predictions of increased drought in the Southern Great Plains, especially during the summer months, raise concern for these ecosystems. We measured ecosystem carbon and water fluxes with eddy-covariance systems over cultivated cropland for 10 years, and over lightly grazed prairie and new switchgrass fields for 2 years each. Growing-season precipitation showed the strongest control over net carbon uptake for all ecosystems, but with a variable effect: grasses …

A Sustainable Slashing Industry Using Biodegradable Sizes From Modified Soy Protein To Replace Petro-Based Poly(Vinyl Alcohol), Yi Zhao, Yuzhu Zhao, Helan Xu, Yiqi Yang

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Biodegradable sizing agents from triethanolamine (TEA) modified soy protein could substitute poly(vinyl alcohol)(PVA) sizes for high-speed weaving of polyester and polyester/cotton yarns to substantially decrease environmental pollution and impel sustainability of textile industry. Nonbiodegradable PVA sizes are widely used and mainly contribute to high chemical oxygen demand (COD) in textile effluents. It has not been possible to effectively degrade, reuse or replace PVA sizes so far. Soy protein with good biodegradability showed potential as warp sizes in our previous studies. However, soy protein sizes lacked film flexibility and adhesion for required high-speed weaving. Additives with multiple hydroxyl groups, nonlinear molecule, …

Sustainable And Hydrolysis-Free Dyeing Process For Polylactic Acid Using Nonaqueous Medium, Suxin Xu, Jiangang Chen, Bijia Wang, Yiqi Yang

Department of Agricultural and Biological Systems Engineering: Faculty Publications

A sustainable and hydrolysis-free dyeing process was developed for polylactic acid (PLA) fibers. PLA is a biobased alternative to petroleum based polyethylene terephthalate (PET), which is the most widely used textile fiber. However, the hydrolytic degradation of PLA fibers under the conventional aqueous dyeing conditions limited its applications in textile industry. A new solvent dyeing process was developed using liquid paraffin as a nonaqueous dyeing medium. High quality dyed PLA fabrics were obtained without consuming water and auxiliaries. Minimal strength loss of dyed fibers was achieved by postheat setting treatment. The 3R principle (reduce, reuse, and recycle) was implemented to …

Robust And Flexible Films From 100% Starch Cross-Linked By Biobased Disaccharide Derivative, Helan Xu, Hazal Canisag, Bingnan Mu, Yiqi Yang

Department of Agricultural and Biological Systems Engineering: Faculty Publications

In this research, oxidized sucrose, a novel aldehyde-based green cross-linker, endowed starch films with substantial improvement in both tensile strength and elongation, whereas many other cross-linkers did not. Starch films are usually weak, brittle, and highly moisture sensitive, and thus have restricted industrial applications. Cross-linking is one of the most common methods to tackle these problems. However, most of the available cross-linkers are either toxic, expensive, or with low cross-linking efficiencies. Oxidized sucrose is a green cross-linker with multiple aldehyde groups per molecule to cross-link starch molecules via forming hemiacetals/acetals. The starch films cross-linked with oxidized sucrose had tensile strength …

Chitosan-Alginate Scaffold Cell Culture System And Related Methods, Miqin Zhang, Forrest Kievit, Matthew Chi-Hang Leung, Stephen Florczyk

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Methods for culturing cancer cells in vitro using a three dimensional scaffold, scaffolds that include the cultured cancer cells, and methods for using the cultured cancer cells and the scaffolds that include the cultured cancer cells in anticancer therapeutic drug development.

