Coral reefs are suffering unprecedented declines in coral cover and species diversity. These changes are often associated with  substantial shifts in community structure to new dominant organisms. Ultimately, these “phase shifts” can be persistent and very difficult to return from. Building insurance against degradation and decreasing the likelihood of reefs undergoing shifts to undesirable states will require sustainable management practices that uphold coral reef resilience. This thesis consists of five papers that contribute new knowledge useful for managing the resilience of coral reefs, and other marine ecosystems. Paper I shows how the morphology of natural substrate (dead coral colonies) can significantly influence coral recruitment patterns. Paper II focuses on larval lipid levels, a key determinant of coral dispersal potential, in a common Caribbean coral (Favia fragum). It shows that i) lipid levels exhibit a significant, non-linear reduction throughout the larval release period of F. fragum and ii) exposure to a common pollutant (copper) could potentially lead to a more rapid lipid consumption in the larvae. Paper III presents a broader analysis of the different undesirable states a coral reef can shift to as a consequence of reef degradation. It concludes that different states are caused by different driving factors and that management must explicitly acknowledge this. Paper IV proposes a suite of resilience indicators that can help managers assess when a coral-dominated reef might be moving towards a shift to an undesirable state. These indicators capture key-processes occuring on different temporal and spatial scales and signal resilience loss early enough for managers to take appropriate measures. Finally, Paper V reviews the feedback loops that reinforce the undesirable states of five important marine ecosystems and suggests certain strategies that can ease the restoration back to healthier conditions. Managing these critical feedbacks will recquire monitoring the processes underpinning these feedbacks, breaking already established feedbacks loops through large-scale management trials and acknowledging transdisciplinary solutions that move management beyond the discipline of ecology / At the time of the doctoral defense, the following papers were unpublished and had a status as follows: Paper 2: Submitted. Paper 5: In progress.

This thesis examines the biology, ecology and anthropogenic threats of Indo-Pacific bottlenose dolphins (Tursiops aduncus) off Zanzibar, Tanzania, based on research conducted and samples collected between 2000 and 2008. Distribution and occurrence are described based on incidental catches (bycatch) in gillnet fisheries. Biology and ecology are examined by ageing and studying the reproductive biology and stomach contents of collected specimens. The composition of organohalogen compounds is determined in blubber samples, and assessment and mitigation of bycatch are conducted using observers onboard fishing vessels. Fisheries bycatch data showed that Indo-Pacific bottlenose dolphins occur year round in all areas around Zanzibar. Sexual maturity was attained between 7 and 8 years and body length 190-200 cm in females and at 16 years and body length 213 cm in males. The gestation period was estimated to be 12.3 months, with calving occurring throughout the year, peaking November-March and with an interval of 2.7 years. The estimated pregnancy rate was between 0.10 and 0.58 depending on methods used. Stomach contents revealed a relatively large number of prey species, but that only a few small- and medium-sized neritic fish and cephalopods contribute substantially to the diet. Estimates of total annual bycatch were >9% which is not considered sustainable. An experiment showed that pingers can be a short term mitigation measure to reduce bycatch of dolphins in both drift- and bottom set gillnets. Methoxylated polybrominated diphenyl ethers (Meo-BDEs) were found at higher concentrations than anthropogenic organic pesticides (OCPs), with only traces of polychlorinated biphenyls (PCBs) detected. This study reveals the magnitude and apparent susceptibility of Indo-Pacific bottlenose dolphins off Zanzibar to anthropogenic threats, especially fisheries bycatch, and it is clear that immediate conservation and management measures are needed to reduce bycatch. / At the time of the doctoral defense, the following papers were unpublished and had a status as follows: Paper 2: Submitted. Paper 4: Manuscript. Paper 5: Submitted.

