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- All Subjects: Biogeochemistry
- All Subjects: Environmental science
- Genre: Academic theses
- Genre: Masters Thesis
- Creators: Grimm, Nancy
- Creators: Shock, Everett L
- Member of: Theses and Dissertations
Description
Molybdenum (Mo) is a key trace nutrient for biological assimilation of nitrogen, either as nitrogen gas (N2) or nitrate (NO3-). Although Mo is the most abundant metal in seawater (105 nM), its concentration is low (<5 nM) in most freshwaters today, and it was scarce in the ocean before 600 million years ago. The use of Mo for nitrogen assimilation can be understood in terms of the changing Mo availability through time; for instance, the higher Mo content of eukaryotic vs. prokaryotic nitrate reductase may have stalled proliferation of eukaryotes in low-Mo Proterozoic oceans. Field and laboratory experiments were performed to study Mo requirements for NO3- assimilation and N2 fixation, respectively. Molybdenum-nitrate addition experiments at Castle Lake, California revealed interannual and depth variability in plankton community response, perhaps resulting from differences in species composition and/or ammonium availability. Furthermore, lake sediments were elevated in Mo compared to soils and bedrock in the watershed. Box modeling suggested that the largest source of Mo to the lake was particulate matter from the watershed. Month-long laboratory experiments with heterocystous cyanobacteria (HC) showed that <1 nM Mo led to low N2 fixation rates, while 10 nM Mo was sufficient for optimal rates. At 1500 nM Mo, freshwater HC hyperaccumulated Mo intercellularly, whereas coastal HC did not. These differences in storage capacity were likely due to the presence in freshwater HC of the small molybdate-binding protein, Mop, and its absence in coastal and marine cyanobacterial species. Expression of the mop gene was regulated by Mo availability in the freshwater HC species Nostoc sp. PCC 7120. Under low Mo (<1 nM) conditions, mop gene expression was up-regulated compared to higher Mo (150 and 3000 nM) treatments, but the subunit composition of the Mop protein changed, suggesting that Mop does not bind Mo in the same manner at <1 nM Mo that it can at higher Mo concentrations. These findings support a role for Mop as a Mo storage protein in HC and suggest that freshwater HC control Mo cellular homeostasis at the post-translational level. Mop's widespread distribution in prokaryotes lends support to the theory that it may be an ancient protein inherited from low-Mo Precambrian oceans.
ContributorsGlass, Jennifer (Author) / Anbar, Ariel D (Thesis advisor) / Shock, Everett L (Committee member) / Jones, Anne K (Committee member) / Hartnett, Hilairy E (Committee member) / Elser, James J (Committee member) / Fromme, Petra (Committee member) / Arizona State University (Publisher)
Created2011
Description
Hydrology and biogeochemistry are coupled in all systems. However, human decision-making regarding hydrology and biogeochemistry are often separate, even though decisions about hydrologic systems may have substantial impacts on biogeochemical patterns and processes. The overarching question of this dissertation was: How does hydrologic engineering interact with the effects of nutrient loading and climate to drive watershed nutrient yields? I conducted research in two study systems with contrasting spatial and temporal scales. Using a combination of data-mining and modeling approaches, I reconstructed nitrogen and phosphorus budgets for the northeastern US over the 20th century, including anthropogenic nutrient inputs and riverine fluxes, for ~200 watersheds at 5 year time intervals. Infrastructure systems, such as sewers, wastewater treatment plants, and reservoirs, strongly affected the spatial and temporal patterns of nutrient fluxes from northeastern watersheds. At a smaller scale, I investigated the effects of urban stormwater drainage infrastructure on water and nutrient delivery from urban watersheds in Phoenix, AZ. Using a combination of field monitoring and statistical modeling, I tested hypotheses about the importance of hydrologic and biogeochemical control of nutrient delivery. My research suggests that hydrology is the major driver of differences in nutrient fluxes from urban watersheds at the event scale, and that consideration of altered hydrologic networks is critical for understanding anthropogenic impacts on biogeochemical cycles. Overall, I found that human activities affect nutrient transport via multiple pathways. Anthropogenic nutrient additions increase the supply of nutrients available for transport, whereas hydrologic infrastructure controls the delivery of nutrients from watersheds. Incorporating the effects of hydrologic infrastructure is critical for understanding anthropogenic effects on biogeochemical fluxes across spatial and temporal scales.
