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- All Subjects: Biochemistry
Description
A series of mitochondria targeting probes was synthesized for the purpose of exploring the feasibility of a mitochondria targeting fluorescent sensor. Of the probes, the probe with a two carbon spacer showed the best co-localization from staining with the established MitoTracker Red® FM, indicating a potential development of the probe into mitochondria targeting sensor. However, cytotoxicity was observed for the probe with a six carbon spacer. Three additional mitochondria targeting fluorescent probes of longer spacer groups were synthesized, but the cytotoxicity was not observed to be as high as that of the probe with a two carbon spacer. The cytotoxicity was characterized to be that of caspase dependent cell death. To screen for a possible effect on apoptosis due to the mitochondrial probe, three fluorescent fusion proteins binding the anti-apoptotic proteins were designed and expressed. Each purified fusion protein was then incubated with the cytotoxic mitochondrial probe, and the mixture was isolated by running an affinity column. The fluorescence analysis of eluted fractions showed preliminary data of possible interaction between the protein and the mitochondrial probe.
ContributorsLee, Fred (Author) / Meldrum, Deirdre R. (Thesis director) / Tian, Yanqing (Committee member) / Zhang, Liqiang (Committee member) / Barrett, The Honors College (Contributor) / Chemical Engineering Program (Contributor) / Department of Chemistry and Biochemistry (Contributor)
Created2014-12
Description
Microbial fuel cells (MFCs) promote the sustainable conversion of organic matter in black water to electrical current, enabling the production of hydrogen peroxide (H2O2) while making waste water treatment energy neutral or positive. H2O2 is useful in remote locations such as U.S. military forward operating bases (FOBs) for on-site tertiary water treatment or as a medical disinfectant, among many other uses. Various carbon-based catalysts and binders for use at the cathode of a an MFC for H2O2 production are explored using linear sweep voltammetry (LSV) and rotating ring-disk electrode (RRDE) techniques. The oxygen reduction reaction (ORR) at the cathode has slow kinetics at conditions present in the MFC, making it important to find a catalyst type and loading which promote a 2e- (rather than 4e-) reaction to maximize H2O2 formation. Using LSV methods, I compared the cathodic overpotentials associated with graphite and Vulcan carbon catalysts as well as Nafion and AS-4 binders. Vulcan carbon catalyst with Nafion binder produced the lowest overpotentials of any binder/catalyst combinations. Additionally, I determined that pH control may be required at the cathode due to large potential losses caused by hydroxide (OH-) concentration gradients. Furthermore, RRDE tests indicate that Vulcan carbon catalyst with a Nafion binder has a higher H2O2 production efficiency at lower catalyst loadings, but the trade-off is a greater potential loss due to higher activation energy. Therefore, an intermediate catalyst loading of 0.5 mg/cm2 Vulcan carbon with Nafion binder is recommended for the final MFC design. The chosen catalyst, binder, and loading will maximize H2O2 production, optimize MFC performance, and minimize the need for additional energy input into the system.
ContributorsStadie, Mikaela Johanna (Author) / Torres, Cesar (Thesis director) / Popat, Sudeep (Committee member) / Barrett, The Honors College (Contributor) / Chemical Engineering Program (Contributor)
Created2015-05
Description
As prices for fuel along with the demand for renewable resources grow, it becomes of paramount importance to develop new ways of obtaining the energy needed to carry out the tasks we face daily. Costs of production due to energy and time constraints impose severe limitations on what is viable. Biological systems, on the other hand, are innately efficient both in terms of time and energy by handling tasks at the molecular level. Utilizing this efficiency is at the core of this research. Proper manipulation of even common proteins can render complexes functionalized for specific tasks. In this case, the coupling of a rhenium-based organometallic ligand to a modified myoglobin containing a zinc porphyrin, allow for efficient reduction of carbon dioxide, resulting in energy that can be harnessed and byproducts which can be used for further processing. Additionally, a rhenium based ligand functionalized via biotin is tested in conjunction with streptavidin and ruthenium-bipyridine.
ContributorsAllen, Jason Kenneth (Author) / Ghirlanda, Giovanna (Thesis director) / Francisco, Wilson (Committee member) / Barrett, The Honors College (Contributor) / Chemical Engineering Program (Contributor)
Created2014-12
Description
Iodide-based ionic liquids have been widely employed as sources of iodide in electrolytes for applications utilizing the triiodide/iodide redox couple. While adding a low-viscosity solvent such as water to ionic liquids can greatly enhance their usefulness, mixtures of highly viscous iodide-containing ILs with water have never been studied. Thus, this paper investigates, for the first time, mixtures of water and the ionic liquid 1-butyl-3-methylimidazolium iodide ([BMIM][I]) through a combined experimental and molecular dynamics study. The density, melting point, viscosity and conductivity of these mixtures were measured experimentally. The composition region below 50% water by mole was found to be dramatically different from the region above 50% water, with trends in density and melting point differing before and after that point. Water was found to have a profound effect on viscosity and conductivity of the IL, and the effect of hydrogen bonding was discussed. Molecular dynamics simulations representing the same mixture compositions were performed. Molecular ordering was observed, as were changes in this ordering corresponding to water content. Molecular ordering was related to the experimentally measured mixture properties, providing a possible explanation for the two distinct composition regions identified by experiment.
