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Seagrass is a key stone component for the Indian River Lagoon (IRL) ecosystem, and therefore it is an important topic for many studies in the lagoon. This study focuses on the effects of seagrass beds on the hydrodynamics in the IRL. A hydrodynamic model based on the Delft3D modeling system has been developed for the southern IRL including the St. Lucie estuary, Ft. Pierce and St. Lucie Inlets, and adjacent coastal waters. The model is driven by freshwater inputs from the watershed, tides, meteorological forcing, and oceanic boundary forcing. The model has been systematically calibrated through a series of numerical experiments for key parameters, particularly the bottom roughness, and configuration including heat flux formulation and bottom bathymetry. The model skills were evaluated with quantitative metrics (point-to-point correlation, root-mean-square difference, and mean bias) to gauge the agreements between model and data for key variables including temperature, salinity, and currents. A three-year (2013-2015) simulation has been performed, and the results have been validated with available data including observations at HBOI Land-Ocean Biogeochemistry Observatory (LOBO) stations and in situ measurements from various sources. The validated model is then used to investigate the effects of 1) model vertical resolution (total number of model vertical layers), 2) spatial variability of surface winds, and 3) seagrass beds on the simulated hydrodynamics. The study focuses on the vicinity of Ft. Pierce Inlet, where significant seagrass coverage can be found. A series of numerical experiments were performed with a combination of different configurations. Overall, the experiment with 2-dimensional (2-D) winds, ten vertical layers and incorporating seagrass provided the most satisfactory outcomes. Overall, both vertical resolution and spatial variability of surface winds affect significantly the model results. In particular, increasing vertical resolution improves model prediction of temperature, salinity and currents. Similarly, the model with 2-D winds yields more realistic results than the model forced by 0-D winds. The seagrass beds have significant effects on the model results, particularly the tidal and sub-tidal currents. In general, model results show that both tidal and sub-tidal currents are much weaker due to increase bottom friction from seagrass. For tidal currents, the strongest impacts lie in the main channel (inter-coastal waterway) and western part of the lagoon, where strong tidal currents can be found. Inclusion of seagrass in the model also improves the simulation of sub-tidal currents. Seagrass beds also affect model temperature and salinity including strengthening vertical stratification. In general, seagrass effects vary over time, particularly tidal cycle with stronger effects seen in flood and ebb tides, and seasonal cycle with stronger effects in the summer than in winter. / Includes bibliography. / Thesis (M.S.)--Florida Atlantic University, 2016. / FAU Electronic Theses and Dissertations Collection

Includes vita. / Title from PDF of title page. / Document formatted into pages; contains 185 pages. / Thesis (Ph.D.)--University of South Florida, 2003. / Includes bibliographical references. / Text (Electronic thesis) in PDF format. / ABSTRACT: Seagrass communities are composed of numerous organisms that depend on water-column nutrients for metabolic processes. The rate at which these organisms remove a nutrient from the water column can be controlled by physical factors such as hydrodynamic regime or by biological factors such as speed of enzyme reactions. The impact of hydrodynamic regime on rates of nutrient uptake for seagrass (Thalassia testudinum) communities and for organisms that comprise the community (seagrass, epiphytes, phytoplankton, and microphytobenthos) was quantified in a series of field flume experiments employing the use of 15N-labeled ammonium and nitrate. Rates of ammonium uptake for the entire community and for seagrass leaves and epiphytes were significantly dependent on bulk velocity, bottom shear stress, and the rate of turbulent energy dissipation. / ABSTRACT: Relationships between uptake rates and these parameters were consistent with mass-transfer theory and suggest that the effect of water flow on ammonium uptake is the same for the benthos as a whole and for the organisms that form the canopy. In addition, epiphytes on the surface of T. testudinum leaves were shown to depress leaf uptake by an amount proportional to the area of the leaf covered by epiphytes. Water flow influenced rates of nitrate uptake for the community and the epiphytes; however, uptake rates were depressed relative to those for ammonium suggesting that uptake of nitrate was also affected by biological factors such as enzyme activity. Epiphytes reduced uptake of nitrate by the leaves; however, the amount of reduction was not proportional to the extent of epiphyte cover, which provided further evidence that nitrate uptake by T. testudinum leaves was biologically limited. / ABSTRACT: As an additional component of the research, hydrodynamic regime of a mixed seagrass and coral community in Florida Bay was characterized using an acoustic Doppler velocimeter. Hydrodynamic parameters estimated from velocity data were used in mass-transfer equations to predict nutrient uptake by the benthos over a range of water velocity. Measured rates of uptake from field flume experiments conducted in the same community confirmed that hydrodynamic data could be used to accurately predict nutrient transport to the benthos under natural flow conditions. / System requirements: World Wide Web browser and PDF reader. / Mode of access: World Wide Web.