The recently discovered fast growing cyanobacterium Synechococcus sp. PCC 11901 has high industrial potential due to its quick doubling time, ability to grow on various carbon substrates and unique metabolism. Since its discovery, little work has been done to model the metabolic pathways present in the organism. In order to accurately model such an organism, experimentally determined steady state biomass flux constraints are necessary. These constraints will influence the design of a flux balance analysis model & provide realistic restrictions on the model’s outputs. The construction of such a metabolic model will assist metabolic engineers in their genetic design. By modeling the thousands of reactions and each metabolite present in the organism, engineers can gain deep insights into the complex nature of metabolism. By designing new reaction pathways, and changing the model, metabolic engineers can use this work to predict the result of various genetic manipulations on the organism. This serves as the experimental basis for building such a model.

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.

This study deals with various flow field designs for anode, cathode, and coolant plates for optimizing the performance of proton exchange membrane fuel cell using H2 and air. In particular, the 3D models with various flow field patterns such as single parallel serpentine (anode), multi parallel (anode), multi-parallel serpentine (cathode), multi serpentine (cathode) have been evaluated for enhancing the fuel cell performance at 60 oC, with three different coolant flow designs (mirror serpentine, multi serpentine and parallel serpentine). Both the peak power and limiting current density are considered based on the parameters such as temperature distribution, pressure distribution, reactants/species distribution and the membrane water content on the active area (50 cm2) region. It is interesting to note that the coolant channel also has a significant effect in regulating the fuel cell performance at high current densities, in addition to reactant gas flow channels. The simulated single cell with Nafion (thickness: 18 m) demonstrates a peak power density of 0.97 W.cm-2 with single parallel serpentine (anode), multi parallel serpentine (cathode) and serpentine (coolant) and 0.91 W.cm-2 with multi parallel (anode), multi serpentine (cathode), and parallel serpentine (coolant) flow field designs. The simulated fuel cell performance is also experimentally validated with four cells at 60 oC using H2 fuel and air as the oxidant.

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.

Polymers have played a pivotal role in building modern society. Polymers can be classified as synthetic and natural polymers. Accumulation of both synthetic and natural polymer waste leads to environmental pollution. This dissertation aims at developing one-pot bioprocesses for a breakdown of natural polymers like cellulose, and hemicellulose and synthetic polymers like polyethylene terephthalate (PET). First, a one-pot process was developed for hemicellulose breakdown. A signal peptide library of native SEC pathway signal peptides was developed for efficient secretion of endoxylanse enzyme. Furthermore, in situ, the process was successfully created for hemicellulose to xylose with the highest reported xylose titer of 7.1 g/L. In addition, E. coli: B. subtilis coculture bioprocess was developed to produce succinate, ethanol, and lactate from hemicellulose in one pot process. Second, a one-pot process was developed for cellulose breakdown. In vitro enzyme assays were used to select SEC pathway signal peptides for endoglucanase and glucosidase secretion. Then, the breakdown of carboxymethyl cellulose (CMC), a cellulose derivative, was conducted in in situ conditions. U-13C fingerprinting study showed carbon enrichment from CMC when cultures were cofed with CMC and [U-13C] glucose. Further, Whatman filter paper sheets showed a change in shape in recombinant cocultures. SEM images showed continuous orientation in the case of two enzymes confirmed by fast Fourier transform (FFT), suggesting higher crystallinity of residues. Similarly, in microcrystalline cellulose breakdown in in situ conditions, a 72% reduction of avicel cellulose was achieved in a one pot bioprocess. SEM images revealed valleys and crevices on residues of coculture compared to smoother surfaces in monoculture residues pressing the importance of the synergistic activity of enzymes. Finally, one pot deconstruction process was developed for synthetic polymer PET. First, the PET hydrolase secretion strain was developed by selecting a signal peptide library. The first bis(2-hydroxyethyl) terephthalate (BHET) consolidated bioprocess was developed, which produced a terephthalic acid titer of 7.4 g/L. PET breakdown was successfully demonstrated in in vitro conditions with a TPA titer of 4 g/L. Furthermore, PET breakdown was successfully demonstrated in in situ conditions. Consolidated bioprocesses can be an invaluable approach to waste utilization and making cost-effective processes.

Lithium-ion batteries are widely used for high energy storage systems and most of the commercially manufactured lithium-ion batteries use liquid electrolytes and polymeric separators. However, these electrolytes and polymeric separators pose safety issues under high temperatures and in the event of short circuit which may lead to thermal runaway and cause fire. The application of fire-retardant high salt concentrated electrolytes can be used to address the safety issues that arises in the use of liquid electrolytes, but these electrolytes have high viscosity and low wettability when used on polymeric separators which are commercially used in lithium-ion batteries. To address this issue, zeolite powder has been synthesized and separators were prepared by coating on the electrode using scalable blade coating method. Zeolite separators have higher wettability and electrolyte uptake compared to polymeric separators such as polypropylene (PP) due to their intra-particle micropores. The zeolite separators also have higher porosity compared to PP separators resulting in higher electrolyte uptake and better electrochemical performance of the lithium-ion batteries. Zeolite separators have been prepared using spherical-silicalite and plate-silicalite to analyze the effect of morphology of the particles on the electrochemical performance of the cells. The platesilicalite separators have higher capacity retention during long-term cycling at low Crates and better capacity performance at high C-rates compared to spherical-silicalite. Therefore plate-silicalite is very promising for the development of high-performance safe lithium-ion batteries.

Electrolytes play a critical role in electrochemical devices and applications, and therefore design and development of electrolytes with tailored properties are much desired to accommodate variety of operation requirements. Extreme temperatures are considered as one of the challenging environmental conditions, especially for devices rely on liquid state electrolytes, rendering failure of operations once the electrolyte systems undergo phase transitions. This work focuses on development of low-temperature iodide-containing liquid electrolyte systems, specifically designed for the molecular electronic transducer (MET) sensors in space applications. Utilizing ionic liquids, molecular liquids, and salts, multiple low-temperature liquid electrolytes were designed with enhancements in thermal, transport, and electrochemical properties. Effects of intermolecular interactions were further investigated, revealing correlations between optimization of microscopic dynamics and improvements of macroscopic characteristics. As a result, three low-temperature electrolyte systems were reported utilizing ethylammonium/water, gamma-butyrolactone/propylene carbonate, and butyronitrile as solvent with ionic liquid, 1-butyl-3-methylimidazolium iodide, and lithium iodide salt. Consequently, the liquidus range of these systems have been extended to -108 ˚C, -120 ˚C, and -152 ˚C, respectively, marking the lowest liquidus temperature of liquid electrolytes to the author’s best knowledge. Moreover, transport properties of designed systems were characterized from 25 to -75 ˚C. Effects of selected cosolvent/solvent on evolutions of transport properties were observed, revealing interplay between two governing mechanisms, ion disassociation and ion mobility, and their dominance at different temperatures. Experimental spectroscopy characterization techniques validated the hypothesized intermolecular interactions between solvent-cation and solvent-anion, complimented by computational simulation results on the complex dynamics between constituent ions and molecules. To support MET sensing technology, the essential iodide/triiodide redox were investigated in developed electrolytes. Effects of different molecular solvents on electrochemical kinetics were elucidated, and steady performances were validated under a properly controlled electrochemical window. Optimized electrolytes were tested in the MET sensor prototypes and showcased adequate functionality from calibration. The MET sensor prototype has also successfully detected real-time earthquake with low noise floor during long term testing at ASU seismology facility. The presented work demonstrates a facile design strategy for task-specific electrolyte development, which is anticipated to be further expanded to high temperatures for broader applications in the future.

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.