Bionanotechnology And The Future Of Glioma, Peter A. Chiarelli, Forrest M. Kievit, Miqin Zhang, Richard G. Ellenbogen

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Designer nanoscaled materials have the potential to revolutionize diagnosis and treatment for glioma. This review summarizes current progress in nanoparticle‑based therapies for glioma treatment including targeting, drug delivery, gene delivery, and direct tumor ablation. Preclinical and current human clinical trials are discussed. Although progress in the field has been significant over the past decade, many successful strategies demonstrated in the laboratory have yet to be implemented in human clinical trials. Looking forward, we provide examples of combined treatment strategies, which harness the potential for nanoparticles to interact with their biochemical environment, and simultaneously with externally applied photons or magnetic fields. …

Nanoparticle Mediated Silencing Of Dna Repair Sensitizes Pediatric Brain Tumor Cells To Y-Irradiation, Forrest M. Kievit, Zachary R. Stephen, Kui Wang, Christopher J. Dayringer, Jonathan G. Sham, Richard G. Ellenbogen, John R. Silber, Miqin Zhang

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Medulloblastoma (MB) and ependymoma (EP) are the most common pediatric brain tumors, afflicting 3000 children annually. Radiotherapy (RT) is an integral component in the treatment of these tumors; however, the improvement in survival is often accompanied by radiation-induced adverse developmental and psychosocial sequelae. Therefore, there is an urgent need to develop strategies that can increase the sensitivity of brain tumors cells to RT while sparing adjacent healthy brain tissue. Apurinic endonuclease 1 (Ape1), an enzyme in the base excision repair pathway, has been implicated in radiation resistance in cancer. Pharmacological and specificity limitations inherent to small molecule inhibitors of Ape1 …

Integrating Ecological And Engineering Concepts Of Resilience In Microbial Communities, Hyun-Seob Song, Ryan S. Renslow, Jim K. Fredrickson, Stephen R. Lindemann

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Many definitions of resilience have been proffered for natural and engineered ecosystems, but a conceptual consensus on resilience in microbial communities is still lacking. We argue that the disconnect largely results from the wide variance in microbial community complexity, which range from compositionally simple synthetic consortia to complex natural communities, and divergence between the typical practical outcomes emphasized by ecologists and engineers. Viewing microbial communities as elasto-plastic systems that undergo both recoverable and unrecoverable transitions, we argue that this gap between the engineering and ecological definitions of resilience stems from their respective emphases on elastic and plastic deformation, respectively. We …

Underwater Sound Transmission Through Arrays Of Disk Cavities In A Soft Elastic Medium, David C. Calvo, Abel L. Thangawng, Christopher N. Layman Jr., Riccardo Casalini, Shadi F. Othman

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Scattering from a cavity in a soft elastic medium, such as silicone rubber, resembles scattering from an underwater bubble in that low-frequency monopole resonance is obtainable in both cases. Arrays of cavities can therefore be used to reduce underwater sound transmission using thin layers and low void fractions. This article examines the role of cavity shape by microfabricating arrays of disk-shaped air cavities into single and multiple layers of polydimethylsiloxane. Comparison is made with the case of equivalent volume cylinders which approximate spheres. Measurements of ultrasonic underwater sound transmission are compared with finite element modeling predictions. The disks provide a …

Numerical Study Of Structural Responses Of Rigid And Flexible Pavements Under Heavy Vehicles’ Loading, Rezwana Kabir

Dissertations, Master's Theses and Master's Reports

The highway system serves as the most critical transportation link in the economic development of a nation. In Michigan, about 74% of all the commodities delivered annually are transported by heavy trucks. The Michigan Department of Transportation (MDOT) permits multi-axle (11 axles) heavy truck with gross vehicle weight (GVW) limit of 164,000 lb., unlike many states having GVW limit of 80,000 lb. The effect of these heavy truck loadings on pavements might accelerate the rate of deterioration for flexible and rigid pavement structures. More detailed knowledge of the interaction of trucks with the pavement structure is essential for better management …

The Development Of A Hydrodynamics-Based Storm Severity Index, Gabriel Francis Todaro

UNF Graduate Theses and Dissertations

A hydrodynamic-based storm severity scale that ranks the damage potential of a storm at a given coastal area is developed. Seventeen tropical and extratropical storm events at 113 different locations on the Atlantic coast and the Gulf of Mexico are examined in order to create and verify a Storm Severity Index Model (SSIM). The results from the SSIM are then used to create a location-based storm severity scale titled the Twenty-Four Point Storm Severity Scale. The Twenty-Four Point Scale is based on three subsets of factors. The first is the energy flux above the normal mean high water line that …

