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- Genre: Doctoral Dissertation
- Creators: Arizona State University
- Member of: Theses and Dissertations
- Resource Type: Text
- Status: Published
Description
The mutual inhibition between synthetic gene circuits and cell growth produces growth feedback in the host-circuit system. Previous studies have demonstrated that the growth feedback has an marked impact on the molecular dynamics of the host-circuit system. However, the complexity of the growth feedback effect is not fully understood. A theoretical framework was developed to study the dynamics of the coupling between growth feedback and synthetic gene circuits. The study’s results reveal three major points about the impact of growth feedback. First, a nonlinear emergent behavior mediated by growth feedback. The unexpected behavior depends on the dynamic ribosome allocation between gene circuit expression and host cell growth. Second, the emergence and loss of unexpected qualitative states on the host-circuit system generated by ultrasensitive growth feedback. Third, the growth feedback-induced cooperativity behavior in synthetic gene modules competing for resources. In addition, growth feedback attenuated the winner-takes-all rules on resource competition between the two self-activating modules. These results demonstrate that growth feedback plays an important role in the host-circuit system’s molecular dynamics. Characterizing general principles from the effect of growth facilitates the ability to minimize or even harness unexpected gene expression behaviors derived from the effect of growth feedback.
ContributorsMelendez-Alvarez, Juan Ramon (Author) / Tian, Xiaojun (Thesis advisor) / Wang, Xiao (Committee member) / Kuang, Yang (Committee member) / Arizona State University (Publisher)
Created2022
Description
In the recent years, there have been massive technological advancements which have led to increased radical industrialization resulting in a significant impact on the environment. Effluents and by-products of the production processes from industries such as pharmaceutical and personal care products (PPCPs) have increased the concerns of “emerging contaminants” (ECs) in surface waters and drinking water systems. This study focuses on the treatment of emerging chemical contaminants including nitrosodimethylamine (NDMA) and 1,4-dioxane. In addition, the inactivation of microbial contaminants of concern in water including E. coli, Legionella, Mycobacterium and fungal spores were studied using the same treatment technologies. The ECs chosen are not susceptible to conventional treatment process and there still remains a need for alternate processes for their removing/remediating to ensure safe drinking water. The treatment technologies utilized were Advanced Oxidation Processes (AOP) involving UV 220 /254 nm employing an excimer lamp and a low-pressure mercury lamp with ReFLeXTM technology and peracetic acid (PAA). The main objective of this study was to develop a new alternate technology for the enhanced remediation of chemical and microorganisms of concerns in water. The specific research objectives included: 1) To study the efficacy of the UV system to treat the selected contaminants. 2) To study the effect of PAA on the remediation of the contaminants. 3) To explore a new AOP technology under dynamic flow conditions with varying UV and PAA doses. 4) To determine optimized UV and PAA dosages to obtain enhanced remediation of the selected contaminant under dynamic flow conditions to better mimic the real-world applications.
ContributorsNatekar, Sunny Anand (Author) / Abbaszadegan, Morteza (Thesis advisor) / Fox, Peter (Committee member) / Alum, Absar (Committee member) / Diefenthal, George (Committee member) / Arizona State University (Publisher)
Created2021
Description
This thesis focuses on applying wastewater-based epidemiology (WBE) to inform the population health status by studying antimicrobials, polymers, and mental health drugs (antidepressants, benzodiazepines, and Z-drugs) from community ranging in size (1600 to 481,420 people) in near real-time. First, an increasing mass trend of antimicrobials (1,431 ± 22 mg/day/1000 people) in wastewater was found in Arizona, with no evidence suggestive of the possible reintroduction of personal care products banned by the US Food and Drug Administration (FDA) ban during the pandemic (Chapter 2). Second, the use of mental health-related drugs (antidepressants, benzodiazepines, and Z-drugs) was estimated in community wastewater in the US and Mexico during the COVID-19 pandemic and compared against the prescription volume data obtained from the Medicaid database. Average mass consumption rates estimated using WBE ranged between 62 for Temazepam and 1,100 for Clonazepam in units of mg/day/1000 people in the United States. WBE data suggested an increase in Ketamine use (p < 0.05) during the COVID-19 pandemic (2020) relative to pre-pandemic time (2019). However, the volume of Ketamine uses as informed by prescription data did not increase suggesting illegal use of the drug might have increased during the COVID-19 pandemic (Chapter 3). I hypothesize that in addition to mental health drugs and antimicrobials, plastics also increase as a function of pandemic (Chapter 4). This necessitates an understanding of potential analytical challenges, which were investigated in Chapter 4 by conducting a literature review. An inventory of all the municipal wastewater treatment plants globally was created (Chapter 5). This study tabulated about107,000 in 129 countries serving 2.7 billion people (35% of the global population). This analysis suggests that about one-third of the world’s population could be reached by conducting WBE at centralized wastewater treatment plants. This dissertation demonstrates the utility of WBE in fields as diverse as tracking antimicrobials, substance misuse, and unsustainable materials such as plastics. WBE is broadly applicable to populations around the world to aide Sustainable Development Goals. The implementation of WBE in decision level from authority and stakeholders expedite the process of tracking community health against epidemic, infectious diseases and chemical exposure.
