Invasive aquatic species such as Hydrilla verticillata (hydrilla) have become a pervasive and nearly ineradicable part of the waterways of the American south. Hydrilla is an aggressive colonizer; grows rapidly and rapidly blocks flow areas, which greatly reduces the capacity of water supply canals. Hydrilla grows up through the water column and is present throughout flow zones that are typically assumed to be free flowing and without resistance, other than that transmitted via the mechanics of a Newtonian fluid. Hydrilla is highly flexible and its morphology in the flow field is dependent on many parameters, including flow, growth stage, cross-section geometry and substrate. Traditional methods of calculating canal flow capacities assume that resistance to flow originates at the boundary of the channel. These methods typically attempt to account for vegetation by increasing resistance coefficients, which are associated with the boundary of the canal. A combination of field studies and experimentation in three separate laboratory channels was used to characterize the behavior of hydrilla and its impacts on open-channel flow. This work developed relationships for energy losses of flow within the vegetation, as well as velocity gradients within the vegetation and through the vegetation water interface to the open water. The information developed in this investigation was used to develop a model of the cross-section of flow with vegetation growing in the center of the channel. The model is based on the Prandtlvon Kármán universal-velocity-distribution law; and uses modifications to the method of calculating the hydraulic radius, to account for the increased frictional elements and reduced flow areas in the canal cross-section. A simple function was developed to estimate the remaining flow capacity in a canal as a function of the remaining unblocked area. The Prandtl-von Kármán universal-velocity-distribution law, together with modifications to the method for calculating the hydraulic radius, can improve estimates of the flow in channels impacted by submerged aquatic vegetation. The effects of a broad range of parameters can thus be represented by a relatively simple function, which was developed in this project.

This study combined documentation of four boat propeller scar types in Halodule wrightii seagrass beds in Mosquito Lagoon, Florida with manipulative field experiments to document scar recovery times with and without restoration. Scar types ranged from the most severe scar type (Type 1) with trench formation which had no roots or shoots in the trench, to the least severe (Type 4) scars that had no depth, intact roots and shoots shorter than the surrounding canopy. For 110 measured existing scars, the frequency of each scar type was 56% for Type 1, 10% for Type 2, 7% for Type 3, and 27% for Type 4. In the first manipulative experiment, experimental scars were created to document the natural recovery time of H. wrightii for each scar severity within one year. Type 4 scars recovered to the control shoot density at 2 months, while Types 1, 2, and 3 scars did not fully recover in one year. Mean estimated recovery for H. wrightii is expected in 25 months for Type 1, and 19 months for Types 2 and 3. For the second manipulative experiment, three restoration methods were tested on the Type 1 scars over a 1 year period. Restoration methods included: (1) planting H. wrightii in the scar trench, (2) filling the trench with sand, and (3) filling with sand plus planting H. wrightii. There was complete mortality of all transplants at 2 months and only 25% of scars retained fill sand after 1 year. With dense adjacent seagrass beds, natural recovery was more successful than any of my restoration attempts. Thus, I suggest that managers should concentrate on preventing seagrass destruction rather than restoration.

Biological processes like species interactions and patterns such as abundance and distribution observed in nature can vary depending on the scale at which the subject of interest is evaluated. Knowing that there is no single natural scale at which systems should be studied, in this thesis, I conducted a series of basic and applied ecological approaches in order to examine the phenomena that can occur at different scales of space, time, and ecological organization. Species abundances can vary over large spatial and temporal scales. By studying the habitat use of an abundant species, which uses a wide range of habitats, insights can be gained into how seascape-scales might influence population-level patterns. Similarly, temporal scales might affect the dynamics of species that have complex life cycles where migration is involved. Therefore, in the first study I used an eight-year dataset to conduct a population-level study at broader time- and seascape- scales of an abundant species in Tampa Bay, Florida. The goal of this study was to provide the first in-depth study on the habitat use of Pinfish on the eastern Gulf of Mexico and to provide insights on how seascape-scales can influence their abundance and distribution. Predator-prey interactions can be influenced by habitat at different spatial scales. In seagrass systems, blade density can provide prey refugia at local scales, which are further embedded within the seascape-scale effect of turbidity. In the second study, I used a combination of in situ field experiments and laboratory-controlled experiments to examine and separate the effects of habitat across these local and seascape scales on the relative predation rates of tethered Pinfish (Lagodon rhomboids). The broad-scale analyses indicated that population-level differences, such as abundance patterns and distribution can be influenced by temporal and spatial scales. Field- studies showed that habitat can influence ecological interactions at local- and seascape- scales. Overall, this research demonstrates the importance of using multiple spatial and temporal scale approaches when studying ecology, especially of those organisms that move over large distances and have complex life histories.

