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Description
To further the efforts producing energy from more renewable sources, microbial electrochemical cells (MXCs) can utilize anode respiring bacteria (ARB) to couple the oxidation of an organic substrate to the delivery of electrons to the anode. Although ARB such as Geobacter and Shewanella have been well-studied in terms of their microbiology and electrochemistry, much is still unknown about the mechanism of electron transfer to the anode. To this end, this thesis seeks to elucidate the complexities of electron transfer existing in Geobacter sulfurreducens biofilms by employing Electrochemical Impedance Spectroscopy (EIS) as the tool of choice. Experiments measuring EIS resistances as a function of growth were used to uncover the potential gradients that emerge in biofilms as they grow and become thicker. While a better understanding of this model ARB is sought, electrochemical characterization of a halophile, Geoalkalibacter subterraneus (Glk. subterraneus), revealed that this organism can function as an ARB and produce seemingly high current densities while consuming different organic substrates, including acetate, butyrate, and glycerol. The importance of identifying and studying novel ARB for broader MXC applications was stressed in this thesis as a potential avenue for tackling some of human energy problems.
ContributorsAjulo, Oluyomi (Author) / Torres, Cesar (Thesis advisor) / Nielsen, David (Committee member) / Krajmalnik-Brown, Rosa (Committee member) / Popat, Sudeep (Committee member) / Arizona State University (Publisher)
Created2013
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
Widespread use of halogenated organic compounds for commercial and industrial purposes makes halogenated organic pollutants (HOPs) a global challenge for environmental quality. Current wastewater treatment plants (WWTPs) are successful at reducing chemical oxygen demand (COD), but the removal of HOPs often is poor. Since HOPs are xenobiotics, the biodegradation of HOPs is usually limited in the WWTPs. The current methods for HOPs treatments (e.g., chemical, photochemical, electrochemical, and biological methods) do have their limitations for practical applications. Therefore, a combination of catalytic and biological treatment methods may overcome the challenges of HOPs removal.This dissertation investigated a novel catalytic and biological synergistic platform to treat HOPs. 4-chlorophenol (4-CP) and halogenated herbicides were used as model pollutants for the HOPs removal tests. The biological part of experiments documented successful co-oxidation of HOPs and analog non-halogenated organic pollutants (OPs) (as the primary substrates) in the continuous operation of O2-based membrane biofilm reactor (O2-MBfR). In the first stage of the synergistic platform, HOPs were reductively dehalogenated to less toxic and more biodegradable OPs during continuous operation of a H2-based membrane catalytic-film reactor (H2-MCfR). The synergistic platform experiments demonstrated that OPs generated in the H2-MCfR were used as the primary substrates to support the co-oxidation of HOPs in the subsequent O2-MBfR. Once at least 90% conversation of HOPs to OPs was achieved in the H2-MCfR, the products (OPs to HOPs mole ratio >9) in the effluent could be completely mineralized through co-oxidation in O2-MBfR. By using H2 gas as the primary substrate, instead adding the analog OP, the synergistic platform greatly reduced chemical costs and carbon-dioxide emissions during HOPs co-oxidation.
ContributorsLuo, Yihao (Author) / Rittmann, Bruce (Thesis advisor) / Krajmalnik-Brown, Rosa (Committee member) / Torres, Cesar (Committee member) / Arizona State University (Publisher)
Created2022
Description
The world today needs novel solutions to address current challenges in areas spanning areas from sustainable manufacturing to healthcare, and biotechnology offers the potential to help address some of these issues. One tool that offers opportunities across multiple industries is the use of nonribosomal peptide synthases (NRPSs). These are modular biological factories with individualized subunits that function in concert to create novel peptides.One element at the heart of environmental health debates today is plastics. Biodegradable alternatives for petroleum-based plastics is a necessity. One NRPS, cyanophycin synthetase (CphA), can produce cyanophycin grana protein (CGP), a polymer composed of a poly-aspartic acid backbone with arginine side chains. The aspartic backbone has the potential to replace synthetic polyacrylate, although current production costs are prohibitive. In Chapter 2, a CphA variant from Tatumella morbirosei is characterized, that produces up to 3x more CGP than other known variants, and shows high iCGP specificity in both flask and bioreactor trials. Another CphA variant, this one from Acinetobacter baylyi, underwent rational protein design to create novel mutants. One, G217K, is 34% more productive than the wild type, while G163K produces a CGP with shorter chain lengths. The current structure refined from 4.4Å to 3.5Å.
