Estuarine habitats along the temperate south-eastern shores of Australia are generally made up of salt marsh, mangrove forests and seagrass beds. In urban areas these habitats have been progressively fragmented as a result of population increase and industrial expansion. Salt marshes in particular have been vulnerable to urban expansion and reclamation because of their close proximity to densely populated areas, while mangrove forests have been less often reclaimed because of frequent tidal inundation. The effect of reclamation of salt marshes on the biotic assemblages and functioning of mangrove forests with an adjacent salt marsh, park or bund wall was examined at nine separate locations on the Parramatta River, Sydney NSW. A mensurative approach was used to describe the patterns of distribution and abundance of macro fauna at several temporal and spatial scales. The implications for management are that salt marshes are an integral part of estuaries, and smaller patches of salt marsh are just as important as larger patches in maintaining the diversity of faunal assemblages and ecosystem functioning in mangrove forests in urban areas / Master of Science (Hons)

Estuarine habitats along the temperate south-eastern shores of Australia are generally made up of salt marsh, mangrove forests and seagrass beds. In urban areas these habitats have been progressively fragmented as a result of population increase and industrial expansion. Salt marshes in particular have been vulnerable to urban expansion and reclamation because of their close proximity to densely populated areas, while mangrove forests have been less often reclaimed because of frequent tidal inundation. The effect of reclamation of salt marshes on the biotic assemblages and functioning of mangrove forests with an adjacent salt marsh, park or bund wall was examined at nine separate locations on the Parramatta River, Sydney NSW. A mensurative approach was used to describe the patterns of distribution and abundance of macro fauna at several temporal and spatial scales. The implications for management are that salt marshes are an integral part of estuaries, and smaller patches of salt marsh are just as important as larger patches in maintaining the diversity of faunal assemblages and ecosystem functioning in mangrove forests in urban areas / Master of Science (Hons)

The effect of cattle grazing on the abundance and distribution of vegetation, burrowing crabs (Uca rapax, Uca pugnax, and Sesarma cinereum), marsh periwinkles (Littoraria irrorata), horn snails (Cerithidea pliculosa), and salt marsh snails (Melampus bidentatus) was evaluated over four seasons (summer 2000, fall 2000, winter 2001, and spring 2001) in grazed and ungrazed treatments. A Galveston Island salt marsh adjacent to Snake Island Cove was sampled at five elevations, from the water's edge to the high tidal flats. Data were analyzed for statistical differences using a two-way ANOVA in SAS. Cattle grazing may affect the vegetation and macroinvertebrate communities in salt marshes through trampling and herbivory. Vegetation resources available to other herbivores are decreased by the direct consumption of plant material by cattle. Spartina alterniflora and Salicornia virginica heights were significantly greater in ungrazed treatments than grazed for every season in the edge, upper, and middle elevation zones. Total aerial vegetative cover was also reduced significantly in grazed treatments, with the greatest impact in the edge and upper marsh. In the ungrazed treatments, S. alterniflora stem density was significantly greater in edge elevations, while both S. virginica percent cover and stem density in the edge elevation was greater. Burrowing crab populations were greater in the upper marsh and edge habitat of ungrazed treatments, while significantly greater in most of the middle marsh habitats of the grazed treatment. Size of burrowing crabs was generally significantly greater in ungrazed treatments. Cerithidea pliculosa size decreased in grazed treatments, but population had an overall increase in grazed treatments. Littoraria irrorata had very few differences between treatments, although few specimens were found. Melampus bidentatus populations were too small to evaluate thoroughly. Macroinvertebrate populations could be used to assess the overall health of grazed salt marshes.

The contribution of phytoplankton productivity to higher trophic levels in salt marshes is not well understood. My study furthers our understanding of possible mechanisms controlling phytoplankton productivity, abundance, and community composition in salt marshes. Across three consecutive springs (2001 to 2003), I sampled the upper Nueces Delta in south Texas, a shallow, turbid, salt marsh system stressed by low freshwater inflow and wide ranging salinity (<15 to >300 ppt). Water column productivity and respiration were estimated using a light-dark bottle technique, and phytoplankton biovolume and community composition were determined using inverted light microscopy. To determine their effect on the phytoplankton community, zooplankton and bacterioplankton abundance and several physical parameters were also assessed. Meaningful relationships among the numerous variables evaluated in this study were identified using principal component analysis (PCA). Despite high turbidity, phytoplankton productivity and biovolume were substantial. Resuspension appeared to play a major role in phytoplankton dynamics, as indicated by a positive relationship between ash weight and biovolume that explained up to 46% of the variation in the PCA. Negative relationships between zooplankton grazers and pennate diatoms of optimal sizes for these grazers suggested a functional grazing food chain in this system. Salinity also may have been important in phytoplankton dynamics, whereas nutrients appeared to play a minor role. Salinity increases may have been responsible for a decoupling observed between phytoplankton and grazers during late spring. Findings suggest hypotheses for future studies focused on the role of phytoplankton in salt marshes, particularly those stressed by reduced freshwater inflow and high salinities.