In the scope of future population support, agricultural productivity, in particular in sub-Saharan Africa, has to increase drastically to meet the UN’s millennium development goals of eradicating extreme poverty and hunger by 2015. Water availability in the root-zone limits crop production in large parts of the developing world. As competition for fresh water increases, water of lower quality, for example saline or polluted water, is often used for irrigation. Low-cost drip systems are suitable for saline water irrigation because they effectuate a minimisation of salt accumulation, leaf burn and peaks in salt concentration. Nonetheless, all types of saline water irrigation contain the risk for causing soil salinisation. Thus, in order to achieve long-term sustainability of these systems, appropriate management strategies are needed. The choice of management practices may be influenced by local conditions such as climate, soil and irrigation water salinity. A litera-ture review showed that there is a potential for saline water irrigation in sub-Saharan Africa in water scarce areas. Low-cost drip irrigation with saline water (6 dS m-1) was successfully used to irrigate two consecutive crops of tomato in semi-arid South Africa. An integrated ecosystems model was developed to simulate long-term yield and salt accumulation in a drip-irrigated agricultural system for a range of salinities, climates and management techniques. Crop, salt and water balance data from two field experiments conducted in Israel and South Africa, respectively, were used to parameterise and test the model. Emphasis was placed on testing the usability of the model as a tool for evaluating the importance of certain plausible management options of low-cost, drip-irrigation systems. Therefore, particular focus was directed towards correctly describing soil salinity stress on plant growth and soil evaporation from a distributed (wetted and dry) surface. In addition, the model was developed to function for different climates without having to change any other parameters or variables except for the actual climatic data. Simulations were subsequently run over a 30-year period to study long-term yield and salt accumulation in the soil profile for two sites in South Africa, demonstrating the applicability of the model. Model simulations showed that high soil salinities reduced crop growth and thus increased both drainage and soil evaporation. Further, covering the soil with a plastic sheet led to a reduction of soil evaporation and a subsequent increase in both transpiration and drainage. Rainfall was crucial for the leaching of salts from the soil, and thus in regions with low levels of rainfall, a higher leaching fraction of supplied saline irrigation water has to compensate for the lack of rain. However, a high leaching fraction also causes large amounts of salt leaching, which could potentially pollute underlying groundwater and downstream ecosystems. This risk can be mitigated using mulching, which minimises non-productive water losses, thereby lowering irrigation water needs. The choice of irrigation water salinity, frequency of irrigation and soil coverage may differ between the farmer and the regional water manager due to different preferences. Furthermore, the study highlighted how environmental variables such as water use efficiency and radiation use efficiency can be used as indicators of system performance. Whereas the latter is first and foremost a general stress indicator, water use efficiency more precisely describes specific factors such as plant size, allocation patterns and evaporative demand, which will affect the exchange of carbon dioxide and water through the stomata. / QC 20101102

Most urban areas of developing countries were hitherto experiencing unprecedented growth in their population, the phenomenon commonly referred to as urbanization, which in this study can be said to be the proportion of urban population relative to the total population of a region. This phenomenon has opportunities vis-à-vis challenges, whose impact on natural resources in general and water resources in particular, cannot be over- emphasized. It is within the context of these urban challenges that this study attempts to look into and possibly assess the situation in the urban and peri- urban areas of Kumasi Metropolitan Area (KMA) in Ghana, whose urbanization processes is prejudiced by this study to be increasing rapidly. The study specifically attempted to assess thechanges in the urbanization patterns and the possible future urbanization trend of the area within a specific time frame. The study also attempts to look at the causes of this urbanization, and its impact on water resources in the Area, both qualitatively and quantitatively, envisaged to be the results of socio-economic activities taking place in the Area. Finally, the study attempts to look into the measures put in place to curb these challenges. Amid paucity of data, however, the study reveals that the most single contributor of urbanization processes in the area has been migration from the countryside, and in particular from the northern part of the country. The study also reveals the fact that even though the general quality standard of some water resources is better, the largely uncontrolled socio-economic activities, coupled with the deplorable sanitary conditions in the KMA, has potential to degrade the water resources in the KMA. In addition, the study reveals that little attention is given, in terms of policy formulation to curb this urbanization processes and to protect water resources in the area.

An understanding of the impacts on freshwater systems from water management and development practices and the recognition that freshwater ecosystems are dependent on various aspects of the natural hydrological variability has given rise to a relatively new field of science commonly referred to as environmental flows. The assessment and application of environmental flows has advanced considerably in the last ten years. To coincide with the emergence and expansion of the environmental flows concept around the world, this survey study was undertaken aiming to identify people’s perceptions and interpretations of the environmental flows concept and its role in water management. It also aims to add to existing knowledge of the extent to which the concept is being applied, how it is being translated into policy and practice and the major challenges and opportunities that exist for continued understanding and implementation. The survey was distributed to a range of people representing different water-related sectors and regions around the world. A total of 272 responses representing 64 countries in the six major regions of the world was received. The responses were compiled and analysis of aspects of the respondents backgrounds as well as the questions were conducted using the computer statistical program SPSS. Representation of specific groups, particularly water user groups, and specific regions in the survey however was low, demonstrating possible limitations of the survey distribution method as well as the lack of concept awareness and application in many parts of the world. The ways in which people define and interpret the concept varied widely. The degree to which the concept was applied shows the growing recognition around the world of the need to consider the environmental water requirements when making decisions on water allocations. Despite the growing recognition many areas do not yet apply the concept. The survey allowed the opportunity for respondents to highlight what they perceived asthe major obstacles and difficulties for the concept within their respective areas. Lack of understanding among stakeholders of the socio-economic costs and benefits associated with concept implementation and a lack of political will were the two most common obstacles for the continued adoption and application of environmental flows around the world. Overall, the survey delivered promising signs for the continued evolution of environmental flows within water management. There was widespread opinion that the concept of environmental flows was an essential element in the efforts to achieve sustainable management of water resources.