ContributorsAdhikari, Sangeet (Author) / Halden, Rolf RUH (Thesis advisor) / Borges, Chad CRB (Committee member) / Hamilton, Kerry KAH (Committee member) / Conroy Ben, Otakuye OCB (Committee member) / Arizona State University (Publisher)
Created2022
Description
This dissertation applies wastewater-based epidemiology (WBE) to aqueous process flows to gauge the public health status concerning exposure and potential abuse of pharmaceuticals, antimicrobials, and narcotics. The masses of emerging contaminants emitted into Indian aquatic and terrestrial environments were the highest for open defecation (17 ± 12 mt/d), with non-steroidal anti-inflammatory drugs dominating environmental loading (14 ± 10 mt/d), followed by antibiotics, antimicrobials, phthalates and miscellaneous pharmaceuticals (Chapter 2). Fourteen wastewater treatment plants sampled across the U.S. had a combined average mass loading of 71 ± 12 µg/d/capita for the antimicrobials triclosan and triclocarban, with paraben compounds contributing 19 ± 5 µg/d/US capita. Risk models showed unfavorable hazard quotients (HQ>1) for sensitive aquatic organisms (algae, zebra fish and rainbow trout) from predicted exposures to antimicrobials of alternative use, i.e., chlorhexidine and benzalkonium chloride (Chapter 3). Substances subject to licit and illicit use, monitored by WBE in a medium-sized southwestern U.S. city before and during COVID-19-related lockdowns, showed the highest mass loads for cocaine and its major metabolite benzoylecgonine (2,207 total), methadone and its major metabolite 2-Ethylidene-1,5-dimethyl-3,3-diphenylpyrrolidine (197), parent mitragynine (60), oxycodone and its major metabolite noroxycodone (48), heroin and its major metabolite 6-acetylmorphine (45), and parent codeine (37) in mg/1,000 capita/day. Heroin use during the lockdown increased ~10-fold relative to the pre-lockdown baseline, whereas oxycodone and codeine mass loading decreased 5-fold and 2.5-fold, respectively (Chapter 4). Experiments elucidating the stability of stress hormones and their metabolites as a function of temperature and in-sewer residence time revealed a rapid degradation to completion over 24 hours at 35°C, whereas lower temperatures of 25°C and 15°C were found to allow for successful tracking of indicators of stress at the population level; statistically significant differences in stress hormone decay rates were observed due to geographic locations at 25°C (p=0.009) but not due to redox conditions in the sewer pipe (Chapter 5). This thesis demonstrated the successful application of WBE for studying population health frequently and inexpensively, with the limitation that a lack of centralized wastewater infrastructure in developing countries may create barriers for at-risk populations to access and utilize this novel technology (Chapter 6).