ContributorsHale, Rebecca Leslie (Author) / Grimm, Nancy (Thesis advisor) / Childers, Daniel (Committee member) / Vivoni, Enrique (Committee member) / York, Abigail (Committee member) / Wu, Jianguo (Committee member) / Arizona State University (Publisher)
Created2013
Description
Climate change is one of the most pressing issues facing humanity, and cities are likely to experience many of the most dangerous effects of climate change. One way that cities aim to adapt to become more resilient to climate change is through the provision of locally produced ecosystem services: the benefits that people get from nature. In cities, these ecosystem services are provided by diverse forms of urban ecological infrastructure (UEI): all parts of a city that include ecological structure and function. While there is a growing body of research touting the multifunctionality of UEI and an increasing number of cities implementing UEI plans, there remain important gaps in understanding how UEI features perform at providing ecosystem services and how the local social-ecological-technological context affects the efficacy of UEI solutions. Inspired by the need for cities to adapt to become more resilient to climate change, this dissertation takes an interdisciplinary approach to understand how diverse UEI features and their ecosystem services are perceived, provided, and prioritized for current and future climate resilience. The second chapter explores how a diverse group of local actors in Valdivia, Chile perceives the city’s urban wetlands and identifies common trade-offs in the perceived importance of different ecosystem services from the wetlands. The third chapter demonstrates species-level differences and trade-offs between common street trees in Phoenix, Arizona in their ability to provide the ecosystem services of both local climate regulation and stormwater regulation. The fourth chapter compares how participatory scenarios from nine cities across the United States and Latin America vary in the degree to which they incorporate UEI and ecosystem services into future visions. The fifth chapter returns focus to Phoenix and illustrates dominant perspectives on the prioritization of ecosystem services for achieving climate resilience and how those priorities change across temporal scales. The dissertation concludes with a synthesis of the previous chapters and suggestions for future urban ecosystem services research. Combined, this dissertation advances understanding of ecosystem services from UEI and highlights the importance of considering trade-offs among UEI features in order help achieve more just, verdant, and resilient urban futures.
ContributorsElser, Stephen Robert (Author) / Grimm, Nancy (Thesis advisor) / Berbés-Blázquez, Marta (Committee member) / Cook, Elizabeth (Committee member) / McPhillips, Lauren (Committee member) / York, Abigail (Committee member) / Arizona State University (Publisher)
Created2022
Description
Terrestrial ecosystems are critical to human welfare and regulating Earth’s life support systems but many gaps in our knowledge remain regarding how terrestrial plant communities respond to changes in climate or human actions. I used field experiments distributed across three dryland ecosystems in North America to evaluate the consequences of changing precipitation and physical disturbance on plant community structure and function. Evidence from experiments and observational work exploring both plant community composition and ecological processes suggest that physical disturbance and precipitation reductions can reduce the diversity and function of these dryland ecosystems. Specifically, I found that aboveground net primary productivity could be reduced in an interactive manner when precipitation reductions and physical disturbance co-occur, and that within sites, this reduction in productivity was greater when growing-season precipitation was low. Further, I found that these dryland plant communities, commonly dominated by highly drought-resistant shrubs and perennial grasses, were not capable of compensating for the absence of these dominant shrubs and perennial grasses when they were removed by disturbance, and that precipitation reductions (as predicted to occur from anthropogenic climate change) exacerbate these gaps. Collectively, the results of the field experiment suggest that current management paradigms of maintaining cover and structure of native perennial plants in dryland systems are well founded and may be especially important as climate variability increases over time. Evaluating how these best management practices take place in the real world is an important extension of fundamental ecological research. To address the research-management gap in the context of dryland ecosystems in the western US, I used a set of environmental management plans and remotely sensed data to investigate how ecosystem services in drylands are accounted for, both as a supply from the land base and as a demand from stakeholders. Focusing on a less-investigated land base in the United States–areas owned and managed by the Department of Defense–I explored how ecosystem services are produced by this unique land management arrangement even if they are not explicitly managed for under current management schemes. My findings support a growing body of evidence that Department of Defense lands represent a valuable conservation opportunity, both for biodiversity and ecosystem services, if management regimes fully integrate the ecosystem services concept.