The Simulation & Evaluation Of Surge Hazard Using A Response Surface Method In The New York Bight, Michael H. Bredesen

UNF Graduate Theses and Dissertations

Atmospheric features, such as tropical cyclones, act as a driving mechanism for many of the major hazards affecting coastal areas around the world. Accurate and efficient quantification of tropical cyclone surge hazard is essential to the development of resilient coastal communities, particularly given continued sea level trend concerns. Recent major tropical cyclones that have impacted the northeastern portion of the United States have resulted in devastating flooding in New York City, the most densely populated city in the US. As a part of national effort to re-evaluate coastal inundation hazards, the Federal Emergency Management Agency used the Joint Probability Method …

Color Removal From Pulp Mill Effluent Using Coal Ash Produced From Georgia Power Coal Combustion Plants, Christopher B. Willett

College of Graduate Studies: Theses & Dissertations

Two environmental concerns currently face Georgia: coal fly ash (CFA) waste from coal power plants, and the effluent generated by pulp mills. Pulp mill effluent discolors surface waters into which it is discharged, and has been proven to negatively impact the dissolved oxygen and carbon necessary for aquatic life. The proposed solution is a cost-effective adsorption treatment using an inexpensive but abundantly available waste material: CFA. CFA possesses beneficial properties that allow it to effectively remove contaminants, and is available at significantly reduced cost. The primary research objective was to define treatment parameters that would result in the maximum removal …

Laboratory Evaluation Of Organic Soil Mixing, Spencer Dean Baker

USF Tampa Graduate Theses and Dissertations

Organic soils present a difficult challenge for roadway designers and construction due to the high compressibility of the soil structure, the often associated high water table, and the high moisture content. For other soft or loose soils (inorganic soils), stabilization via cement or similar binders (a method called soil mixing) has proven to be an effective solution. To this end, the Federal Highway Administration has published a comprehensive design manual for these techniques. Organic soils, however, are not addressed therein to a level of confidence for design, as organic soils do not follow the trends of inorganic soils. This has …

Identification Of Groundwater Sources For Municipal Wells Using Geochemical Data On The Platte Alluvial Aquifer And Underlying Limestone At The Lincoln Water Well Field Near Ashland Nebraska, Juanita Cruz Torres

Department of Earth and Atmospheric Sciences: Dissertations, Theses, and Student Research

Alluvial aquifer systems where pumping of municipal wells induces recharge from the adjacent river are the primary source of water for many cities. The city of Lincoln, NE has a primary water source in an alluvial aquifer adjacent to the Platte River. The Lincoln Water System manages the stream/aquifer system by using integrated models for a better understanding during periods of high stress such as a drought. The integrated models set the limestone aquifer as an impermeable boundary to understand the alluvial aquifer system without having a secondary water source. The limestone aquifer is permeable and the purpose of this …

Traffic Safety Primer For Local Agencies, Indiana Ltap, Michigan Ltap

Indiana Local Technical Assistance Program (LTAP) Publications

The purpose of this booklet is to empower local agency personnel to make informed decisions that can improve roadway safety in your community. By identifying and addressing potential roadway hazards, you can reduce the likelihood of a future traffic crash for your community and your family. Adapted by permission from the Michigan LTAP’s 2008 Publication What Elected Officials Need to Know About Traffic Safety (And What YOUR Constituents Expect YOU to Know!)

Methane Production By A Packed-Bed Anaerobic Digester Fed Dairy Barn Flush Water, Sean Richard Thomson

Master's Theses

Packed-bed digesters are an alternative to covered lagoon digesters for methane production and anaerobic treatment of dilute wastewaters such as dairy barn flush water. The physical media of packed-beds retain biofilms, often allowing increased treatment rates. Previous studies have evaluated several types of media for digestion of dilute wastewaters, but cost and media fouling have setback commercial development. A major operational cost has been effluent recirculation pumping.