Irgarol 1051 is a common antifoulant toxic to certain marine organisms. Submerged aquatic vegetation (SAV) are exposed to this herbicide when it leaches into the marine environment from painted structures, making SAVs ideal candidates to function as sentinel indicator of contamination. In the initial stage of this study, Coconut Grove and Key Largo Harbor were assessed for environmental exposure to Irgarol. Water, sediment and SAVs were collected, the latter two subject to automated solid phase extraction, and all samples analyzed by GC/MS-SIM for Irgarol and its metabolite, M1. Of the vegetation analyzed, Halodule and Syringodium had the highest capacity to bioaccumulate Irgarol and M1. The root system and leaf contributed negligibly and significantly, respectively, to Irgarol uptake. In the final stage, a transplant between Coconut Grove and Chicken Key showed that the biota Thalassia and Halodule were able to uptake and depurate Irgarol, respectively, over a period of 30 days.

Submerged aquatic vegetation (SAV) is an important source of food for waterfowl. Effects of waterfowl grazing on SAV has foremost been studied in freshwater and agricultural ecosystems. This study used drone-based remote sensing to identify waterfowl grazing patterns and quantify the effect their grazing has on SAV in shallow coastal areas in Västerbotten County. Six subareas containing a total of 27 bays were studied in detail. Grazed areas were delimited by polygons in GIS. Using GIS, layers containing water depth, wave exposure and biotope were added to polygons and mean-values were calculated. Field data containing types of SAV were noted in grazed areas and compiled by number of observations. Data was tested in a regression analysis and a X2-test. Results revealed no connection between water depth and wave exposure in regard to the proportion of grazed area. Grazing was identified in 20 out 27 bays and in 41 out of 126 drone images. Field data containing charophytes often overlapped with polygons for grazed areas, but a more systematic collection of data is needed to conclude whether the presence of charophytes is crucial for the choice of grazing area. Shallow coastal areas can have a great variance in SAV species composition from year to year due to ice scraping during winter and yearly land raise. Continuous studies of these areas are therefore needed in order to conclude if changes in SAV species composition is due to abiotic factors or grazing from waterfowl.

Submitted by Jean Medeiros (jeanletras@uepb.edu.br) on 2016-08-19T14:06:23Z No. of bitstreams: 1 PDF - Rayssa Soares da Silva.pdf: 6993577 bytes, checksum: 4b28a1b3bf1dccef7a141f2729ec2180 (MD5) / Made available in DSpace on 2016-08-19T14:06:23Z (GMT). No. of bitstreams: 1 PDF - Rayssa Soares da Silva.pdf: 6993577 bytes, checksum: 4b28a1b3bf1dccef7a141f2729ec2180 (MD5) Previous issue date: 2016-02-04 / Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - CAPES / Seagrass beds are essential habitats for the high biodiversity in coastal environments. They provide nursery, feeding and shelter areas for many organisms. Despite its importance, the seagrass beds are among the most threatened coastal ecosystems on the planet and its influence on fish populations has been little studied in Brazil. The understanding of its influence on the dynamics of fish assemblages associated with these environments and the study of the feeding habits of the species that use them supports the development of new conservation policies of these habitats. Thus, the aim of this study was to compare the composition, structure and feeding ecology of fish assemblages found in vegetated and unvegetated areas on the estuary of the Mamanguape River, Paraiba - Brazil, observing the variations in hydrological conditions between the dry and rainy periods. The values of abundance and biomass were higher in non-vegetated areas, although there was no significant difference in species diversity between study areas. Thus, the environmental stability of unvegetated areas proved to be an important factor in determining the biomass and richness patterns. In addition, it was observed that these areas are used by the species at different stages of their ontogenetic development according to the ratio of optimal foraging and the possibility of refuge from predation. Among the species captured in vegetated and unvegetated áreas on the estuary, the four most representative were selected for analysis of stomach contentes, according to their abundance. Of these, three were considered generalists and showed a high degree of individual specialization, supporting the hypothesis of niche variation proposed by Van Valen. Also, we observed the importance of intraspecific competition and the availability of food items in the intraindividual variation in the diet of the species. / Os bancos de fanerógamas marinhas são habitats essenciais para a elevada biodiversidade em ambientes costeiros, pois constituem áreas de berçário, alimentação e refúgio para diversos organismos. Apesar de sua importância, os bancos de fanerógamas estão entre os ecossistemas costeiros mais ameaçados do planeta e sua influência sobre a ictiofauna foi pouco estudada no Brasil. O entendimento da sua influência sobre a dinâmica das assembleias de peixes associados a estes ambientes e o estudo dos hábitos alimentares das espécies que os utilizam auxilia no desenvolvimento de novas políticas de conservação destes habitats. Deste modo, o objetivo deste estudo foi comparar a composição, estrutura e ecologia alimentar de assembleias de peixes encontradas em áreas vegetadas e não vegetadas do estuário do Rio Mamanguape, Paraíba – Brasil, observando as variações do regime hidrológico entre os períodos seco e chuvoso. Os valores de abundância e de biomassa foram maiores nas áreas não vegetadas, apesar de não haver diferença significativa da diversidade de espécies entre áreas estudadas. Deste modo, a estabilidade ambiental das áreas não vegetadas mostrou -se como fator importante na determinação dos padrões de biomassa e riqueza de espécies. Além disso, foi observado que essas áreas são utilizadas pelas espécies em diferentes fases do seu desenvolvimento ontogenético de acordo com a razão entre o forrageamento ótimo e a possibilidade de refúgio contra a predação. Dentre as espécies capturadas nas áreas vegetadas e não vegetadas do estuário do rio Mamanguape as mais representativas foram selecionadas, de acordo com sua abundância, para análise do conteúdo estomacal. Das quatro espécies, três delas foram consideradas generalistas e apresentaram um alto grau de especialização individual, corroborando com a hipótese da variação de nicho proposta por Van Valen. Além disso, observou-se a importância da competição intraespecífica e da disponibilidade de itens alimentares na variação intraindividual da dieta das espécies.