ContributorsJordan, Samuel (Author) / Grimm, Nancy (Thesis advisor) / Reed, Sasha (Committee member) / Wu, Jianguo (Committee member) / Throop, Heather (Committee member) / Arizona State University (Publisher)
Created2024
Description
Functioning freshwater ecosystems are widely recognized as a planetary boundary for the continued human inhabitation of our planet, but little is known about the tradeoffs at the nexus of food, energy and water. In this dissertation I explored the effects of hydrologic variability in the Lower Mekong Basin (LMB) on rice production and functional structure of fish catches. I then examined the tradeoffs at the intersection of fish and rice harvest as a function of hydrologic variability and modeled production under novel engineered hydrologic scenarios. I modeled rice production using a Multivariate Autoregressive State Space (MARSS) model and mechanistically tested for the effect of saline intrusion. I found rice production to be heterogeneously affected by hydrology; in saline afflicted areas, floods had a positive effect size on production, whereas in non-saline afflicted areas, floods had a negative effect size on production. To address hydrologic filtering of the functional structure of fish catches, I collected thousands of specimens from over 100 LMB species in collaboration with Cambodia’s Inland Fisheries Research and Development institute and the Royal University of Agriculture. LMB fishes comprise a large portion of the 1,200 known species in the basin and have historically provided a substantial amount of animal protein to 60 million people in the region. Using an RLQ, co-inertia analysis, I found four functionally relevant morphological trats that were significantly associated with hydrologic variation—mouth position, maxillary length, relative body depth, and relative head depth. These traits are associated with many of the threated species in the LMB, which make up a large portion of the 1200 known species in the basin and have historically provided a substantial amount of animal protein to 60 million people in the region. To examine the tradeoffs within food systems, I used MARSS maximum likelihood estimation to forecast fish and rice production throughout the LMB under different hydrologic scenarios. I end my dissertation with an opinion piece on NexGen Mekong Scientists, a program I started in 2020 with funding from the United States Department of State.
ContributorsHolway, Joseph Henry (Author) / Sabo, John (Thesis advisor) / Grimm, Nancy (Committee member) / Holtgrieve, Gordon (Committee member) / Winemiller, Kirk (Committee member) / Hanemann, Michael (Committee member) / Arizona State University (Publisher)
Created2024
Description
Dissolved organic matter (DOM) is an important part of aquatic foodwebs because it contains carbon, nitrogen, and other elements required by heterotrophic organisms. It has many sources that determine its molecular composition, nutrient content, and biological lability and in turn, influence whether it is retained and processed in the stream reach or exported downstream. I examined the composition of DOM from vascular wetland plants, filamentous algae, and riparian tree leaf litter in Sonoran Desert streams and its decomposition by stream microbes. I used a combination of field observations, in-situ experiments, and a manipulative laboratory incubation to test (1) how dominant primary producers influence DOM chemical composition and ecosystem metabolism at the reach scale and (2) how DOM composition and nitrogen (N) content control microbial decomposition and stream uptake of DOM. I found that differences in streamwater DOM composition between two distinct reaches of Sycamore Creek did not affect in-situ stream respiration and gross primary production rates. Stream sediment microbial respiration rates did not differ significantly when incubated in the laboratory with DOM from wetland plants, algae, and leaf litter, thus all sources were similarly labile. However, whole-stream uptake of DOM increased from leaf to algal to wetland plant leachate. Desert streams have the potential to process DOM from leaf, wetland, and algal sources, though algal and wetland DOM, due to their more labile composition, can be more readily retained and mineralized.
