Biological Engineering Commons^™

Probe Cytotoxic And Oxidative Stress Effects Of Nanoplastics On Caco-2 Cells: Insights From Raman Spectroscopy And Machine Learning, Bryan Gustafson, Negar Kosari, Emily Brothersen, Morgan Mosher, Anhong Zhou

Biological Engineering Student Research

Nanoplastics and microplastics have become an increasing ecological and health concern due to their widespread presence in the environment and food chain. In this study, Caco-2 cells were used as an in vitro model of the human intestinal epithelium to investigate the cytotoxic effects of polystyrene nanoparticles and microparticles of varying sizes, concentrations, and surface modification. Oxidative stress and apoptosis were evaluated following particle exposure. Raman spectroscopy, combined with machine learning analysis, was employed to detect and characterize biochemical alterations in the cells. Several peak ratios were selected to cluster data depending on size. A correlation between apoptosis and both …

Enhancing Algae Biofilm Quantity And Value Through Controlled Light Intensity For Treatment Of Municipal Anaerobic Digestor Effluent, Joshua D. Wintch, Ronald C. Sims

Biological Engineering Student Research

Rotating algae biofilm reactors (RABRs) have been shown to remove nutrients from wastewater and to cultivate algae for bioproducts. Another key variable in RABR technology for cultivating microalgae biomass is light intensity. The goal of this study was to address a gap in the design and operation of algae biofilm reactors by analyzing the effects of light intensity on biomass quality and quantity, chemical precipitation of phosphorus, and phosphorus uptake into biomass. This study utilized a triplicate laboratory-scale experiment with PAR intensities from 10 to 2000 µmol m⁻²·s⁻¹. Municipal wastewater anaerobic digester effluent (ADE) was utilized …

Isolation, Identification, And Enzymatic Screening Of Fungi From Utah Dryland Soils For Industrial And Waste Valorization Applications, Jessica Lorena Silva Cuero

All Graduate Reports and Creative Projects, Fall 2023 to Present

Agricultural waste accumulation presents environmental challenges but also opportunities for biological valorization into value-added products. Fungi are particularly well-suited for this purpose due to their capacity to produce extracellular enzymes involved in the degradation of complex organic substrates. Dryland ecosystems represent a promising source for bioprospecting microbes capable of producing such enzymes. Drylands harbor a high diversity of extremophilic microorganisms that can withstand harsh conditions, extreme heat, UV, and low nutrients using unique adaptations. This suggests that these microbes are resilient and capable of surviving under varying conditions and still produce enzymes for biotransformation. The objective of this study was …

Cadmium Biosorption By Fusarium Venenatum And Its Application In Functional Permeable Materials For Metal Removal, Bradley Lawson

All Graduate Theses and Dissertations, Fall 2023 to Present

Heavy metals are pollutants of increasing concern as continued industrialization and urbanization have escalated the discharge of these toxins into aquatic environments. Cadmium (Cd) is a metal of particular concern due to its acute toxicity and high mobility in aquatic ecosystems. Given these characteristics Cd poses significant health risks to both humans and aquatic ecosystems. The continued development of sustainable, low-cost remediation technology is imperative to manage metal pollution.

This research explores the use of fungal-based remediation systems to remove Cd from contaminated water. Living biomass of the filamentous fungus Fusarium venenatum was evaluated as a biosorbent material for Cd …

Raw Data Files Contributing To "Changes In Apoe And Timp-1 Expression Correlate With Outer Blood-Retinal Barrier Disruption In An In Vitro Model Of Retinal Aging", Elizabeth Vargis

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Age-related macular degeneration (AMD) is a leading cause of blindness worldwide. Unfortunately, the early stages of this disease are poorly understood, which has led to limited treatment options. Investigating normal changes in tissues eventually affected by AMD can further elucidate the mechanisms of disease progression and lead to novel therapeutic targets. The primary cell layer affected in AMD is the retinal pigment epithelium (RPE), which forms the outer blood-retinal barrier (oBRB). Beneath the RPE lies Bruch’s membrane, a proteinaceous layer that naturally thickens and stiffens with age. These changes to Bruch’s membrane are also implicated in RPE dysfunction and AMD …