Another exciting application of NRPSs is in healthcare. They can be used to generate novel peptides such as complex antibiotics. A recently discovered iterative polyketide synthase (IPTK), dubbed AlnB, produces an antibiotic called allenomycin. One of the modular subunits, a dehydratase named AlnB_DH, was crystallized to 2.45Å. Several mutations were created in multiple active site residues to help understand the functional mechanism of AlnB_DH. A preliminary holoenzyme AlnB structure at 3.8Å was generated although the large disorganized regions demonstrated an incomplete structure. It was found that chain length is the primary factor in driving dehydratase action within AlnB_DH, which helps lend understanding to this module.
ContributorsSwain, Kyle (Author) / Nannenga, Brent (Thesis advisor) / Nielsen, David (Committee member) / Mills, Jeremy (Committee member) / Seo, Eileen (Committee member) / Acharya, Abhinav (Committee member) / Arizona State University (Publisher)
Created2022
Description
Selenium oxyanions (i.e., selenate and selenite) can be released into the environment from surface mining. Selenium is an essential micronutrient, but high selenium in water has adverse health effects for aquatic animals and humans. Mine-influenced water is often co-contaminated with high concentrations of nitrate, selenium oxyanions, and sulfate. The Saturated Rock Fill (SRF) is a treatment technology that utilizes waste rocks from surface mining to create a biological treatment system that can be effective at removing nitrate and selenium-oxyanions from the mine-influenced water. The Selenium, Sulfur, and Nitrogen species (SeSANS) model can be used to estimate the respiration, synthesis, and endogenous decay of biomass in an SRF. The goal of this thesis is to simulate SRF biofilms using a biofilm version of SeSANS. Three nitrate loads (100, 250, and 450 kg NO3-N/day) with a low flow rate (1000 m3/d) or a high flow rate (5000 m3/d) -- a total of six scenarios -- were simulated for 5000 days of operation. The influent water contained 0.18 g Se/m3 of selenate, 0.02 Se/m3 selenite, and 800 S/m3 of sulfate; the input nitrate concentration was 100, 250, and 450 g N/m3 for the low flow rate and 20, 50, and 90 g N/m3 for the high flow rate. Methanol was injected as the electron donor. These criteria were used to define a successful simulation: effluent nitrate < 3 mg N/L and total dissolved Se < 0.029 mg Se/L, minimal sulfate reduction, and an average biofilm-biomass density of 96 kg TS/m3. To achieve those criteria, the following model parameters were adjusted: rate for methanol addition, biofilm thickness, SRF volumes, and biofilm-detachment rates. The most important parameter for achieving all the goals was the methanol addition ratio: 3.56 g COD/g NO3-N. Another important outcome was that the high-flow-rate scenarios required a larger total SRF volume to achieve target nitrate and Se-oxyanion reductions. The results of the simulations can be used to estimate biofilm characteristics and optimize the SRF configuration and treatment operation.
ContributorsKuo, Jacqueline (Author) / Rittmann, Bruce E (Thesis advisor) / Boltz, Joshua P (Committee member) / Torres, Cesar (Committee member) / Arizona State University (Publisher)
Created2023
Description
Energy can be harvested from wastewater using microbial fuel cells (MFC). In order to increase power generation, MFCs can be scaled-up. The MFCs are designed with two air cathodes and two anode electrodes. The limiting electrode for power generation is the cathode and in order to maximize power, the cathodes were made out of a C-N-Fe catalyst and a polytetrafluoroethylene binder which had a higher current production at -3.2 mA/cm2 than previous carbon felt cathodes at -0.15 mA/cm2 at a potential of -0.29 V. Commercial microbial fuel cells from Aquacycl were tested for their power production while operating with simulated blackwater achieved an average of 5.67 mW per cell. The small MFC with the C-N-Fe catalyst and one cathode was able to generate 8.7 mW. Imitating the Aquacycl cells, the new MFC was a scaled-up version of the small MFC where the cathode surface area increased from 81 cm2 to 200 cm2. While the MFC was operating with simulated blackwater, the peak power produced was 14.8 mW, more than the smaller MFC, but only increasing in the scaled-up MFC by 1.7 when the surface area of the cathode increased by 2.46. Further long-term application can be done, as well as operating multiple MFCs in series to generate more power and improve the design.