ContributorsKelkar, Varun Pushkaraj (Author) / Halden, Rolf U (Thesis advisor) / Hamilton, Kerry A (Committee member) / Conroy-Ben, Otakuye (Committee member) / Arizona State University (Publisher)
Created2021
Description
Traditional infrastructure design approaches were born with industrialization. During this time the relatively stable environments allowed infrastructure systems to reliably provide service with networks designed to precise parameters and organizations fixated on maximizing efficiency. Now, infrastructure systems face the challenge of operating in the Anthropocene, an era of complexity. The environments in which infrastructure systems operate are changing more rapidly than the technologies and governance systems of infrastructure. Infrastructure systems will need to be resilient to navigate stability and instability and avoid obsolescence. This dissertation addresses how infrastructure systems could be designed for the Anthropocene, assessing technologies able to operate with uncertainty, rethinking the principles of technology design, and restructuring infrastructure governance. Resilience, in engineering, has often been defined as resistance to known disturbances with a focus on infrastructure assets. Resilience, more broadly reviewed, includes resistance, adaptation, and transformation across physical and governance domains. This dissertation constructs a foundation for resilient infrastructure through an assessment of resilience paradigms in engineering, complexity and deep uncertainty (Chapter 2), ecology (Chapter 3), and organizational change and leadership (Chapter 4). The second chapter reconciles frameworks of complexity and deep uncertainty to help infrastructure managers navigate the instability infrastructure systems face, with a focus on climate change. The third chapter identifies competencies of resilience in infrastructure theory and practice and compares those competencies with ‘Life’s Principles’ in ecology, presenting opportunities for growth and innovation in infrastructure resilience and highlighting the need for satisficed (to satisfy and suffice) solutions. The fourth chapter navigates pressures of exploitation and exploration that infrastructure institutions face during periods of stability and instability, proposing leadership capabilities to enhance institutional resilience. Finally, the dissertation is concluded with a chapter synthesizing the previous chapters, providing guidance for alternative design approaches for advancing resilient infrastructure. Combined, the work challenges the basic mental models used by engineers when approaching infrastructure design and recommends new ways of doing and thinking for the accelerating and increasingly uncertain conditions of the future.
ContributorsHelmrich, Alysha Marie (Author) / Chester, Mikhail V (Thesis advisor) / Grimm, Nancy B (Committee member) / Garcia, Margaret (Committee member) / Meerow, Sara (Committee member) / Arizona State University (Publisher)
Created2021
Description
Halogens in drinking water sources, such as bromine (Br) and iodine (I) pose no direct health risk, but are critical precursors in formation of cyto- and genotoxic brominated and iodinated (Br-/I-) DBPs. However, few spatial or historic datasets exist for bromine and iodine species in drinking water sources. This dissertation aims to quantify and understand the occurrence and speciation of Br and I in groundwater and surface water serving as source waters for drinking water treatment plants (DWTPs). Aggregation of data from >9000 non-drinking water sampling locations in USA collected from 1930-2017 on halides (bromide (Br-) and iodide (I-)) determined that Br- concentrations were 50 μg/L and 100 μg/L; and I- concentrations were 12 μg/L and 13 μg/L in surface and groundwater respectively. Although, these locations were not drinking water sources, this first of its kind analysis provides potential bounds for Br- and I-. To focus specifically on DWTP sources, a nationwide survey of >250 drinking water sources was conducted between 2018-2020. Br- ion is the only bromine specie, whereas both inorganic (iodide and iodate ions) and organic iodine occur. I- concentrations ranged from 1-250 μg/L and are 4 to 100 times lower than Br- concentrations (10-7800 μg/L, median=80 μg/L). No strong correlation exists between bromide and iodide occurrence (R<0.5, p<0.005). I- was detected in 50% of the samples (75th percentile=5 μg/L) and IO3- was detected in 40% (75th percentile=3 μg/L) of all the samples. To quantify iodine species, tandem ion chromatography and inductively coupled plasma mass spectrometry was applied for the first time in drinking water sources. I- and IO3- peaks were well resolved and have minimum detection limit of 0.4 μg/L and 0.7 μg/L respectively. Organic iodine (Org-I) peaks in select drinking water samples from the nationwide survey were partically resolved ranging from <5 to 40 μg/L. This dissertation provides updated nationwide Br- survey and first ever national I species survey. The data generated through this dissertation will be useful to further Br-/I-DBP formation and toxicity research by providing relevant drinking water sources information. Future research targeting Br- and I- removal is advocated for managing Br-/I-DBPs in watersheds.