The numerous benefits that wetlands provide make them essential to ecosystem services and ecological functions. Historically, wetland losses have been caused by natural and anthropogenic changes. In Texas, nearly 50% of coastal wetland habitat has been lost since the 1930s and losses in the Lower Neches watershed have been some of the most extensive. Restoration is a way to mitigate these losses and can be accomplished in many ways. Each restoration design creates different aquatic habitats that can influence both submerged aquatic vegetation (SAV) and faunal communities. The restoration of the Lower Neches Wildlife Management Area (LNWMA) has created the conditions for the growth of the invasive submerged macrophyte, Myriophyllum spicatum (Eurasian watermilfoil) which may be competing with the native aquatic grass, Ruppia maritima (widgeongrass) for essential nutrients. In this study, an attempt was made to link restoration design with both SAV and aquatic fauna community structures by using a throw trap to characterize assemblages observed in three different types of restored marshes. We also performed two controlled mesocosm experiments in 0.5 gal aquariums to determine growth inhibition by M. spicatum on R. maritima. Analyses using Kruskal-Wallis non-parametric test determined that temporal variations in fauna and SAV community composition was greater than any restoration effect. Discriminant Function Analyses (DFAs) determined two to three key faunal species that best predicted association among restoration designs, but linear regressions could not determine any consistent relationship between individual species density and biomass of the dominant SAV species, M. spicatum. For the mesocosm experiments, M. spicatum inhibited the biomass production and branch count of R. maritima when the two species are grown together (ANOVA, p = 0.004 and 0.003, respectively). Changes in SAV assemblages due to competition and habitat characteristics could play a major role in determining faunal community. In order to minimize the temporal effect observed and better determine any habitat pattern that may be present, a much longer study is necessary.