ContributorsNgan, Miranda L (Author) / Dai, Lenore (Thesis director) / Nofen, Elizabeth (Committee member) / Barrett, The Honors College (Contributor) / Chemical Engineering Program (Contributor)
Created2015-05
Description
In this thesis, glycan nodes, the basic subunits of complex biological sugars, were studied to determine the reproducibility of gas chromatography-mass spectrometry (GC/MS) based methylation analysis of whole blood plasma by normalization using an internal standard of heavy permethylated glycans. Glycans are complex biological sugars that have a variety of applications in the human body and will display aberrant compositions when produced by cancerous cells. Thus an assay to determine their composition can be used as a diagnostic tool. It was shown that the assay may have potential use, but needs further refinement to become an improvement over current methods by analyzing the results of ratio-determination and replicate experiments.
ContributorsMiyasaki, Tyler Takeo (Author) / Borges, Chad (Thesis director) / Van Horn, Wade (Committee member) / Barrett, The Honors College (Contributor) / Department of Chemistry and Biochemistry (Contributor) / Chemical Engineering Program (Contributor)
Created2015-05
Description
Nitrate (NO3- ) and selenate (SeO42-) are common contaminants found in mining wastewater. Biological treatment has proved successful using bacteria capable of respiring NO3- into nitrogen gas and SeO42- into Se°. The Membrane Biofilm Reactor (MBfR) utilizes biofilm communities on the surface of hollow-fiber membranes to transform oxidized water contaminants into innocuous reduced products. For this project, I set up two MBfRs in a lead and lag configuration to reduce NO3- [input at ~40-45 mg NO3-N/L] and SeO42- [0.62 mg/L], while avoiding sulfate (SO42-) [~1600-1660 mg/L] reduction. Over the course of three experimental phases, I controlled two operating conditions: the applied hydrogen pressure and the total electron acceptor loading. NO3- in the lead MBfR showed average reductions of 50%, 94%, and 91% for phases I, II, and III, respectively. In the lag MBfR, NO3- was reduced by 40%, 96%, and 100% for phases I, II, and III. NO2- was formed in Stage I when NO3- was not reduced completely; nevertheless NO2- accumulation was absent for the remainder of operation. In the lead MBfR, SeO42- was reduced by 65%, 87%, and 50% for phases I, II, and III. In the lag MBfR, SeO42- was reduced 60%, 27%, and 23% for phases I, II, and III. SO42- was not reduced in either MBfR. Biofilm communities were composed of denitrifying bacteria Rhodocyclales and Burkholderiales, Dechloromonas along with the well-known SeO42--reducing Thauera were abundant genera in the biofilm communities. Although SO42- reduction was suppressed, sulfate-reducing bacteria were present in the biofilm. To optimize competition for electron donor and space in the biofilm, optimal operational conditions were hydrogen pressures of 26 and 7 psig and total electron acceptor loading of 3.8 and 3.4 g H2/m2 day for the lead and lag MBfR, respectively.
ContributorsMehta, Sanya Vipul (Author) / Rittmann, Bruce (Thesis director) / Ontiveros-Valencia, Aura (Committee member) / Chemical Engineering Program (Contributor) / School of International Letters and Cultures (Contributor) / School of Life Sciences (Contributor) / Barrett, The Honors College (Contributor)
Created2016-05
Description
Microbial fuel cells (MFCs) facilitate the conversion of organic matter to electrical current to make the total energy in black water treatment neutral or positive and produce hydrogen peroxide to assist the reuse of gray water. This research focuses on wastewater treatment at the U.S. military forward operating bases (FOBs). FOBs experience significant challenges with their wastewater treatment due to their isolation and dangers in transporting waste water and fresh water to and from the bases. Even though it is theoretically favorable to produce power in a MFC while treating black water, producing H2O2 is more useful and practical because it is a powerful cleaning agent that can reduce odor, disinfect, and aid in the treatment of gray water. Various acid forms of buffers were tested in the anode and cathode chamber to determine if the pH would lower in the cathode chamber while maintaining H2O2 efficiency, as well as to determine ion diffusion from the anode to the cathode via the membrane. For the catholyte experiments, phosphate and bicarbonate were tested as buffers while sodium chloride was the control. These experiments determined that the two buffers did not lower the pH. It was seen that the phosphate buffer reduced the H2O2 efficiency significantly while still staying at a high pH, while the bicarbonate buffer had the same efficiency as the NaCl control. For the anolyte experiments, it was shown that there was no diffusion of the buffers or MFC media across the membrane that would cause a decrease in the H2O2 production efficiency.