Space Agriculture: A Comprehensive Systems-Level Review Of Challenges And Opportunities, Hassan Fazayeli, Aaron Lee M. Daigh, Cassandra Palmer, Santosh Pitla, David Jones, Yufeng Ge

Biological Engineering Faculty Publications

As humanity prepares for prolonged space missions and future extraterrestrial settlements, developing reliable and resilient food-production systems is becoming a critical priority. Space agriculture, the cultivation of plants beyond Earth (particularly on the Moon and Mars), faces a constellation of interdependent environmental, biological, and engineering challenges. These include limited solar radiation, elevated ionizing radiation, large thermal variability, non-Earth atmospheric pressures, reduced gravity, regolith substrates with low nutrient-holding capacity, high-CO₂/low-O₂ atmospheres, pervasive dust, constrained water and nutrient availability, altered plant physiology, and the overarching need for closed-loop, resource-efficient systems. These stressors create an exceptionally challenging environment for plant …

Analysis On Modifications To An Outdoor Field-Scale Rotating Algal Biofilm Reactor With A Focus On Biomass Productivity And Power Usage, Davis R. Haag

All Graduate Theses and Dissertations, Fall 2023 to Present

A rotating algal biofilm reactor (RABR) was operated outdoors for one calendar year to see how the microalgae grown were affected. The algae are grown in wastewater that contains nitrogen and phosphorous, which are elements found in fertilizer. The design used was modified from a previous design, and this project tested the modifications to see if they improved how much microalgae were grown. In February 2025, the objectives of the field study were updated to focus on growing as much microalgae as possible instead of removing as much nitrogen and phosphorous as possible. This updated design increased the fluid flow …

Strategies For Increasing Methane Removal In Methanotroph Stirred-Tank Reactors For The Production Of Ectoine, Jaden Storrer, Tansley M. Mazurkiewicz, Bodee Hancock, Ronald C. Sims

Biological Engineering Student Research

Methane is a potent greenhouse gas that requires its emissions to be mitigated. A significant source for methane emissions is in the form of the biogas that is produced from anaerobic digestion in wastewater reclamation and landfill facilities. Biogas has a high valorization potential in the form of its bioconversion into ectoines, an active ingredient in skin care products, by halotolerant alkaliphilic methanotrophs. Cultures of Methylotuvimicrobium alcaliphilum 20Z were grown in bench scale stirred-tank reactors to determine factors to improve methane uptake and removal. Tangential flow filtration was also implemented for a bio-milking method to recover ectoine from culture media. …

Capacity Of Microbial Strains And Communities To Degrade Sewerage Fats, Oils, And Grease Clog Deposits, Allondra M. Woods, Catherine J. Pettinger, Catherine Harris, Tanya Soule, Garth Farley, Erica L.-W. Majumder

Biological Engineering Student Research

Fats, oils, and grease (FOG) deposits are hardened, sticky, insoluble solids that accumulate in sewage systems globally. These deposits contribute to pipe blockages and sanitary sewer overflows, releasing pathogens and pollutants into the environment, posing significant environmental and public health risks. Current removal methods are labor-intensive and costly, emphasizing the need for alternatives. While biological strategies offer a viable alternative, the microbial breakdown of FOG is poorly understood. In this study, we evaluated the potential of individual microbial strains and synthetic microbial communities to biodegrade wastewater-derived FOG deposit samples. These biological agents were applied to a range of FOG samples, …

Analysis Of Modifications To An Outdoor Field-Scale Rotating Algal Biofilm Reactor With A Focus On Biomass Productivity And Power Usage, Davis R. Haag, Phillip E. Heck, Ronald C. Sims

Biological Engineering Student Research

Filtrate from dewatering anaerobically digested biosolids is a side-stream of wastewater treatment that contains high concentrations of nitrogen and phosphorus compounds that can serve as nutrients for cultivating microalgae biomass as biofilms for bioproduct production at Water Resource Recovery Facilities (WRRFs). One system used to cultivate attached microalgae biofilms is the rotating algal biofilm reactor (RABR). A pilot RABR with 72 m² growth surface area, 11.5 m² footprint area, and a liquid volume of 11,500 L was operated in an outdoor environment at the largest WRRF in Utah, U.S.A, the Central Valley Water Reclamation Facility (CVWRF). The configuration …

Bioresources And Bioproducts: A New Open Access Journal, Ronald C. Sims

Biological Engineering Faculty Publications

Greetings to the bioresource and bioproducts community! I will serve as the Editor-in-Chief to collaborate with you as we promote the aims and scope of this new MDPI journal [1], with the help of its distinguished Editorial Board, by publishing Special Issues, Topics, Topical Collections, and Editorials, and by providing high-impact scholarship through the outstanding published work of each of our contributors.

