Rapid development of new technology has significantly disrupted the way radiotherapy is planned and delivered. These processes involve delivering high radiation doses to the target tumor while minimizing dose to the surrounding healthy tissue. However, with rapid implementation of these new technologies, there is a need for the detection of prescribed ionizing radiation for radioprotection of the patient and quality assurance of the technique employed. Most available clinical sensors are subjected to various limitations including requirement of extensive training, loss of readout with sequential measurements, sensitivity to light and post-irradiation wait time prior to analysis. Considering these disadvantages, there is still a need for a sensor that can be fabricated with ease and still operate effectively in predicting the delivered radiation dose.



The dissertation discusses the development of a sensor that changes color upon exposure to therapeutic levels of ionizing radiation used during routine radiotherapy. The underlying principle behind the sensor is based on the formation of gold nanoparticles from its colorless precursor salt solution upon exposure to ionizing radiation. Exposure to ionizing radiation generates free radicals which reduce ionic gold to its zerovalent gold form which further nucleate and mature into nanoparticles. The generation of these nanoparticles render a change in color from colorless to a maroon/pink depending on the intensity of incident ionizing radiation. The shade and the intensity of the color developed is used to quantitatively and qualitatively predict the prescribed radiation dose.

The dissertation further describes the applicability of sensor to detect a wide range of ionizing radiation including high energy photons, protons, electrons and emissions from radioactive isotopes while remaining insensitive to non-ionizing radiation. The sensor was further augmented with a capability to differentiate regions that are irradiated and non-irradiated in two dimensions. The dissertation further describes the ability of the sensor to predict dose deposition in all three dimensions. The efficacy of the sensor to predict the prescribed dose delivered to canine patients undergoing radiotherapy was also demonstrated. All these taken together demonstrate the potential of this technology to be translatable to the clinic to ensure patient safety during routine radiotherapy.

Improvement in carbon capture percentage was calculated as most effective in 10 mg/L-MEA BG-11 media, with improvement in carbon capture of 1.012% over the control. In studying the effect of agitation at 150 revolutions-per-minute (RPM) with a magnetic stir bar, it was found that mass transfer actually decreased. Future investigations are warranted to fully characterize the effect of different alkanolamine types, concentrations, and mixing regimens on mass transfer of CO2. In this thesis, emphasis was placed on experimental setup to allow for a discussion of the unexpected characteristics of the findings of the mass transfer experiments. Understanding the effect of experimental setup on mass transfer will be important in designing more effective methods of CO2 absorption for improving growth of cyanobacteria.

A Study of the gasification of municipal solid waste (MSW) for hydrogen production was completed through research and statistical design of experiment. The study was done for general syngas production with conditions of high temperature and pressure. Waste samples from kitchen waste including rice, avocado, and egg shells were used. Dry orange blossom tree leaves were included and a very minimal fraction of used paper and Styrofoam. One of the components of the syngas predicted was hydrogen, but this study does not discuss techniques for the separation of the hydrogen from the syngas. A few suggestions, however, such as the use of gas chromatography and membranes are made for the study of the syngas and separation of the hydrogen from the syngas. A three level, three factors-half factorial design was used to analyze the impact of pressure, residence time and temperature on the gasification of MSW through a hydrothermal gasification approach. A series 4590 micro stirred reactor of 100mL was used to gasify MSW, but first, it was established through a TGA approach that the waste was about 5% moisture content and 55% organic content (OC). The TGA device used was the TG 209 F1 Libra. Results of the gasification indicated that the most important factor in the gasification of MSW is temperature, followed by residence time and that the syngas yield increases with a decreasing pressure of the system. A thermodynamic model relating the three factors and the syngas yield was developed.

The primary objective of this project is to further the knowledge about SCL26 family of anion transporters. The goals of the experiment were to find the lowest sulfate concentration where the yeast without Sulp1 and Sulp2 is able to grow, but it grows very slowly, and to find a higher sulfate concentration where the yeast grows quickly, with or without the sulfate transporters. The lowest sulfate concentration where the yeast without the sulfate transporters is able to grow was determined to be 2-4 mM, however, this range can likely be refined by more quantitative analytical methods. At a sulfate concentration of 20 mM sulfate or higher, the yeast is able to grow quickly without high-affinity sulfate transporters. The next step in the project is to re-introduce the Sulp1 and Sulp2 genes into the yeast, so that growth in low and high sulfate conditions can be compared with and without the Sulp1 and Sulp2 proteins. The long-term goals of the project are to bring experience with yeast to Dr. Nannenga’s structural discovery lab, to determine if yeast sulfate transporters respond in the same way to drug candidates as human sulfate transporters, and to determine the structure of the proteins using cryo-electron microscopy.