ContributorsKemmitt, Kathrine (Author) / Grimm, Nancy (Thesis advisor) / Hartnett, Hilairy (Committee member) / Throop, Heather (Committee member) / Arizona State University (Publisher)
Created2018
Description
Utilizing both 16S and 18S rRNA sequencing alongside energetic calculations from geochemical measurements offers a bridged perspective of prokaryotic and eukaryotic community diversities and their relationships to geochemical diversity. Yellowstone National Park hot spring outflows from varied geochemical compositions, ranging in pH from < 2 to > 9 and in temperature from < 30°C to > 90°C, were sampled across the photosynthetic fringe, a transition in these outflows from exclusively chemosynthetic microbial communities to those that include photosynthesis. Illumina sequencing was performed to document the diversity of both prokaryotes and eukaryotes above, at, and below the photosynthetic fringe of twelve hot spring systems. Additionally, field measurements of dissolved oxygen, ferrous iron, and total sulfide were combined with laboratory analyses of sulfate, nitrate, total ammonium, dissolved inorganic carbon, dissolved methane, dissolved hydrogen, and dissolved carbon monoxide were used to calculate the available energy from 58 potential metabolisms. Results were ranked to identify those that yield the most energy according to the geochemical conditions of each system. Of the 46 samples taken across twelve systems, all showed the greatest energy yields using oxygen as the main electron acceptor, followed by nitrate. On the other hand, ammonium or ammonia, depending on pH, showed the greatest energy yields as an electron donor, followed by H2S or HS-. While some sequenced taxa reflect potential biotic participants in the sulfur cycle of these hot spring systems, many sample locations that yield the most energy from ammonium/ammonia oxidation have low relative abundances of known ammonium/ammonia oxidizers, indicating potentially untapped sources of chemotrophic energy or perhaps poorly understood metabolic capabilities of cultured chemotrophs.
ContributorsRomero, Joseph Thomas (Author) / Shock, Everett L (Thesis advisor) / Cadillo-Quiroz, Hinsby (Committee member) / Till, Christy B. (Committee member) / Arizona State University (Publisher)
Created2018
Description
Cities can be sources of nitrate to downstream ecosystems resulting in eutrophication, harmful algal blooms, and hypoxia that can have negative impacts on economies and human health. One potential solution to this problem is to increase nitrate removal in cities by providing locations where denitrification¬— a microbial process in which nitrate is reduced to N2 gas permanently removing nitrate from systems— can occur. Accidental urban wetlands– wetlands that results from human activities, but are not designed or managed for any specific outcome¬– are one such feature in the urban landscape that could help mitigate nitrate pollution through denitrification.
The overarching question of this dissertation is: how do hydrology, soil conditions, and plant patches affect patterns of denitrification in accidental urban wetlands? To answer this question, I took a three-pronged approach using a combination of field and greenhouse studies. First, I examined drivers of broad patterns of denitrification in accidental urban wetlands. Second, I used a field study to test if plant traits influence denitrification indirectly by modifying soil resources. Finally, I examined how species richness and interactions between species influence nitrate retention and patterns of denitrification using both a field study and greenhouse experiment.
Hydroperiod of accidental urban wetlands mediated patterns of denitrification in response to monsoon floods and plant patches. Specifically, ephemeral wetlands had patterns of denitrification that were largely unexplained by monsoon floods or plant patches, which are common drivers of patterns of denitrification in non-urban wetlands. Several plant traits including belowground biomass, above- and belowground tissue chemistry and rooting depth influenced denitrification indirectly by changing soil organic matter or soil nitrate. However, several other plant traits also had significant direct relationships with denitrification, (i.e. not through the hypothesized indirect relationships through soil organic matter or soil nitrate). This means these plant traits were affecting another aspect of soil conditions not included in the analysis, highlighting the need to improve our understanding of how plant traits influence denitrification. Finally, increasing species richness did not increase nitrate retention or denitrification, but rather individual species had the greatest effects on nitrate retention and denitrification.