The structure and function of coastal marshes results from a complex interaction of biotic and abiotic processes that continually influence the characteristics of marsh vegetation. A great deal of research has focused on how tidal processes influence vegetation dynamics along the Atlantic coast, but few studies have investigated the influence of similar processes in the marshes along the Gulf of Mexico. This study aims to identify the characteristic vegetation assemblages of the coastal marshes bordering the East Bay of Galveston Bay, Texas, and identify if elevation, inundation frequency and burning frequency are important to their structure. To identify characteristic vegetation assemblages, hierarchical cluster analysis was used. The cluster analysis resulted in seven statistically different vegetation assemblages that were used in diversity analysis and classification and regression analysis (CART) as dependent variables. Diversity measures were calculated at both the plot and assemblage scale using Shannon's diversity index and species richness. The resulting diversity measures were used as predictor variables in the CART analysis as well as regression analysis. Hydrologic modeling was accomplished using Mike 21, a flow and wave simulation model, along with a geographic information system (GIS), to model hourly inundation frequency at each of the sampled plots. The inundation frequency was then used as a predictor variable in the CART analysis and regression analysis. This study found that the main factor contributing to species richness was elevation. Vegetation assemblages at high elevations generally had high diversity, and assemblages at low elevations had lower diversity. Elevation and inundation frequency are inversely related, and the strong correlation between species richness and elevation also assumes that inundation frequency is important in structuring the marsh. Burn frequencies had no influence on diversity in general, but more frequent burning did result in monospecific stands of Spartina patens at Anahuac NWR.

Dissolved oxygen (DO) is one of the most important environmental factors necessary to sustain aquatic life. The Southern Grand River is characterized with extensive marshes. This study focuses on the Dunnville Marsh in the Southern Grand River. The spatial and temporal variation in dissolved oxygen was studied in the Dunnville Marsh and the Grand River over a one year cycle during 2007 to 2008. Dunnville Marsh exhibited little influence on the oxygen regime of the river. The Grand River; however, could influence the oxygen regime in the marsh during the spring when waters are high but exerts little influence during the rest of the year. There were no great differences in DO between the wetland and the river during the high water spring melt period; however notable differences occurred in the summer and fall. Oxygen stable isotopes and diel O2 measurements showed that ecological factors probably were influencing the DO cycle in Dunnville Marsh, whereas both ecological and weather factors influenced the cycle in the Grand River. Monthly δ18O-DO data from the river revealed a shift towards atmospheric equilibrium compared to the wetland. These data exhibited less photosynthetic activity in the fall and more photosynthetic activity during the summer. The wetland showed higher photosynthetic activities in the summer than the river. Nitrogen input from the agricultural areas was low at most of the time and had minimal influence on the DO in the Dunnville Marsh. Despite low nitrogen input the attenuation ability of the Dunnville Marsh was apparent, presumably due to plant uptake, especially in the northern part of the marsh. Based on the δ18O-water signature in late April (after the flood season) it appears river water extended about two-thirds along the main stream well into Dunnville Marsh. River water, probably inundates a significant part of the Dunnville Marsh in early April (flood peak), when water flow was more than 10 fold higher than later in April following the peak flood season. River water can be intruded into the marsh and brought the DO to similar saturations as in the river in spring.

Dissolved oxygen (DO) is one of the most important environmental factors necessary to sustain aquatic life. The Southern Grand River is characterized with extensive marshes. This study focuses on the Dunnville Marsh in the Southern Grand River. The spatial and temporal variation in dissolved oxygen was studied in the Dunnville Marsh and the Grand River over a one year cycle during 2007 to 2008. Dunnville Marsh exhibited little influence on the oxygen regime of the river. The Grand River; however, could influence the oxygen regime in the marsh during the spring when waters are high but exerts little influence during the rest of the year. There were no great differences in DO between the wetland and the river during the high water spring melt period; however notable differences occurred in the summer and fall. Oxygen stable isotopes and diel O2 measurements showed that ecological factors probably were influencing the DO cycle in Dunnville Marsh, whereas both ecological and weather factors influenced the cycle in the Grand River. Monthly δ18O-DO data from the river revealed a shift towards atmospheric equilibrium compared to the wetland. These data exhibited less photosynthetic activity in the fall and more photosynthetic activity during the summer. The wetland showed higher photosynthetic activities in the summer than the river. Nitrogen input from the agricultural areas was low at most of the time and had minimal influence on the DO in the Dunnville Marsh. Despite low nitrogen input the attenuation ability of the Dunnville Marsh was apparent, presumably due to plant uptake, especially in the northern part of the marsh. Based on the δ18O-water signature in late April (after the flood season) it appears river water extended about two-thirds along the main stream well into Dunnville Marsh. River water, probably inundates a significant part of the Dunnville Marsh in early April (flood peak), when water flow was more than 10 fold higher than later in April following the peak flood season. River water can be intruded into the marsh and brought the DO to similar saturations as in the river in spring.