The role of mangroves as essential fish habitat has been a focus of extensive research. However, recent evidence has shown that this role should not be evaluated in isolation from surrounding habitats such as seagrass beds and hard-bottom communities. For example, submerged aquatic vegetation (SAV) communities provide potential sources of food and shelter for fish species that may reside in the mangroves, but may also undergo ontogenetic migrations and daily home-range movements into neighboring habitats. The connectivity between the mangrove fish community and the surrounding seascape may be influenced by the level of patchiness, fragmentation, and spatial heterogeneity of adjacent SAV habitats (i.e., SAV seascape structure). The spatial patterns and heterogeneity of SAV seascape structures are driven by internal and external regulatory mechanisms operating at different spatial and temporal scales. In addition, it is likely that many fish species inhabiting the mangrove zones have different home ranges, and foraging and migratory patterns; therefore, different mangrove fish species may respond to seascape heterogeneity at different scales. There are few studies that have assessed the influence and connectivity of benthic habitats adjacent to mangroves for estuarine fish populations at multiple scales. The present research used an exploratory seascape approach in Biscayne Bay (Florida, USA) to evaluate patterns in the patch composition and configuration of SAV communities, and to examine relationships between seascape structural metrics and the abundance, diversity, and distribution of fishes that utilize the adjacent mangrove shoreline as nursery and/or adult habitat. This seascape approach consisted of: a) the multi-scale characterization of the SAV distribution across the seascape with metrics developed in Landscape Ecology, Geographic Information Systems and Remote Sensing; b) multivariate analyses to identify groups with significantly distinct SAV seascape structures within the most heterogeneous scale, and identify possible mechanisms driving the observed SAV seascape structures; and c) an assessment of the mangrove fish community responses to SAV seascape structures. By applying a set of multivariate analyses (e.g., ANOSIM, MDS plots, hierarchical clustering), the buffer within 200 m from shore was identified as the scale with the highest structural heterogeneity. At this scale, two major SAV seascape structures (i.e., areas with similar SAV spatial arrangement and composition) were identified: a fragmented SAV seascape (FSS) structure and a continuous SAV seascape (CSS) structure. Areas with CSS were characterized by large, uniform SAV patches. In contrast, areas with FSS were characterized by a higher density of smaller, more complex SAV patches. Furthermore, the areas with CSS and FSS structures clustered in zones of the bay with distinct salinity properties. The areas with CSS structures were mostly located in zones characterized by high and stable salinity. However, the areas with FSS concentrated in zones that are influenced by freshwater discharges from canals and with low and variable salinity. The responses of fish diversity metrics were not constrained to the scale at which the greatest spatial heterogeneity of SAV seascape structures was observed (i.e., the seascape composition and configuration within 200 m from shore), but was related to SAV seascape characteristics across different scales. The majority of the variability of the fish diversity metrics in the mangrove shoreline was explained by SAV seascape structures within the smaller scales (i.e., 100-400 m from shore), and SAV seascape structures that represented the level of fragmentation and/or the percent of suitable habitat. Different conceptual models were proposed to illustrate and understand the ecological dynamics behind the relationship between the diversity of the mangrove fish community and the structure of the adjacent SAV seascape. In general, the diversity and abundance of fishes is influenced by the type and level of fragmentation of the SAV seascape, which, in turn, influence the proportion of the seascape used for foraging and refuge by fish. In conclusion, this research quantified how the release of large pulses of freshwater into near-shore habitats of coastal lagoons can influence the seascape structure of SAV communities. Namely, freshwater inputs produce fragmentation in otherwise fairly homogeneous SAV meadows. The outcome of this research highlights the importance of seascape characteristics as indicators of ecosystem-level modifications and alterations affecting the spatial distribution, assemblage, and diversity of marine nearshore habitats in coastal regions heavily influenced by human activities. In addition, the results illustrated the cascading effects and synergistic influences of near-shore habitat spatial assemblages on the composition and diversity of estuarine fish communities. Lastly, and very importantly, the relationships established in this project provide quantitative and qualitative information on patterns of species-habitat associations needed for the improved synergistic management and protection of coastal habitats and fisheries resources.

Un des enjeux importants de l’écologie est de comprendre comment les pratiques anthropiques affectent la biodiversité et quelles en sont les conséquences sur le fonctionnement des écosystèmes. L’objectif de cette thèse est d’améliorer la compréhension des mécanismes régissant les communautés végétales aquatiques, et plus particulièrement ceux liés aux perturbations anthropiques et aux phénomènes d’eutrophisation. Les méta-écosystèmes constitués de réseaux d’étangs agro-piscicoles sont des modèles d’étude adaptés à notre problématique car ils sont sous forte pression anthropique et présentent une forte variabilité environnementale. Dans un premier temps, nous avons étudié l’impact des modes de gestion des bassins versants sur l’eutrophisation des étangs. Dans un second temps, nous avons mesuré l’effet de l’eutrophisation sur la productivité et la diversité des communautés phytoplanctoniques. Enfin, nous avons relié 3 types de contraintes générées par les pratiques anthropiques (l’eutrophisation, l’assèchement et la connectivité entre les étangs) sur les communautés de plantes aquatiques en termes de diversité spécifique et fonctionnelle. L’effet de l’eutrophisation, le recrutement et l'établissement des communautés des plantes aquatiques a été abordé au travers de la relation entre la banque de graines et la végétation établie. L’eutrophisation est le facteur majeur responsable de la diminution de la biodiversité végétale dans les étangs. Cependant les perturbations récurrentes constituées par les assecs, engendrent une succession cyclique qui contribue à maintenir une forte biodiversité dans les étangs. / One important issue of research in Ecology is to understand how anthropogenic activities are influencing biodiversity and what are the consequences on ecosystem functioning. The aim of the study is to improve the knowledge of the mechanisms governing aquatic plant communities, particularly those related to human disturbance and eutrophication. Meta-ecosystems constituted by networks of fish-farming shallow lakes are study models adapted to our problematic because they are submitted to a strong anthropogenic pressure and because they show a high environmental variability. First, we studied the impact of watershed management practices on shallow lakes eutrophication. In a second step, we measured eutrophication effect on productivity and on diversity of phytoplankton communities. Finally, we were able to link 3 types of constraints generated by human practices (eutrophication, drying and connectivity between shallow lakes) to aquatic plant communities in terms of specific and functional diversity. The impact of eutrophication, recruitment and establishment of aquatic plant communities has been approached through the relationship between the seed bank and established vegetation. Eutrophication is the major factor responsible for the loss of plant biodiversity in shallow lakes. However frequent disturbances due to drying events induce a cyclic succession that helps maintain a high biodiversity.

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