The overarching question of this dissertation is: how do hydrology, soil conditions, and plant patches affect patterns of denitrification in accidental urban wetlands? To answer this question, I took a three-pronged approach using a combination of field and greenhouse studies. First, I examined drivers of broad patterns of denitrification in accidental urban wetlands. Second, I used a field study to test if plant traits influence denitrification indirectly by modifying soil resources. Finally, I examined how species richness and interactions between species influence nitrate retention and patterns of denitrification using both a field study and greenhouse experiment.
Hydroperiod of accidental urban wetlands mediated patterns of denitrification in response to monsoon floods and plant patches. Specifically, ephemeral wetlands had patterns of denitrification that were largely unexplained by monsoon floods or plant patches, which are common drivers of patterns of denitrification in non-urban wetlands. Several plant traits including belowground biomass, above- and belowground tissue chemistry and rooting depth influenced denitrification indirectly by changing soil organic matter or soil nitrate. However, several other plant traits also had significant direct relationships with denitrification, (i.e. not through the hypothesized indirect relationships through soil organic matter or soil nitrate). This means these plant traits were affecting another aspect of soil conditions not included in the analysis, highlighting the need to improve our understanding of how plant traits influence denitrification. Finally, increasing species richness did not increase nitrate retention or denitrification, but rather individual species had the greatest effects on nitrate retention and denitrification.
ContributorsSuchy, Amanda Klara (Author) / Childers, Daniel L. (Thesis advisor) / Stromberg, Juliet C. (Thesis advisor) / Grimm, Nancy (Committee member) / Hall, Sharon (Committee member) / Sabo, John (Committee member) / Arizona State University (Publisher)
Created2016
Description
Humans have dramatically increased phosphorus (P) availability in terrestrial and aquatic ecosystems. As P is often a limiting nutrient of primary production, changes in its availability can have dramatic effects on ecosystem processes. I examined the effects of calcium carbonate (CaCO3) deposition, which can lower P concentrations via coprecipitation of phosphate, on P availability in two systems: streams in the Huachuca Mountains, Arizona, and a stream, Río Mesquites, in Cuatro Ciénegas, México. Calcium carbonate forms as travertine in the former and within the microbialites of the latter. Despite these differences, CaCO3 deposition led to lowered P availability in both systems. By analyzing a three-year dataset of water chemistry from the Huachuca Mountain streams, I determined that P concentrations were negatively related to CaCO3 deposition rates. I also discovered that CaCO3 was positively correlated with nitrogen concentrations, suggesting that the stoichiometric effect of CaCO3 deposition on nutrient availability is due not only to coprecipitation of phosphate, but also to P-related constraints on biotic nitrogen uptake. Building from these observations, bioassays of nutrient limitation of periphyton growth suggest that P limitation is more prevalent in streams with active CaCO3 deposition than those without. Furthermore, when I experimentally reduced rates of CaCO3 deposition within one of the streams by partial light-exclusion, areal P uptake lengths decreased, periphyton P content and growth increased, and periphyton nutrient limitation by P decreased. In Río Mesquites, CaCO3 deposition was also associated with P limitation of microbial growth. There, I investigated the consequences of reductions in CaCO3 deposition with several methods. Calcium removal led to increased concentrations of P in the microbial biomass while light reductions decreased microbial biomass and chemical inhibition had no effect. These results suggest that CaCO3 deposition in microbialites does limit biological uptake of P, that photoautotrophs play an important role in nutrient acquisition, and, combined with other experimental observations, that sulfate reduction may support CaCO3 deposition in the microbialite communities of Río Mesquites. Overall, my results suggest that the effects of CaCO3 deposition on P availability are general and this process should be considered when managing nutrient flows across aquatic ecosystems.