ContributorsSharma, Naushita (Author) / Westerhoff, Paul (Thesis advisor) / Karanfil, Tanju (Committee member) / Herckes, Pierre (Committee member) / Lackner, Klaus (Committee member) / Arizona State University (Publisher)
Created2021
Description
Synthetic biology (SB) has become an important field of science focusing on designing and engineering new biological parts and systems, or re-designing existing biological systems for useful purposes. The dramatic growth of SB throughout the past two decades has not only provided us numerous achievements, but also brought us more timely and underexplored problems. In SB's entire history, mathematical modeling has always been an indispensable approach to predict the experimental outcomes, improve experimental design and obtain mechanism-understanding of the biological systems. \textit{Escherichia coli} (\textit{E. coli}) is one of the most important experimental platforms, its growth dynamics is the major research objective in this dissertation. Chapter 2 employs a reaction-diffusion model to predict the \textit{E. coli} colony growth on a semi-solid agar plate under multiple controls. In that chapter, a density-dependent diffusion model with non-monotonic growth to capture the colony's non-linear growth profile is introduced. Findings of the new model to experimental data are compared and contrasted with those from other proposed models. In addition, the cross-sectional profile of the colony are computed and compared with experimental data. \textit{E. coli} colony is also used to perform spatial patterns driven by designed gene circuits. In Chapter 3, a gene circuit (MINPAC) and its corresponding pattern formation results are presented. Specifically, a series of partial differential equation (PDE) models are developed to describe the pattern formation driven by the MINPAC circuit. Model simulations of the patterns based on different experimental conditions and numerical analysis of the models to obtain a deeper understanding of the mechanisms are performed and discussed. Mathematical analysis of the simplified models, including traveling wave analysis and local stability analysis, is also presented and used to explore the control strategies of the pattern formation. The interaction between the gene circuit and the host \textit{E. coli} may be crucial and even greatly affect the experimental outcomes. Chapter 4 focuses on the growth feedback between the circuit and the host cell under different nutrient conditions. Two ordinary differential equation (ODE) models are developed to describe such feedback with nutrient variation. Preliminary results on data fitting using both two models and the model dynamical analysis are included.
ContributorsHe, Changhan (Author) / Kuang, Yang (Thesis advisor) / Wang, Xiao (Committee member) / Kostelich, Eric (Committee member) / Tian, Xiaojun (Committee member) / Gumel, Abba (Committee member) / Arizona State University (Publisher)
Created2021
Description
Approximately 71% of the great lakes, lakes, reservoirs, and ponds, together with 51% of rivers and streams assessed in the US are impaired or threatened by pollution or do not meet the minimum water quality requirements. Pathogens, sediments, and nutrients are leading causes of impairment, with agriculture being a top source of pollution. Agricultural pollution has become a global concern overtaking urban contamination as the major factor of inland and coastal waters degradation in many parts of the world. High-yielding crop production has been achieved by the intensive use of inorganic fertilizers that are mainly composed of Nitrogen (N) and Phosphorus (P). N and P are essential nutrients for ecosystem structure, processes, and functions. However, N and P in excess can be problematic to the environment. One of the major impacts of the increasing amount of these nutrients in the environment is the global expansion of harmful algal blooms (HABs). Major agricultural nutrient pollution sources and climate change can exacerbate these risks. This dissertation aims to guide future policies to mitigate issues linked to excess nutrient loads in the U.S. by evaluating the impact of climate change on nutrient loads and assessing the environmental impact as well as the spatial patterns of one of the major agricultural sources of nutrient pollution - Concentrated Animal Feeding Operations (CAFOs). Specifically, I first investigated the impact of bias correction techniques when modeling mid-century nutrient loads in a watershed heavily impacted by CAFOs. Second, I evaluated the role of CAFOs in land use change and subsequent environmental degradation of the surrounding environment. Finally, I assessed the spatial organization of CAFOs and its links to water quality conditions. The findings revealed unique insights for future nutrient management strategies in the U.S.