Optimization And Utilization Of Microbial Electrolysis Cells In Waste To Product Applications, Hayden Harrison

All Graduate Theses and Dissertations, Fall 2023 to Present

As the world searches for cleaner and more sustainable energy solutions, turning waste into fuel is an increasingly attractive strategy. This research focuses on microbial electrolysis cells, a new technology that uses bacteria and a small amount of electricity to convert organic waste—like food scraps or wastewater—into useful gases such as hydrogen and methane. These gases can be used as energy sources to reduce dependency on more traditional fuels.

This thesis tackles two key challenges that limit the real-world use of microbial electrolysis systems. First, it introduces a simpler and more effective method to stop hydrogen losses in single-chamber cells. …

Population Analysis Of Cyanobacteria In Rotating Algal Biofilm Reactors, Eric H. Matthews

All Graduate Theses and Dissertations, Fall 2023 to Present

Algal biofilms have numerous applications in wastewater treatment and bioproduct production. The Sustainable Waste-to-Bioproducts Engineering Center at Utah State University is working to develop rotating algal biofilm reactors (RABRs) to remove excess nitrogen and phosphorus from wastewater effluent while producing biomass for downstream production.

Genetic analysis of algal biofilms on various RABRs was performed to gain improved understanding of the biofilm populations. This analysis focuses on a pilot-scale RABR and how it compares to several other RABRs. Additionally, old methods of genetic analysis filtered out important cyanobacterial populations. A new method was developed to identify the cyanobacteria within the biofilms. …

Aerobic Biodegradation Of Algae-Derived Bioplastics Under Controlled Composting Conditions, Clayton J. Lords

All Graduate Theses and Dissertations, Fall 2023 to Present

Plastics are versatile polymers that have become critically important materials in many industries. Although plastics are important and useful materials, they account for vast amounts of environmental pollution and climate change contribution. Sustainable bioproducts are becoming increasingly important in the effort to mitigate the impacts of pollution and climate change. The scale of environmental damage caused by plastic pollution highlights the need to implement sustainably sourced biodegradable plastics within the global economy. Bioplastics are materials that may be manufactured from biological materials or can biodegrade under certain conditions. Algae are microorganisms that can be grown using nutrient-rich municipal wastewater; the …

Analyzing Microalgae-Bacteria Population Changes In Response To Environmental Parameters For Improved Wastewater Treatment, Amanda M. Moravek

All Graduate Theses and Dissertations, Fall 2023 to Present

Microalgae are incredible organisms that have a variety of uses such as wastewater treatment, fertilizer, livestock feed, and bio-compound production. Microalgae require a light source and minimal nutrients space to proliferate, making them an environmentally friendly and sustainable option for such processes. The Sustainable Wastes-to-Bioproducts Engineering Center at Utah State University is developing and implementing a Rotating Algae Biofilm Reactor (RABR) to remove total nitrogen and phosphorous from the Central Valley Wastewater Reclamation Facility wastewater effluent. Harmful compounds such as nitrates and phosphates are metabolized by the microalgae and converted into useful bioproducts, resulting in a circular economy. These RABRs …

Uv-A Light And Heat-Activated Antimicrobial And Biodegradable Materials For Food Packaging And Preservation, Michael J. Bodily

All Graduate Theses and Dissertations, Fall 2023 to Present

Current food packaging materials are often non-biodegradable and harmful for ingestion, which poses a threat to the environment and public health. Thus far, the dangers of microbial contamination of food on human health have outweighed the risks associated with using these conventional packaging plastics. A possible solution to these issues is to use a combination of innovative materials and microbial inactivation methods that can potentially both reduce plastic waste and combat harmful microorganisms. In this study, two antimicrobial, biodegradable composites were developed and tested for their ability to inactivate two types of bacterium, Escherichia coli K12 and Listeria innocua, …