The condition of the herring (Clupea harengus) in the Baltic Sea has decreased during the past 30-40 years. This decrease could be explained by different factors; (1) change in diet due to changes in zooplankton community, (2) changes in water temperature and salinity, (3) increasing nutrient inputs and (4) competition for food with other species such as sprat (Sprattus sprattus). In this study the change in condition was analysed using the Fulton’s condition index, and by looking at age and sex of the fish as well as the season and locationthe fish was caught, the differences between these factors were presented. Data from the national Swedish contaminant monitoring programme where used from four locations in the Baltic Sea and two locations at the Swedish West coast. The data was analysed using multiple regressions in R Commander. The result show that the condition, and the temporal trends in condition value, varies at different locations, with higher condition values and increasing temporal trends at the Swedish West coast, compared to the Baltic Sea with lower condition values and where three of four locations show decreasing temporal trends. The condition varied between spring and autumn caught herring as well, while age and sex showed less significant differences.

In the Arctic, shallow sea-floor communities have been documented to shift abruptly from an invertebrate-dominated state to a state with high macroalgal abundance. Climate warming, resulting in increased water temperatures and decreased sea ice cover, could trigger such regime shifts in benthic ecosystems, but the underlying mechanisms are not clear. To gain a better understanding, a mechanistic model of algal growth and interspecific competition was applied in two marine ecosystems in northwestern Svalbard. Unravelling the effects of light and temperature on the model parameters, the current study showed that light is a key factor determining the algal dominance in the two ecosystems. Changes in sea-ice cover, which alters the underwater light regime, is therefore considered the most likely trigger for invertebratealgae regime shifts. A continued prolonging of the ice-free season in the Arctic is likely to occur in the upcoming years, considering the current climatic development. Thus, it is expected that macroalgal cover in shallow rocky-bottom communities will continue to increase, altering species composition and function in seasonally ice-covered arctic ecosystems. / I ekosystem på grunda havsbottnar i Arktis har snabba, kraftiga förändringar i artsammansättning och ekosystemstruktur dokumenterats. Organismsamhällen som tidigare främst utgjorts av ryggradslösa organismer och hårda kalkalger har plötsligt blivit dominerade av olika tångarter. Den globala uppvärmningen medför högre ytvattentemperatur och minskat havsistäcke i Arktis, vilket i sin tur innebär förbättrade ljusförhållanden. Dessa förändringar tros kunna utlösa regimskiften där de ekosystemen övergår från ett stadium dominerat av ryggradslösa djur, till ett stadium dominerat av tång. Mekanismerna bakom sådana regimskiften är emellertid inte kartlagda. Denna studie syftade därför till en bättre förståelse för regimskiften i Arktiska havsbottenekosystem. En mekanistisk modell för algtillväxt och konkurrens tillämpades på två marina organismsamhällen i nordvästra Svalbard, som genomgått sådana regimskiften. Temperatur- och ljusberoendet hos modellens parametrar uppskattades först utifrån kunskap från ett antal tidigare studier. Med hjälp av modellen testades sedan hur fördelningen av alger påverkades av temperatur- och ljusförändringar. Modelleringen indikerade att ljusförhållanden var avgörande för expansionen av tång i de två studerade organismsamhällena på Svalbard, och att ljusförändringar således kan vara en huvudsaklig orsak till regimskiften i Arktis. Med tanke på den nuvarande klimatutvecklingen är en fortsatt förlängning av den isfria säsongen mycket sannolik. Detta kommer troligen innebära en vidare expansion av tång samt förändrad artsammansättning och ekosystemfunktion i grunda, arktiska havsbottenekosystem.