ContributorsRussell, Andrea (Author) / Torres, Cesar (Thesis advisor) / Garcia Segura, Sergio (Committee member) / Fraser, Matthew (Committee member) / Arizona State University (Publisher)
Created2022
Description
The use of mRNA for therapeutic purposes has gained significant attention due to its potential to treat a wide range of diseases, including cancer, infectious diseases, and genetic disorders. However, the efficient delivery of mRNA to target cells remains a major challenge, and delivery of mRNA faces major issues such as rapid degradation and poor cellular uptake. Aminoglycoside-derived lipopolymer nanoparticles (LPNs) have been shown as a promising platform for plasmid DNA (pDNA) delivery due to their stability, biocompatibility, and ability to encapsulate mRNA. The current study aims to develop and optimize LPNs formulation for the delivery of mRNA in aggressive cancer cells, using a combination of chemical synthesis, physicochemical characterization, and in vitro biological assays. From a small library of aminoglycoside-derived lipopolymers, the lead lipopolymers were screened for the efficient delivery of mRNA. The complexes were synthesized with different ratios of lipopolymers to mRNA. The appropriate binding ratios of lipopolymers and mRNA were determined by gel electrophoresis. The complexes were characterized using dynamic light scattering (DLS) and zeta potential. The transgene expression efficacy of polymers was evaluated using in vitro bioluminescence assay. The toxicity of LPNs and LPNs-mRNA complexes was evaluated using a 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assay. The current study comprehensively investigates the optimization of the LPNs-mRNA formulation for enhanced efficacy in transgene expression in human advanced-stage melanoma cell lines.
ContributorsWubhayavedantapuram, Revanth (Author) / Rege, Kaushal (Thesis advisor) / Acharya, Abhinav (Committee member) / Yaron, Jordan (Committee member) / Arizona State University (Publisher)
Created2023
Description
In order to optimize the ability of Geobacter sulfurreducens to produce electrical current and remediate wastewater, several physiological challenges must be overcome. The accumulation of protons at the electrode surface of a microbial fuel cell (MFC) decreases the pH, and, thus, the ability of the bacteria to maintain baseline metabolic conditions. To evaluate the extent to which this pH change hinders performance, the buffer concentration supplied to G. sulfurreducens reactors was varied. The resulting biofilms were subjected to chronoamperometry, cyclic voltammetry, and confocal microscopy to determine metabolic function and biofilm thickness. Biofilms grown with a 30-mM bicarbonate buffer experienced limitations on cell function and current output due to proton accumulation, while 90- and 150-mM conditions alleviated these limitations most of the measurements. Based on the current output, estimated biofilm thickness, and the medium-rate and slow-rate scan rate cyclic voltammetry, benefits exist for buffer concentrations greater than 30 mM. If the kinetics of G. sulfurreducens electron transfer are optimized, the potential of the technique to be implemented for energy recovery is improved.