Evaluating The Effects Of Oxidative Stress On Primary Retinal Pigment Epithelial Cells, Sophia Hessami

Student Research Symposium

Introduction

Age-Related Macular Degeneration (AMD) is the leading cause of vision loss worldwide, affecting 200 million adults over the age of 40

• Affects subretinal layers: retinal pigment epithelium (RPE), Bruch’s membrane, and choroid (Fig. 1)

Problem: Early mechanisms of AMD are not well understood; oxidative stress is often cited as a key contributing factor to the development of AMD.3 Current studies neglect to use primary RPE cells when investigating oxidative stress.

Oxidative Stress occurs when there is an imbalance between reactive oxygen species (ROS) production and cellular antioxidant defenses

• Overabundance of ROS results in damage to tissue and …

Effects Of Uv Radiation On Algae Biofilms Of Rotating Algae Biofilm Reactors, Rebecca Sweeten

Student Research Symposium

Goal: Discover effects of UV-A and UV-B radiation on the biofilm production of algae using a Rotating Algae Biofilm Reactor (RABR)

Method: Expose 3 RABRs in triplicate to UV-A, UV-B, and PAR to identify differences in biomass, nutrient uptake and pH levels.

Results: RABR’s under UV-B light have the highest productivity

Induction Of Diabetic Cardiomyopathy In A Three-Dimensional Myocardial Model, Maelyn Andreasen

Student Research Symposium

Diabetic cardiomyopathy: Impairs and damages heart tissue through chronic exposure to hyperglycemia, or high blood sugar, in diabetic individuals

The Effects Of The Action Rate And Binding Density On Sensitivity In Lateral Flow, Mona Soroush

Student Research Symposium

Lateral Flow Assays (LFAs) offer rapid diagnostics, yet sensitivity remains a critical limitation. This study used a mathematical framework—the Convection-Diffusion-Reaction (CDR) equation—to optimize sensitivity by adjusting parameters such as flow velocity (U), association and dissociation rates (k_on and k_off), and nanoparticle valency. Our simulation results closely matched literature data (Berli & Kler, 2016), demonstrating significant enhancements in sensitivity with optimized parameters.

Preparing A Bioreactor For Avian Cell Culture, Joshua Bell, Taylor Davis, Payton Larsen, Abbie Smith, Joshua Thompson

Student Research Symposium

This project, in collaboration with Upside Foods and Thermo Fisher, focuses on optimizing a 50L bioreactor for avian cell growth. Thermo Fisher has assembled the bioreactor while Upside Foods has provided design specifications and avian specific growth media.

Effects Of Inhibitor Diffusion And Threshold Limits On Edge Detection With Reaction-Diffusion Equations, Zachary Hastings

Student Research Symposium

The purpose of this project is to model edge detection using the Nomura et al's¹ reaction-diffusion equation. Edge detection is an important visual processing tool for human sight, allowing for object detection and visual enhancement. This project explored the effects of inhibitor diffusion, D_i, and threshold limits, a, on edge detection in this model. This project also discovered the limit of Nomura et al's¹ model on the simultaneous detection of multiple edges in a step-wise intensity gradient and attempted to overcome that limitation.

Utilizing Enzymatic Microalgae Hydrolysates For Cellular Agriculture, Maelyn Andreasen, Sophia Hessami, Eli Sheley, Elise Barton

Student Research Symposium

UPSIDE Foods is working to produce chicken products to address the growing global food insecurity crisis.¹ Industrial scalability is limited due to the requirements of cell culture. Through collaboration with the company, we are working to supplement their existing media to drive costs down and improve cell viability.

Mathematical Modeling Of Color Perception Using Differential Equation, Siavash Pooretemad

Student Research Symposium

Color perception begins in the retina, where three cone types (L, M, S) detect light and initiate neural signals. These signals are processed by horizontal and bipolar cells to form opponent color channels: red-green (RG), yellow-blue (YB), and light-dark (LD). Perception is not solely based on physical input but also shaped by neural adaptation and context.

This project models color perception using a differential equation approach, simulating how color contrast and adaptation emerge from interactions between photoreceptors and lateral inhibition.