In the present effort, a novel approach to anaerobic digestion of flush dairy water was developed at pilot-scale: broken walnut shells were used as a low-cost packed-bed medium and effluent recirculation was replaced …

United States Patent Application Publication, John H. Posselius, Christopher A. Foster, Santosh Pitla, Scott A. Shearer, Joe D. Luck, Michael P. Sama, Rodrigo S. Zandonadi

Department of Agricultural and Biological Systems Engineering: Faculty Publications

A multiple robot control architecture including a plurality of robotic agricultural machines including a first and second robotic agricultural machine. Each robotic agricultural machine including at least one controller configured to implement a plurality of finite state machines Within an individual robot control architecture (IRCA) and a global information module (GIM) communicatively coupled to the IRCA. The GIMs of the first and second robotic agricultural machines being configured to cooperate to cause said first robotic agricultural machine and said second agricultural machine to perform at least one agricultural task.

Best Practices In Trail Maintenance, Indiana Ltap, Ohio River Greenway Development Commission

Indiana Local Technical Assistance Program (LTAP) Publications

This manual is intended for practical use by trail maintenance managers. It will also be useful for policy makers who are tasked with anticipating and planning for maintenance budget and personnel needs. The recommendations included in this manual were chosen, in part, to facilitate widespread adoption by other trail operators. They are cost-effective solutions that require minimal technological or financial commitments.

This manual does not provide guidance for trail construction and design, except where a maintenance issue can best be resolved by constructing new trail segments. For best practices in design and construction, consult the thorough list of resources provided …

Soil Carbon Accumulation Under Switchgrass Barriers, Humberto Blanco-Canqui, John E. Gilley, Dean E. Eisenhauer, Paul J. Jasa, Alan L. Boldt

Department of Agricultural and Biological Systems Engineering: Faculty Publications

The benefits of grass barriers or hedges for reducing offsite transport of non-point-source water pollutants from croplands are well recognized, but their ancillary benefits on soil properties have received less attention. We studied the 15-yr cumulative effects of narrow and perennial switchgrass (Panicum virgatum L.) barriers on soil organic C (SOC), total N, particulate organic matter (POM), and associated soil structural properties as compared with the cropped area on an Aksarben silty clay loam (fine, smectitic, mesic Typic Argiudoll) with 5.4% slope in eastern Nebraska. Five switchgrass barriers were established in 1998 at ~38-m intervals parallel to the crop rows …

Bio-Inspired Helicoidal Composites: 3d Printing And Experiments, Michael E. Jones, Pablo Zavattieri, Nobphadon Suksangpanya

The Summer Undergraduate Research Fellowship (SURF) Symposium

Materials that are impact resistant enough for personal protection in sports, transport, and combat are not also lightweight, strong, tough, and impact tolerant. Nature can provide inspiration for novel materials that can meet these needs. The hierarchical composite of the stomatopod’s, or mantis shrimp’s, dactyl club has been shown to have high impact resistance and damage tolerance due to its helicoidal fiber reinforcement(1,2). Analyzing helicoidal composites of different pitch angles (angles between adjacent rows of fibers) under quasi-static, displacement-controlled loading has provided insights into the fracture mechanisms of the composite structure and how they affect the macroscopic properties of the …

Roundabout Maintenance Manual, Emily A. Bonini, Pat Conner P.E., John Haddock Phd, P.E., Yu Tian

The Summer Undergraduate Research Fellowship (SURF) Symposium

In recent years, roundabouts have been rapidly growing in popularity. As a result, many communities are installing them in their roadways; however, they are encountering difficulties in maintaining them. Uneducated workers can cause damage to roundabouts and to themselves, costing cities time and money. This project aims to create a guide for communities new to roundabouts in order to reduce damages and unnecessary maintenance costs. Data was gathered by determining the most common maintenance questions and problems along with what information was already available on roundabout maintenance. Next, agencies most experienced with roundabouts were surveyed on the best maintenance practices. …

Emission Of Volatile Organic Compounds After Land Application Of Cattle Manure, Bryan Woodbury, John E. Gilley, David B. Parker, David B. Marx, Daniel N. Miller, Roger A. Eigenberg

Department of Agricultural and Biological Systems Engineering: Faculty Publications