ContributorsCoulam, Jordan (Author) / Torres, Cesar (Thesis advisor) / Delgado, Anca (Committee member) / Rittmann, Bruce (Committee member) / Arizona State University (Publisher)
Created2024
Description
Exoelectrogenic microorganisms can grow by transferring electrons from their internal metabolism to extracellular substrates in a process known as extracellular electron transfer (EET). This dissertation explores the mechanisms of EET by both chemotrophic and phototrophic organisms and constructs a novel supramolecular structure that can be used as a model for microbial, long-range electron transfer. Geobacter sulfurreducens has been hypothesized to secrete and use riboflavin as a soluble, extracellular redox shuttle in conjunction with multi-heme, outer membrane, c-type cytochromes, but the required proteins and their properties have not been defined. To address the mechanism of extracellular electron transfer by G. sulfurreducens, the first part of this work explores the interaction between an outer membrane, octaheme, c-type cytochrome OmcZs from G. sulfurreducens and riboflavin. Interrogation via multiple physical techniques shows that OmcZs transfers electrons to riboflavin. By analogy to other characterized systems, riboflavin then likely interacts with extracellular acceptors directly. The second part of this work addresses the mechanisms of EET by the model cyanobacterium Synechocystis sp. PCC 6803. It has been hypothesized that Synechocystis employs conductive pili for production of extracellular current. However, the results herein show that a strain that does not have pili produces extracellular photocurrent in a direct electrochemical cell at a level similar to that by wild type cells. Furthermore, conductive atomic force microscopy (AFM) imaging is used to show that pili produced by the wild type organism are not conductive. Thus, an alternative EET mechanism must be operable. In the third part of this work, a supramolecular structure comprised of peptide and cytochromes designed to serve as a model for long-range electron transfer through cytochrome rich environments is described. The c-type cytochromes in this synthetic nanowire retain their redox activity after assembly and have suitable characteristics for long-range electron transfer. Taken together, the results of this dissertation not only inform on natural microbial mechanisms for EET but also provide a starting point to develop novel, synthetic systems.
ContributorsThirumurthy, Miyuki (Author) / Jones, Anne K (Thesis advisor) / Redding, Kevin (Committee member) / Torres, Cesar (Committee member) / Arizona State University (Publisher)
Created2019
Description
The list of applications of plasmonic nanoparticles in the fields of energy research, sensing, and diagnostics and therapeutics is continuously growing. Processes for the synthesis of the nanoparticles for such applications should incorporate provision to easily functionalize the particle formed and should ideally not use toxic reagents or create toxic by-products. The traditional methods of synthesizing nanoparticles generally are energy inefficient, requires stringent conditions such as high temperature, pressure or extreme pH and often produces toxic by-products. Although there exist a few solution-based methods to solve this problem, there is one avenue which has recently gained attention for nanoparticle synthesis: using biomolecules to facilitate nanomaterials synthesis. Using biomolecules for synthesis can provide a template to guide the nucleation process and helps to keep conditions biocompatible while also combining the step of functionalization of the nanoparticle with its synthesis through the biomolecule itself. The dissertation focuses on studying the bio-templated synthesis of two such noble metal nanoparticle which have biomedical applications: gold and platinum. In chapter 2, Gold Nanoparticles (GNP), with long-term stability, were synthesized using Maltose Binding Protein (MBP) as templating agent. The site of gold interaction on MBP was identified by X-ray crystallography. A novel gold binding peptide, AT1 (YPFGGSGGSGM), was designed based on the orientation of the residues in the gold binding site, identified through crystallography. This designed peptide was also shown to have stabilized and affected the growth rate of GNP formation, in similar manner to MBP. Further in chapter 3, a nanosensor was formulated using a variation of this GNP-MBP system, to detect and measure ionizing radiation dose for cancer radiation therapy. Upon exposure to therapeutic levels of ionizing radiation, the MBP‐based sensor system formed gold nanoparticles with a dose‐dependent color that could be used to predict the amount of delivered X‐ray dose. In chapter 4, a similar system of protein templated synthesis was introduced for platinum nanoparticle (PtNP). Here, GroEL, a large homo-tetradecamer chaperone from E.coli, was used as templating and stabilizing agent for reduction of K2PtCl4 ions to form PtNP. To understand how GroEL interacts with the PtNPs and thereby stabilizes them, single-particle cryo-electron microscopy technique was used to model the complex in solution. A 3.8-Å resolution 3D cryo-EM map of GroEL depicting the location of PtNP inside its central cylindrical cavity was obtained. Fitting a GroEL model to the map revealed Arginine-268 from two adjacent subunits of GroEL interacting with the PtNP surface. Finally in chapter 5, a solution to the potential issues of single particle data processing on protein nanoparticle complexes, specifically with 2D classification, was developed by creating masking algorithms.
ContributorsThaker, Amar Nilkamal (Author) / Nannenga, Brent L (Thesis advisor) / Acharya, Abhinav (Committee member) / Torres, Cesar (Committee member) / Mills, Jeremy (Committee member) / Rege, Kaushal (Committee member) / Arizona State University (Publisher)
Created2020