ContributorsThompson, Julia (Author) / Torres, Cesar (Thesis director) / Popat, Sudeep (Committee member) / Chemical Engineering Program (Contributor) / Barrett, The Honors College (Contributor)
Created2016-05
Description
Styrene, a component of many rubber products, is currently synthesized from petroleum in a highly energy-intensive process. The Nielsen Laboratory at Arizona State has demonstrated a biochemical pathway by which E. coli can be engineered to produce styrene from the amino acid phenylalanine, which E. coli naturally synthesizes from glucose. However, styrene becomes toxic to E. coli above concentrations of 300 mg/L, severely limiting the large-scale applicability of the pathway. Thus, styrene must somehow be continuously removed from the system to facilitate higher yields and for the purposes of scale-up. The separation methods of pervaporation and solvent extraction were investigated to this end. Furthermore, the styrene pathway was extended by one step to produce styrene oxide, which is less volatile than styrene and theoretically simpler to recover. Adsorption of styrene oxide using the hydrophobic resin L-493 was attempted in order to improve the yield of styrene oxide and to provide additional proof of concept that the flux through the styrene pathway can be increased. The maximum styrene titer achieved was 1.2 g/L using the method of solvent extraction, but this yield was only possible when additional phenylalanine was supplemented to the system.
ContributorsMcDaniel, Matthew Cary (Author) / Nielsen, David (Thesis director) / Lind, Mary Laura (Committee member) / McKenna, Rebekah (Committee member) / Barrett, The Honors College (Contributor) / Department of Chemistry and Biochemistry (Contributor) / Chemical Engineering Program (Contributor)
Created2013-05
Description
Alternative ion exchange membranes for implementation in a peroxide production microbial electrochemical cel (PP-MEC) are explored through membrane stability tests with NaCl electrolyte and stabilizer EDTA at varying operational pHs. PP-MEC performance parameters \u2014 H2O2 concentration, current density, coulombic efficiency and power input required \u2014 are optimized over a 7 month continuous operation period based on their response to changes in HRT, EDTA concentration, air flow rate and electrolyte. I found that EDTA was compatible for use with the membranes. I also determined that AMI membranes were preferable to CMI and FAA because it was consistently stable and maintained its structural integrity. Still, I suggest testing more membranes because the AMI degraded in continuous operation. The PP-MEC produced up to 0.38 wt% H2O2, enough to perform water treatment through the Fenton process and significantly greater than the 0.13 wt% batch PP-MEC tests by previous researchers. It ran at > 0.20 W-hr/g H2O2 power input, ~ three orders of magnitude less than what is required for the anthraquinone process. I recommend high HRT and EDTA concentration while running the PP- MEC to increase H2O2 concentration, but low HRT and low EDTA concentration to decrease power input required. I recommend NaCl electrolyte but suggest testing new electrolytes that may control pH without degrading H2O2. I determined that air flow rate has no effect on PP-MEC operation. These recommendations should optimize PP-MEC operation based on its application.
ContributorsChowdhury, Nadratun Naeem (Author) / Torres, Cesar (Thesis director) / Popat, Sudeep (Committee member) / Chemical Engineering Program (Contributor) / Barrett, The Honors College (Contributor)
Created2016-05
Description
Alzheimer’s disease (AD) is a common neurodegenerative disorder affecting approximately 10% of people aged 65 and up and 30-50% over 85. In pathological AD representations, a way to recognize early onset AD is the increased levels of pro-NGF in BFCNs that come from the downregulation of NGF with age. Pro-NGF has a higher affinity for p75NTR, which binds and participates in the pro-NGF-p75NTR-sortilin complex sequentially cleaved by α- and γ-secretase. Pro-NGF triggers apoptosis through the cleavage of the intracellular membrane by γ-secretase. Since γ-secretase physically cleaves off the intramembrane portion that promotes TNF- and Fas-dependent apoptotic signaling pathways, it has a crucial role in AD and must be better understood. This research aims to understand better and visualize γ-secretase and its actions, specifically with its interactions with the substrate p75NTR in the RIP process. To analyze γ-secretase function, the proteins must be produced and analyzed through the protein expression protocol. During protein production, DNA, cell concentrations, and optical density measurements were difficult to produce due to the incompetency of e. coli cells (DH5α), contamination of the Sf9 insect cell culture, and decreased viability of aged insect cells. We identified the problems and improved the conditions for future project development.
ContributorsRapacz, Elizabeth (Author) / Chiu, Po-Lin (Thesis director) / Van Horn, Wade (Committee member) / Munk, Barbara (Committee member) / Barrett, The Honors College (Contributor) / School of Human Evolution & Social Change (Contributor) / School of Molecular Sciences (Contributor)
Created2023-05