<p> Marine Protected Areas (MPA) are broadly used to protect marine ecosystems, restore biomass, and increasingly as tools in fisheries management for benthic stocks. Nevertheless, MPAs are seldom used to target pelagic species due the challenges of designing an effective MPA in a highly dynamic environment. It is believed that highly mobile organisms will get few benefits, since they leave the protected area too frequently. One possible solution is to compensate for such movement with larger MPAs. Nevertheless, uncertainty about the benefits in the face of vagaries about fish movement make it unlikely that such efforts would be successfully pursued. </p><p> Although it is a generally accepted that MPAs provide multiple benefits if well designed, empirical demonstrations of benefits from MPA are hard to obtain. They require long term evaluations, and as a consequence, comparisons between alternative MPA designs are almost nonexistent. Simulation models provide an alternative to empirical approaches that allow tests of designs and forecasts of potential outcomes. To date, most of the simulation models of MPAs have been developed for benthic systems, where simplified assumptions about fish and fisherman movement are reasonable. Fortunately, with the advent of more realistic fish movement models, new approaches are now possible that can combine complex individual-based models of movement, population dynamics and virtual MPA systems. The use of these new complex simulation models can guide the optimization of MPA design to increase both stock sizes and fisheries yields. </p><p> The goal of the research presented in this dissertation is to study the potential of a large MPA to protect a pelagic stock and determine how fish movement characteristics and complex environmental dynamics influence the optimal design criteria for a successful pelagic MPA. The findings are timely given increasing interest in developing large no fishing zones to protect overfished pelagic stocks, especially for those taxa whose distribution spans more than one exclusive economic zone or resides in international waters. For this purpose I implemented a simulation model that incorporates detailed fish movement and their responses to complex environmental forcing to study the effect of fish movement on the efficacy of MPAs of different size and location. (Abstract shortened by ProQuest.)</p>

<p> As eel populations decline worldwide, research tools for scientists and managers to better understand eel populations and dynamics will be vitally important. This research focuses on the relatively understudied silver phase eel, the sexually mature adult life stage that will make the single spawning journey to the oceanic spawning grounds. A non-lethal index of eel maturity was designed based on external measurements and was able to correctly classify individuals into one of seven maturity classes 83% of the time overall, yielding similar results to other non-lethal indices. Habitats above and below barriers to migration, at varying levels of watershed urbanization, and different distances from the ocean were compared in terms of eel maturity, size, age, and parasite parameters. Two methods of bioelectrical impedance analysis (BIA) were evaluated in their ability to estimate eel lipid concentration, a key factor in eel maturity and successful spawning.</p>

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<p> Streams along the Copper River Delta, southcentral Alaska, exhibit contrasting thermal and hydrologic variability associated with being primarily groundwater-fed (GWF) or surface water-fed (SWF). Groundwater-fed streams are predictable both thermally and hydrologically year round, whereas SWF streams are unpredictable and exhibit more variable thermal and hydrologic regimes. These differences may strongly influence aquatic insect community structure and secondary production. Four streams, two GWF and two SWF, were sampled twice monthly from late April 2013 through August 2013 and once seasonally in fall (September) and early winter (November). Aquatic insect community structure differed markedly in both hydrologic types. Taxa richness was significantly higher in SWF (43) than in GWF (39) streams and non-metric multidimensional scaling of community structure revealed two distinct groups corresponding to the two hydrologic types. Total secondary production was higher in GWF than in SWF streams with Orthocladiinae (Diptera: Chironomidae) representing 56% of insect secondary production in GWF streams. Results from this study have strong implications for aquatic insect communities in GWF and SWF streams because of differing susceptibilities of these systems to the potential effects of climate change. Due to their thermal stability, groundwater-fed streams are less likely to be impacted by climate change, whereas SWF streams are thermally variable and more likely to be influenced. The effects of altered aquatic insect communities can cascade to higher trophic levels such as salmon and ultimately impact stream ecosystem function and the ecosystem services they provide.</p>

The purpose of this study is to determine the presence or absence of a typical Krebs cycle metabolism in the primary mycelia of an aquatic streptomycete.