2,2’ bipyridine (Bpy) can form metal complexes with divalent metals in the form of [M(Bpy-ala)¬3]+2 where M is any divalent metal. These [M(Bpy-ala)¬3]+2 complexes can have very interesting photochemical and redox potentials that can be useful in more complex systems. The use of (2,2′-bipyridin-5yl)alanine (Bpy-ala) as a Noncanonical Amino Acid (NCAA) has allowed Bpy to be incorporated into an amino acid sequence which can now function in a protein scaffold. Previous studies have utilized that power of Bpy-ala to design a protein that can assemble a homotrimeric protein complex in the presence of a divalent metal. However, the issue with this design was that when the homotrimer was formed and the divalent was removed, the protein complex would not dissemble indicating that it was not metal dependent. Point mutations were made to disrupt the protein-protein interactions to favor disassembly in the absence of a divalent metal. Successfully, a mutation was made that allowed the designed protein to be metal dependent for self-assembly. Nevertheless, an issue with this design is that it poorly incorporated ruthenium(II) into the tris Bpy complex forming [Ru(Bpy-ala)¬3]+2, which was one of the main goals of the original design. This thesis sets out to form TRI 05 I13S M6I which should uphold the same metal-dependence as its predecessor and should combine ruthenium (II) into the protein complex forming [Ru(Bpy-ala)¬3]+2. The thesis shows the success of formation and expression of TRI 05 I13S M6I in Escherichia coli cells. This thesis also reports several purification steps and procedures to not only purify TRI 05 I13S M6I but also removing both the His-tag sequence and Fe(II) from the protein. The thesis also shows that TRI 05 I13S M6I does not behave like its predecessor in that it is not metal dependent for self-assembly. While this may be true, this paper also reports the incorporation of ruthenium (II) in the protein structure. Though this may be the first time that ruthenium (II) has been recorded to be in the TRI 05 protein complex with a significant signal, it is still nowhere near the optimal fluorescence that small molecule Bpy can achieve by itself. The thesis reports potential conditions and a plan of attack that should drive this project forward into achieving an optimal signal of the [Ru(Bpy-ala)¬3]+2 complex in a TRI 05 protein scaffold.

The yeast project studies the growth of yeast Saccharomyces Cerevisiae (S. Cerevisiae) in high and low sulfate environments and analyzes the potential for genetically mutated plasmids to facilitate sulfate uptake in gene deficient yeast medias. The goal of the project was to transform the Sul1 and Sul2 transporters into the nutrient deficient yeast strain BY4743 and observe growth in conditions that would otherwise prohibit growth in order to create a model that can be used to study the effect of sulfate concentration on the transporters. The experimental results showed that expressing the sulfate transporters in the BY4743 strain provided the potential for the yeast to grow in nutrient-poor media. The growth potential model allows for further analysis on the sulfate transporters and will be used for research projects going forward.

In the United States, 12% of women are typically diagnosed with breast cancer, where 20-30% of these cases are identified as Triple Negative Breast Cancer (TNBC). In the state of Arizona, 810 deaths occur due to breast cancer and more than 4,600 cases are diagnosed every year (American Cancer Society). The lack of estrogen, progesterone, and HER2 receptors in TNBC makes discovery of targeted therapies further challenging. To tackle this issue, a novel multi-component drug vehicle is presented. Previously, we have shown that mitoxantrone, a DNA damaging drug, can sensitize TNBC cells to TRAIL, which is a protein that can selectively kill cancer cells. In this current study, we have formulated aminoglycoside-derived nanoparticles (liposomes) loaded with mitoxantrone, PARP inhibitors, for delivery to cancer cells. PARP inhibitors are helpful in preventing cancer cells from repairing their DNA following damage with other drugs (e.g. mitoxantrone). Various treatment liposome groups, consisting of lipid-containing polymers (lipopolymers) synthesized in our laboratory, were formulated and characterized for their size, surface charge, and stability. PARP inhibitors and treatment of cells for in-vitro and in-vivo experiments with these liposomes resulted in synergistic death of cancer cells. Finally, studies to evaluate the pre-clinical efficacy of these approaches using immuno-deficient mouse models of TNBC disease have been initiated.

Lignocellulosic biomass represents a renewable domestic feedstock that can support large-scale biochemical production processes for fuels and specialty chemicals. However, cost-effective conversion of lignocellulosic sugars into valuable chemicals by microorganisms still remains a challenge. Biomass recalcitrance to saccharification, microbial substrate utilization, bioproduct titer toxicity, and toxic chemicals associated with chemical pretreatments are at the center of the bottlenecks limiting further commercialization of lignocellulose conversion. Genetic and metabolic engineering has allowed researchers to manipulate microorganisms to overcome some of these challenges, but new innovative approaches are needed to make the process more commercially viable. Transport proteins represent an underexplored target in genetic engineering that can potentially help to control the input of lignocellulosic substrate and output of products/toxins in microbial biocatalysts. In this work, I characterize and explore the use of transport systems to increase substrate utilization, conserve energy, increase tolerance, and enhance biocatalyst performance.

Alzheimer’s disease is a major problem affecting over 5.7 million Americans. Although much is known about the effects of this neurogenerative disease, the exact pathogenesis is still unknown. One very important characteristic of Alzheimer’s is the accumulation of beta amyloid protein which often results in plaques. To understand these beta amyloid proteins better, antibody fragments may be used to bind to these oligomers and potentially reduce the effects of Alzheimer’s disease.

This thesis focused on the expression and crystallization the fragment antigen binding antibody fragment A4. A fragment antigen binding fragment was chosen to be worked with as it is more stable than many other antibody fragments. A4 is important in Alzheimer’s disease as it is able to identify toxic beta amyloid.

Gold nanoparticles are valuable for their distinct properties and nanotechnology applications. Because their properties are controlled in part by nanoparticle size, manipulation of synthesis method is vital, since the chosen synthesis method has a significant effect on nanoparticle size. By aiding mediating synthesis with proteins, unique nanoparticle structures can form, which open new possibilities for potential applications. Furthermore, protein-mediated synthesis favors conditions that are more environmentally and biologically friendly than traditional synthesis methods. Thus far, gold particles have been synthesized through mediation with jack bean urease (JBU) and para mercaptobenzoic acid (p-MBA). Nanoparticles synthesized with JBU were 80-90nm diameter in size, while those mediated by p-MBA were revealed by TEM to have a size between 1-3 nm, which was consistent with the expectation based on the black-red color of solution. Future trials will feature replacement of p-MBA by amino acids of similar structure, followed by peptides containing similarly structured amino acids.