Some of the major problems we face today are human induced changes to the nitrogen (N), phosphorus (P) and carbon (C) cycles. Predicted increases in rainfall and temperature due to climate change, may also increase dissolved organic matter (DOM) inflows to freshwater ecosystems in the boreal zone. N, P, C and light, are essential resources that most often limit phytoplankton (PPr) and bacterial production (BP) in the pelagic zone of lakes. PPr and BP not only constitute the total basal C resource for the pelagic aquatic food web, but also influence ecosystem function and biogeochemical cycles. In this thesis I studied how N, P, C and light affect the relative and absolute rates of PPr and BP, along a wide latitudinal and trophic gradient using published data, and in two in situ mesocosm experiments in a clear water oligotrophic lake. In the experiments I manipulated bottom-up drivers of production and top-down predation to examine how these factors interact to affect pelagic food web structure and function. The most important predictors of PPr globally (Paper I) were latitude, TN, and lake shape. Latitude alone explained the most variation in areal (50%) and volumetric (40%) PPr. In terms of nutrients PPr was primarily N-limited and BP was P-limited. Therefore bacteria and phytoplankton were not directly competing for nutrients. BP:PPr was mostly driven by PPr, therefore light, N, temperature and other factors affecting PPr controlled this ratio. PPr was positively correlated with temperature, but not BP, consequently, higher temperatures may reduce BP:PPr and hence the amount of energy mobilised through the microbial food web on a global scale. In papers II and III interaction effects were found between C-additions and top-down predation by young-of-the-year (YOY) perch. Selective predation by fish on copepods influenced the fate of labile C-addition, as rotifer biomass increased with C-addition, but only when fish were absent. Interaction effects between these top-down and bottom-up drivers were evident in middle of the food web, which is seldom examined in this type of study. Although the energy pathway from bacteria to higher consumers is generally longer than from phytoplankton to higher trophic levels, increased BP still stimulated the biomass of rotifers, calanoid copepods and YOY fish. However, this appeared to be mediated by intermediate bacterial grazers such as flagellates and ciliates. Light was an important driver of crustacean zooplankton biomass (paper IV), but the light:nutrient hypothesis was inadequate to predict the mechanisms behind the decrease in zooplankton biomass at low light. Instead, it appeared that reduced edibility of the phytoplankton community under low light conditions and reduced BP most strongly affected zooplankton biomass. Thus, the LNH may not apply in oligotrophic lakes where PPr is primarily N-limited, Daphnia is rare or absent and mixotrophic phytoplankton are abundant. N, P, C and light manipulations have very different effects on different parts of the pelagic food web. They influence the relative rates of PPr and BP, affect phytoplankton community composition, alter the biomass of higher trophic levels and change pathways of energy transfer through the pelagic food web. This thesis adds valuable information as to how major changes in these resources will affect food web structure and function under different environmental conditions and future climate scenarios. / Lake ecosystem response to environmental change

The minimum ecologically viable population size (MEVP) of a species describes the minimum size at which the species itself or another species in the same ecosystem goes extinct as a result of the loss of inter-specific interactions. The MEVP shows a good potential for use as a tool for exploring the mechanisms behind species extinctions, but presently only a small amount of research has been done that takes advantage of this. In this study the MEVP is used to investigate what properties of species can be used as good indicators of ecological importance. 100 large computer generated food webs were created with an assembly model and the reduction in density that was necessary to induce an extinction event in the web was subsequently determined for each species within the webs. This change in density was then correlated with 28 different properties, measured for each species. The results show that properties that measure how well connected a species is, as well as measures of the species role as a prey item in the web are the ones with the greatest potential to find species with high MEVP. Further, the results put emphasis on the importance of regarding the web as a whole when working with species extinctions, while also highlighting the usefulness of the MEVP concept.

Female reproductive decisions have been suggested to be highly influenced by mate quality. I have studied whether offspring quality may be adjusted by females to match the attractiveness of males and how strong control females have over their reproductive investment focusing on egg size. This was done in the Banggai cardinalfish (Pterapogon kauderni), a sex-role reversed obligate paternal mouthbrooder where males invest heavily into reproduction. As this species is suitable for both laboratory experiments and field studies it is an ideal candidate for the study of reproductive investment. Mating was size-assortative and both males and females benefited from pairing with large partners. However, male size determined the reproductive output of a pair. Females courted large males more intensively and produced larger, but not fewer eggs when mated to large males as compared to small males. Further, this matching of egg size to mate attractiveness may be fast. Female courtship behaviours contained honest information regarding both clutch weight and egg maturity, traits that may be highly important for male mate choice. Surprisingly, males played an important part in territory defence suggesting relatively equal sex-roles in this species. Also, this species showed stable group structures which may be important for the evolution of female plasticity in reproductive investment due to high variance in quality of available mates. This thesis suggest that females have a remarkable control over their reproductive investments and that male quality may be highly influential on reproductive decisions regarding offspring quality. Furthermore, it suggest that sexual selection may have strong effects on the evolution of egg size and parental care on a whole.