Beef cattle manure can serve as a valuable source of nutrients for crop production. However, emissions of volatile organic compounds (VOCs) after land application may pose an odor nuisance to downwind populations. This study was conducted to evaluate the effects of land application method, diet, soil moisture content, and time since manure application on VOC emissions. Manure was collected from feedlot pens where cattle were fed diets containing 0, 10, or 30% wet distillers grains with solubles (WDGS). Land application methods included surface-applying manure (i.e., no-tillage) or incorporating manure using disk tillage. The effects of soil moisture content on VOC …

Interpolating Beach Profile Data Using Linear And Non-Linear Functions, Lance Calloway Croft

USF Tampa Graduate Theses and Dissertations

ABSTRACT

Beach and nearshore surveys are conducted in a variety of ways, the most commonly used being the level-and-transit method; because it is inexpensive, time conducive and highly accurate. Specifically, beach surveys are conducted to better understand cross-shore, long-shore sediment transport processes, as well as to quantify volume changes, which are used to evaluate beach performance. In this study, a section of the beach on Sand Key, FL was surveyed using rod-and-transit. In addition to the commonly used linear data analysis, a non-linear analysis was conducted using NURBS (Non-Uniform Rational B-Splines).

Survey data was collected within a short time window …

2013 Summary Of Highway Revenues, Distributions & Expenses, Indiana Ltap

Indiana Local Technical Assistance Program (LTAP) Publications

This report provides information on revenues, distributions, and expenses of state and local governments for highway, road, and street work. Since the Motor Vehicle Highway (MVH) and Local Road and Street (LRS) Accounts are the principal source of funds for local road or street construction and maintenance operations, this summary may be used to see the trends in income sources and in the expenses charged to the funds prior to their being distributed to the highway, road, and street agencies.

Integration Of Models For Low Carbon Economy, Getachew F. Belete, Alexey Voinov

International Congress on Environmental Modelling and Software

Designing the transition to low carbon economy is a very complex task that touches upon a wide variety of climate-energy-economic systems. We need to explore the various possible climate mitigation scenarios at different temporal and spatial scales. However, due to the diversity of the involved disciplines it is difficult to find one complete and unified modeling approach that works equally well in all those different domains. As a result we have to select 'appropriate' models, which represent only specific aspects of the scenarios and assemble them 'coherently'. In this research we have identified some challenges in integrating multidisciplinary models; and …

A Decision Support System Approach For Identifying Poliutant Source For Optimization Of Beneficial Management Practices Scenario Modelling In Lake Winnipeg Watersheds, Isaac Wong, Luis Leon, Jason Vanrobaeys, Craig Mccrimmon, Phil Fong

International Congress on Environmental Modelling and Software

The Soil and Water Assessment Tool (SWAT) results can be used to source trace loading "hotspots• for optimally locating beneficial management practices (BMP). It is possible to trace upstream and compute the relative contribution of each sub-basin to a point of interest, accounting for in-stream processes, reservoirs and point sources. A decision support system (DSS) framework was developed to run SWAT, perform the otherwise tedious process of source tracing "hotspots" and to optimize BMP locations. The "Crop to Hay- land use change BMP scenario was applied in an attempt to reduce annual loadings of total phosphorus (TP) for three Lake …

Agroecosystem-Watershed (Ages-W) Model Delineation And Scaling, Timothy R. Green, Robert H. Erskine, James C. Ascough Ii, Bruce Vandenberg, Björn Pfennig, Holm Kipka, Olaf David, Micheal L. Coleman

International Congress on Environmental Modelling and Software

Water movement and storage within an agricultural watershed can be simulated at different spatial resolutions of land areas or hydrological response units (HRUs). Interactions between HRUs in space and time vary with the HRU sizes, such that natural scaling relationships are confounded with the simulation scales. Scaling concepts can be tested using the AgroEcoSystem­ Watershed (AgES-W) model with different resolutions of HRUs. Here, we delineated a 56-ha agricultural watershed in northern Colorado, USA farmed primarily under a wheat-fallow rotation. Factors used to distinguish HRUs included topography (surface flow paths), land use (crop strips and native grass), and mapped soil units …