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.

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.

Climate change is causing hydrologic intensification globally by increasing both the frequency and magnitude of floods and droughts. While environmental variation is a key regulator at all levels of ecological organization, such changes to the hydrological cycle that are beyond the normal range of variability can have strong impacts on stream and riparian ecosystems within sensitive landscapes, such as the American Southwest. The main objective of this study was to investigate how anomalous hydrologic variability influences macroinvertebrate communities in desert streams. I studied seasonal changes in aquatic macroinvertebrate abundances in eleven streams that encompass a hydrologic gradient across Arizona’s Sonoran Desert. This analysis was coupled with the quantification and assessment of stochastic hydrology to determine influences of flow regimes and discrete events on invertebrate community composition. I found high community variability within sites, illustrated by seasonal measures of beta diversity and nonmetric multidimensional scaling (NMDS) plots. I observed notable patterns of NMDS data points when invertebrate abundances were summarized by summer versus winter surveys. These results suggest that there is a difference within the communities between summer and winter seasons, irrespective of differences in site hydroclimate. Estimates of beta diversity were the best metric for summarizing and comparing diversity among sites, compared to richness difference and replacement. Seasonal measures of beta diversity either increased, decreased, or stayed constant across the study period, further demonstrating the high variation within and among study sites. Regime shifts, summarized by regime shift frequency (RSF) and mean net annual anomaly (NAA), and anomalous events, summarized by the power of blue noise (Maximum Blue Noise), were the best predictors of macroinvertebrate diversity, and thus should be more widely applied to ecological data. These results suggest that future studies of community composition in freshwater systems should focus on understanding the cause of variation in biodiversity gradients. This study highlights the importance of considering both flow regimes and discrete anomalous events when studying spatial and temporal variation in stream communities.