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.

An understanding of the formation of spatial heterogeneity is important because spatial heterogeneity leads to functional consequences at the ecosystem scale; however, such an understanding is still limited. Particularly, research simultaneously considering both external variables and internal feedbacks (self-organization) is rare, partly because these two drivers are addressed under different methodological frameworks. In this dissertation, I show the prevalence of internal feedbacks and their interaction with heterogeneity in the preexisting template to form spatial pattern. I use a variety of techniques to account for both the top-down template effect and bottom-up self-organization. Spatial patterns of nutrients in stream surface water are influenced by the self-organized patch configuration originating from the internal feedbacks between nutrient concentration, biological patchiness, and the geomorphic template. Clumps of in-stream macrophyte are shaped by the spatial gradient of water permanence and local self-organization. Additionally, significant biological interactions among plant species also influence macrophyte distribution. The relative contributions of these drivers change in time, responding to the larger external environments or internal processes of ecosystem development. Hydrologic regime alters the effect of geomorphic template and self-organization on in-stream macrophyte distribution. The relative importance of niche vs. neutral processes in shaping biodiversity pattern is a function of hydrology: neutral processes are more important in either very high or very low discharge periods. For the spatial pattern of nutrients, as the ecosystem moves toward late succession and nitrogen becomes more limiting, the effect of self-organization intensifies. Changes in relative importance of different drivers directly affect ecosystem macroscopic properties, such as ecosystem resilience. Stronger internal feedbacks in average to wetter years are shown to increase ecosystem resistance to elevated external stress, and make the backward shifts (vegetation loss) much more gradual. But it causes increases in ecosystem hysteresis effect. Finally, I address the question whether functional consequences of spatial heterogeneity feed back to influence the processes from which spatial heterogeneity emerged through a conceptual review. Such feedbacks are not likely. Self-organized spatial patterning is a result of regular biological processes of organisms. Individual organisms do not benefit from such order. It is order for free, and for nothing.

Nitrogen is an essential, often limiting, element for biological growth that can act as a pollutant if present in excess. Nitrogen is primarily transported by water from uplands to streams and eventually to recipient lakes, estuaries, and wetlands, but can be modulated by biological uptake and transformation along these flowpaths. As a result, nitrogen can accumulate in aquatic ecosystems if supply is high or if biological retention is low. Dryland and urban ecosystems offer interesting contrasts in water supply, which limits transport and biological activity in drylands, and nitrogen supply that increases with human activity. In my dissertation, I ask: What is the relative balance among nitrogen retention, removal, and transport processes in dryland watersheds, and what is the fate of exported nitrogen? My dissertation research demonstrates that water is a major control on where and when nitrogen is retained and removed versus exported to downstream ecosystems. I used a mass-balance model based on synoptic surveys to study seasonal and spatial patterns in nitrate loading to a dryland stream network. I found that irrigation diversions transport nitrate from agricultural areas to the stream network year-round, even during dry seasons, and are an important driver of nitrate loading. I further explored how seasonal precipitation influences flood nutrient export in an intermittent desert stream by coupling long-term data of flood-water chemistry with stream discharge and precipitation data. I found that higher precipitation prior to a flood fills water storage sites in the catchment, leading to larger floods. In addition, higher antecedent precipitation stimulates biological nitrogen retention in the uplands, leading to lower nitrogen concentration in floods. Finally, I evaluated the consequences of nitrogen export from watersheds on how urban wetlands attenuate nitrate through denitrification that permanently removes nitrogen, and dissimilatory nitrate reduction to ammonium (DNRA) that retains nitrogen in another biologically reactive form. I found that DNRA becomes proportionally more important with low nitrate concentration, thereby retaining nitrogen as ammonium. Collectively, my dissertation research addresses how dryland and urban ecosystems can be integrated into models of watershed nitrogen cycling.

This study examined crayfish diet within varying hydrologic environment in lotic systems using stable isotope analysis of crayfish and basal resources to add depth to previous findings. Crayfish are numerous and are omnivorous, opportunistic feeders, feeding on invertebrates, vegetation and detritus. Arizona streams stand apart from the Eastern and Northwestern aquatic ecosystems of the United States because Arizona has no native crayfish species. Two species have been introduced and become widely established in Arizona (Orconectes virilis and Procambarus clarkii), with concern for further introduction of crayfish species and more information on how these two species impact the native species in the streams is needed. Previous studies have focused on crayfish abundance with hydrologic variation and crayfish diets within a lentic system, but few have focused on how the diet of consumers varies with hydrologic variability. Crayfish are hardy and have a dramatically increasing population within Arizona and therefore inhabit systems with a wide range of hydrologic variability which may contribute to spatial variability. The results show that crayfish diets do show a significant level of seasonal variation in some study locations, in both C source and trophic level. Hydrologic variation was also shown to impact crayfish diet at several study sites, with increasing magnitude of event (both floods and droughts) correlating with a change toward more aquatic C sources and lower trophic position in several of the study sites. In some locations, the correlation was not as strong with variation and diet change and showed less change in C source and rather showed an increase in trophic position.