ContributorsMiralha, Lorrayne (Author) / Muenich, Rebecca L. (Thesis advisor) / Garcia, Margaret (Committee member) / Xu, Tianfang (Committee member) / Myint, Soe W. (Committee member) / Arizona State University (Publisher)
Created2021
Description
Nutrient rich agricultural runoff is a major source of phosphorus (P) and nitrogen (N) loading to surface waters, resulting in eutrophication and harmful algal blooms. The most effective nutrient removal technologies often have cost, land, or operational requirements that limits use in the decentralized areas that need it most. This dissertation investigated combined physical-chemical and microbiological technologies for combined P and N removal from nonpoint sources. Chapter 2 investigated the combination of basic oxygen furnace (BOF) steel slag and woody mulch for P removal by mineral precipitation and N removal by microbial denitrification. When combined with mulch in column experiments, slag with high fines content achieved complete P removal under unsaturated conditions. Batch experiments showed that microbial denitrification occurred under the highly alkaline conditions created by steel slag, but the timescale differential between P and N removal was a critical barrier to combining these treatment technologies. Chapter 3 evaluated a field-scale slag filter to treat agricultural tile drainage and lab-scale column experiments to provide insight on field conditions that impacted P removal. Increases in alkalinity had negative influences on P removal through inhibition of P mineral precipitation by BOF slag, while blast furnace (BF) steel slag was less impacted by alkalinity due to primarily adsorptive P removal. Regeneration strategies were identified based on water quality and slag type.Chapters 4 and 5 explored biological ion exchange (BIEX) as an option for addressing the timescale offset identified in Chapter 1. In Chapter 4 columns fed with dissolved organic matter (DOM) were not regenerated and over 50% DOM removal was observed, with the primary mechanism of removal identified as secondary ion exchange (SIEX)
between sulfate and DOM fractions with high affinities for ion exchange. Chapter 5 aimed to expand BIEX to N treatment through batch denitrification and adsorption experiments, which revealed a positive relationship between molecular weight of organic molecules and their ability to displace nitrate. This work shows that by having an improved understanding of impacted water characteristics, the information presented in this work can be used to select and implement effective treatment technologies for decentralized areas.
ContributorsEdgar, Michael Garrett (Author) / Boyer, Treavor H (Thesis advisor) / Hamdan, Nasser (Committee member) / Delgado, Anca (Committee member) / Arizona State University (Publisher)
Created2022
Description
This dissertation focuses on pretreatment techniques and carbon nanotube (CNT) enabled electrochemical removal for biological and inorganic foulants in desalination reject streams. Specifically, bacterial Pseudomonas aeruginosa biofilm removal and inorganic silica scaling removal in the context of membrane-based water treatment is discussed. Cathodic and anodic conditions are tested for foulant removal, with results indicating that cathodic conditions are preferred for both biological and inorganic fouling. These foulants are chosen due to their abundance in wastewater treatment feeds and their propensity to foul membranes in water treatment processes. The second chapter is a study involving the removal of wetting inducing compounds from a municipal wastewater brine via ultrafiltration, electrooxidation, and foam fractionation pretreatments. Chapters 3 and 4 discuss bench-scale proof of concept experiments with CNT coupons being fouled with biofilm and silica. The pretreated feed is then passed through a direct contact membrane distillation (DCMD) system to evaluate the extent of pore wetting. The results of this work indicate that foam fractionation can successfully reduce pore wetting in DCMD, but fouling still occurs on the MD membranes, highlighting the need for in-situ fouling removal methods as indicated in chapters 3 and 4. The fifth chapter is a study to combine the findings of the previous chapters by fabricating self-cleaning CNT-PVDF membranes for a cross flow bench scale membrane distillation system and analyzing the silica fouling removal capacity of these membranes.
ContributorsRajwade, Kimya (Author) / Perreault, Francois F.P. (Thesis advisor) / Abbaszadegan, Morteza M.A. (Committee member) / Fox, Peter P.F. (Committee member) / Garcia-Segura, Sergio S.G.S. (Committee member) / Arizona State University (Publisher)
Created2023