ContributorsCorman, Jessica R. (Author) / Elser, James J (Thesis advisor) / Anbar, Ariel D (Committee member) / Childers, Daniel L. (Committee member) / Grimm, Nancy (Committee member) / Souza, Valeria (Committee member) / Arizona State University (Publisher)
Created2015
Description
Many acidic hot springs in Yellowstone National Park support microbial iron oxidation, reduction, or microbial iron redox cycling (MIRC), as determined by microcosm rate experiments. Microbial dissimilatory iron reduction (DIR) was detected in numerous systems with a pH < 4. Rates of DIR are influenced by the availability of ferric minerals and organic carbon. Microbial iron oxidation (MIO) was detected from pH 2 – 5.5. In systems with abundant Fe (II), dissolved oxygen controls the presence of MIO. Rates generally increase with increased Fe(II) concentrations, but rate constants are not significantly altered by additions of Fe(II). MIRC was detected in systems with abundant ferric mineral deposition.
The rates of microbial and abiological iron oxidation were determined in a variety of cold (T= 9-12°C), circumneutral (pH = 5.5-9) environments in the Swiss Alps. Rates of MIO were measured in systems up to a pH of 7.4; only abiotic processes were detected at higher pH values. Iron oxidizing bacteria (FeOB) were responsible for 39-89% of the net oxidation rate at locations where biological iron oxidation was detected. Members of putative iron oxidizing genera, especially Gallionella, are abundant in systems where MIO was measured. Speciation calculations reveal that ferrous iron typically exists as FeCO30, FeHCO3+, FeSO40 or Fe2+ in these systems. The presence of ferrous (bi)carbonate species appear to increase abiotic iron oxidation rates relative to locations without significant concentrations. This approach, integrating geochemistry, rates, and community composition, reveals biogeochemical conditions that permit MIO, and locations where the abiotic rate is too fast for the biotic process to compete.
For a reaction to provide habitability for microbes in a given environment, it must energy yield and this energy must dissipate slowly enough to remain bioavailable. Thermodynamic boundaries exist at conditions where reactions do not yield energy, and can be quantified by calculations of chemical energy. Likewise, kinetic boundaries exist at conditions where the abiotic reaction rate is so fast that reactants are not bioavailable; this boundary can be quantified by measurements biological and abiological rates. The first habitability maps were drawn, using iron oxidation as an example, by quantifying these boundaries in geochemical space.
The rates of microbial and abiological iron oxidation were determined in a variety of cold (T= 9-12°C), circumneutral (pH = 5.5-9) environments in the Swiss Alps. Rates of MIO were measured in systems up to a pH of 7.4; only abiotic processes were detected at higher pH values. Iron oxidizing bacteria (FeOB) were responsible for 39-89% of the net oxidation rate at locations where biological iron oxidation was detected. Members of putative iron oxidizing genera, especially Gallionella, are abundant in systems where MIO was measured. Speciation calculations reveal that ferrous iron typically exists as FeCO30, FeHCO3+, FeSO40 or Fe2+ in these systems. The presence of ferrous (bi)carbonate species appear to increase abiotic iron oxidation rates relative to locations without significant concentrations. This approach, integrating geochemistry, rates, and community composition, reveals biogeochemical conditions that permit MIO, and locations where the abiotic rate is too fast for the biotic process to compete.
For a reaction to provide habitability for microbes in a given environment, it must energy yield and this energy must dissipate slowly enough to remain bioavailable. Thermodynamic boundaries exist at conditions where reactions do not yield energy, and can be quantified by calculations of chemical energy. Likewise, kinetic boundaries exist at conditions where the abiotic reaction rate is so fast that reactants are not bioavailable; this boundary can be quantified by measurements biological and abiological rates. The first habitability maps were drawn, using iron oxidation as an example, by quantifying these boundaries in geochemical space.
ContributorsSt Clair, Brian (Author) / Shock, Everett L (Thesis advisor) / Anbar, Ariel (Committee member) / Garcia-Pichel, Ferran (Committee member) / Hartnett, Hilairy (Committee member) / Arizona State University (Publisher)
Created2017