We hypothesize that a system of differential equations can model how retinal cone cells respond to and process light intensity, …

Laparoscopic Articulating Arm: In Collaboration With The Xenocor Saberscope, Zac Hastings, Lizbeth Pugliese, Rebecca Sweeten, Dallin Thomas, Dallin Treasure-Areno

Student Research Symposium

• Laparoscopy a minimally invasive procedure performed through small incisions using a laparoscope, a camera-equipped instrument, along with specialized tools.

• Laparotomy or "open" surgery, requires a large incision to perform an abdominal operation.

Dataset: Compositional Analysis And Hydrothermal Liquefaction Of A High-Ash Microalgae Biofilm, Jacob Watkins, Hamza Abdellaoui, Elise Barton, Clayton Lords, Ronald C. Sims

Biological Engineering Student Research

This dataset contains biochemical composition data and hydrothermal liquefaction (HTL) yield results for a high-ash microalgae biofilm which was cultivated in effluent from a mesophilic anaerobic digester using polyethylene rotating algae biofilm reactors (RABRs). These data were originally collected for use in a techno-economic analysis of biocrude, biodiesel, and bioplastic production from algae that was cultivated using RABRs for municipal wastewater reclamation.

Biochemical data for the microalgae biomass includes bulk protein, measured both using the Bradford protein assay and by multiplying total N; carbohydrate content, measured using a 3-methyl-2-benzothiazolinone hydrazone / dithiothreitol (MBTH/DTT) assay; total lipid content, measured using a …

Recent Developments In Heterologous Expression Of Cellulases Using The Pichia Pastoris Expression System: A Comprehensive Literature Review, Nazish Muzaffar, Abdur Raziq, Muhammad Waseem Khan, Niaz Muhammad Khan, Bushra Shahid, Anbareen Gul, Hayat Ullah

Biological Engineering Student Research

Cellulosic biomass is considered an important and sustainable source of renewable energy, which needs a complex mixture of different enzymes for its degradation. After amylase, cellulases are the second most important enzymes, gain more importance due to their broad range of applications at the industrial level, and are considered more economical and environmentally friendly; researchers have focused more on the production of cellulase with its higher expression rate and low cost. Pichia pastoris, a methylotrophic yeast strain, has a more effective and well-established system for the production of heterologous proteins, particularly for industrial enzymes. Moreover, its readily achievable high-density …

Highly Porous Nanocarriers For Osmolyte Delivery And Drought Mitigation In Wheat And Ryegrass, David Britt

Funded Research Records

No abstract provided.

Analysis Of An Outdoor Pilot-Scale Rotating Algae Biofilm Reactor For Power Optimization, Ash-Enhanced Productivity, And Nutrient Uptake, Peter F. Jeppesen

All Graduate Theses and Dissertations, Fall 2023 to Present

Outdoor testing of a rotating algae biofilm reactor (RABR) was performed to see how well it could remove nutrients from water and produce algae. By adjusting the operation settings, we found the lowest power needed to remove nitrogen and phosphorus. The lowest power values needed were 1.36 kWh per kilogram of nitrogen and 20.1 kWh per kilogram of phosphorus. The algae production rate reached a maximum of 7.09 grams per square meter per day. Detailed analysis showed that the reactor worked like a continuous flow system, and the performance was influenced by factors including light and temperature. The results also …

Engineered Microalgae Cultivations Systems: Conversion Of Wastewater Nutrients Into Biofuels And Bioplastics, Jacob Watkins

All Graduate Theses and Dissertations, Fall 2023 to Present

Dissolved Nitrogen and Phosphorus in wastewater can contribute to harmful algae blooms if released into the environment. One technology that can be used to recover dissolved nutrients from wastewater is the Rotating Algae Biofilm Reactor (RABR), which supports microalgae growth in an easily-harvested biofilm and produces nitrogenand phosphorus-rich biomass that can be used to produce slow-release fertilizers, biofuels, and compostable bioplastics. This thesis (1) examines the effects of several environmental factors on the biomass production rate and nutrient removal efficiency of RABRs treating municipal wastewater, (2) quantifies the composition and biofuel yields of microalgae biomass cultivated using a RABR at …