The interactions of sulfate-reducing bacteria and Spartina alterniflora marsh grass have been established using a simulated salt marsh system and these interactions have been quantified using geochemical and molecular tools. Plant activities have a direct influence on mercury methylators and therefore control mercury transformation in the environment. Biogeochemical data show that sulfate and sulfide profiles change seasonally due to plant growth and senescence. Spartina alterniflora impact the two drivers for sulfate and sulfide transformation. The community of sulfate-reducing bacteria serve as the anaerobic driver and transform sulfate to sulfide (sulfate reduction). Sulfate-reducing bacteria have been identified as the principal methylators of mercury (Andersson, et al., 1990; Compeau and Bartha, 1985; Compeau and Bartha, 1984; Blum and Bartha, 1980; Gilmour and Capone). The aerobic driver is dissolved oxygen present in both porewater and plant root exudates, which transform sulfide back to sulfate (sulfide oxidation). Sulfate is not limiting in the vegetated sediment, even at the lower depths. Therefore, although sulfate reduction rates were high when plant activity was high, oxidative processes were also significant in the upper 4-cm of the sediment. In addition, demethylation of methylmercury to ionic Hg(II) in the porewater can occur through oxidative processes (Oremland et al., 1991). Therefore, the significance of sulfide oxidation may have strong implications for methylmercury demethylation in our marsh system.

Given the past history and future risk of storm surge in the United States, alternative storm protection techniques are needed to protect vital sectors of the economy and population, particularly within southeastern Louisiana. It is widely hypothesized that coastal wetlands offer protection from storm surge and wave action, though the extent of this protection is unknown due to the complex physics behind vegetated flow dynamics. This thesis presents numerical modeling results that estimate the relative sensitivity of waves and storm surge to characteristics embodied by coastal wetlands. An idealized grid domain and 400 km2 (20 km by 20 km) marsh feature provide a controlled environment for evaluating marsh characteristics, including bottom friction, elevation, and continuity. Marsh continuity is defined as the ratio of healthy marsh area to open water area within the total wetland area. It is determined that increased bottom friction reduces storm surge levels and wave heights. Through the roughening of the bottom from sandy to covered with tall grass, it is estimated that waves may be dampened by up to 1.2 m at the coast, and peak surge may be reduced by as much as 35%. The lowering of marsh elevation generally increases wave heights and decreases surge levels, as expected. A 3.5 m decrease in marsh elevation results in as much as a 2.6 m increase in wave height, and up to a 15% decrease in surge levels. Reductions in marsh continuity enhance surge conveyance into and out of the marsh. For storms of low surge potential, surge is increased by as much as 70% at the coast due to decreasing marsh continuity from 100% to 50%, while for storms of high surge potential, surge is decreased by 5%. This indicates that for storms of high surge potential, a segmented marsh may offer comparable surge protection to that of a continuous marsh. Wave heights are generally increased within the marsh due to the transmission of wave energy through marsh channels. Results presented in this thesis may assist in the justification of coastal wetland mitigation, and optimize marsh restoration in terms of providing maximum storm protection.

The Lower Keys marsh rabbit (LKMR, Sylvilagus palustris hefneri), a subspecies of marsh rabbit endemic to the Lower Keys, Florida, is threatened with extinction due to extensive coastal development of salt marsh habitats. LKMR recovery is limited by habitat loss and degradation from brush encroachment, predation by freeroaming cats (Felis catus) and raccoons (Procyon lotor), sea-level rise, and hurricanes. This study sought to determine local and landscape factors that influence LKMR metapopulation ecology and dynamics and to evaluate strategies for their recovery. I evaluated the influence of patch and landscape characteristics on LKMR densities, extinction, and colonization rates following Hurricane Wilma, and the response of LKMRs and salt marsh habitats to prescribed fire. I used estimates of population change based on annual monitoring data to validate vital rates, constructed a spatially explicit demographic model to evaluate various levels and spatial configurations of recovery scenarios implemented throughout the LKMRs range, and validated expected changes in parameter estimates using measures of habitat degradation and raccoon activity from known LKMR populations. I found LKMR densities were higher in patches with greater numbers of bunchgrasses and forbs and less edge and lower in patches with higher measures of raccoon activity. In response to a hurricane, I found the distance between LKMR patches and the coast had a negative influence on extinction probability; the distance between an extirpated and occupied LKMR patch had a negative influence on colonization probability and patch size had a positive influence. Adult LKMRs increased as woody cover <0.5 m decreased, herbaceous cover <0.5 m increased, and food availability increased in at least one site following prescribed fire. Model results indicated habitat management actions that improve carrying capacity of local rabbit populations and juvenile survival and control raccoon populations to increase rabbit reproductive rates are effective population recovery strategies. In total, my results provide a conservation planning tool that can be used to select recovery strategies and locations that will maximize benefits to LKMRs, thus improving their viability and recovery.