Anthropogenic activities are increasing inorganic nitrogen (N) loadings to lakes in the northern hemisphere. In many boreal lakes phytoplankton are N limited, wherefore enhanced N input may affect the productivity of pelagic food webs. Simultaneously, global change causes increased inflows of terrestrial dissolved organic carbon (DOC) to boreal lakes. Between clear and humic lakes, whole lake primary and consumer production naturally differs. However, research is inconclusive as to what controls pelagic production in these lakes. Further, it is unclear how DOC affects the response of the pelagic food web to enhanced inorganic N availability. The overarching goal of this thesis was to study the effects of inorganic N and organic C for pelagic food webs in boreal lakes. In the thesis, I first identified the main drivers of pelagic production during summer in eight non-manipulated Swedish boreal lakes with naturally low or high DOC. Then I investigated how increased N availability affects the pelagic food chain, and how the response differs with DOC. Therefore, whole lake inorganic N fertilization experiments were conducted in six Swedish boreal lakes across a DOC gradient (low, medium, high) divided into three lake pairs (control, N enriched) with one reference and two impact years. In each lake, I also investigated the response of zooplankton growth using in situ mesocosm experiments excluding planktivores. I found that humic boreal lakes had lower phytoplankton production and biomass than clear water lakes. Further, phytoplankton community composition and food quality differed with DOC. However, high DOC did not reduce pelagic energy mobilization or zooplankton biomass, but promoted a higher dominance of cladoceran relative to copepod species. N addition clearly enhanced phytoplankton biomass and production in the experimental lakes. However, this stimulating N effect decreased with DOC as caused by light limitation. Further, the newly available phytoplankton energy derived from N addition was not efficiently transferred to zooplankton, which indicates a mismatch between producer energy supply and consumer energy use. Indeed, the mesocosm experiment revealed that decreased food quality of phytoplankton in response to N addition resulted in reduced food web performance, especially in clearer lakes. In humic lakes, zooplankton production and food web efficiency were clearly more resilient to N addition. In summary, my thesis suggests that any change in the landscape that enhances inorganic N availability will especially affect pelagic food webs in clear water lakes. In contrast, brownification will result in more lakes being resilient to eutrophication caused by enhanced N deposition.

Shore zones of large rivers are hot spots of biodiversity and contribute significantly to riverine ecosystem functioning. Today, shore degradation and other structural impair-ments like river straightening and channelization are strong impact factors on river ecosystem health. However, we still lack a thorough understanding of how structural shore zone degradation affects benthic community composition and their inherent ecosystem functions. In this thesis I tested the influence of training structure induced environmental factors on benthic macroinvertebrate community composition and the share of non-native species. Moreover, I assessed the community-associated ecosystem functions in terms of secondary production and resource utilization. In the main channel, communities were composed of only a few specialized taxa with low abundances, which contributed little to riverine secondary production. This is probably due to the harsh conditions produced by constantly high flow velocities and relocation of the fine sandy sediment. Main channel habitats were hardly affected by the adjacent training structure. Hence, species compositions and productivities were similar at all investigated main channel sites. By contrast, each of the shore communities was diverse, highly abundant and productive in comparison to the main channel. However, variations between shore structure communities and their ecosystem functions were prominent. One particular training structure, i.e. the off-bankline revetment, bore the most diverse and by far most productive benthic community, which utilized vast total amounts of basal resources (1,323 g DM m-² y-1). Varying sediment compositions, availability of macrophytes and diverse flow velocities, including lentic conditions, were revealed as key factors for increasing biodiversity, secondary production and resource utilization. Allochthonous boulder habitats were generally highly prone to non-native species invasion. Neozoa proved less productive than many native community members and consumed minor relative and total amounts of the prevailing resource pelagic algae. The present quantitative comparison of shore type specific effects on biodiversity, biomass and productivity provides managers with a tool to improve the ecological attributes of large river ecosystems with an unchangeable, impaired macrostructure. In its entirety, this thesis constitutes a sound basis to increase the mechanistic understanding of the way in which shore zone manipulation can affect riverine benthic communities and their associated ecosystem functions. / Die Uferbereiche großer Flüsse sind für die Biodiversität und Funktion dieser Ökosys-teme von enormer Bedeutung. Uferdegradierung und Kanalisierung gehören zu wichti-gen Faktoren, die Flussökosysteme nachhaltig beeinträchtigen. Wie sich anthropogene Umstrukturierungen der Uferbereiche auf die Zusammensetzung benthischer Ge-meinschaften und deren Ökosystemfunktion auswirken ist jedoch weitestgehend unbe-kannt. In dieser Arbeit werden die Effekte von uferspezifischen Habitatfaktoren auf die Komposition des Makrozoobenthos und den Anteil an Neozoen getestet. Zudem wurden die gemeinschaftsassoziierten Ökosystemfunktionen in Bezug auf Sekundärproduktion und Ressourcennutzung erfasst und bewertet. Die benthische Gemeinschaft des Hauptstroms bestand lediglich aus wenigen spezialisierten Arten, welche nur geringfügig zur Gesamtsekundärproduktion des Flusses beitrugen. Dies war vermutlich auf die rauen Bedingungen im Hauptstrom (insbesondere hohe Strömungsgeschwindigkeiten und damit verbundener Sedimenttransport) zurückzuführen. Die Makrozoobenthosgemeinschaften des Hauptroms wurden von den jeweils angrenzenden Ufertypen nicht beeinflusst. Im Gegensatz zum Hauptstrom zeigte jeder der untersuchten Ufertypen hohe Dichten an benthischen Invertebraten wobei sich Zusammensetzung und Funktion der Artengemeinschaften zwischen den Ufertypen stark unterschieden. Dabei brachte das Parallelwerk die diverseste und produktivste Makroinvertebratenfauna hervor, welche enorme Mengen basaler Ressourcen ingestierte (1,323 g DM m-2y-1). Hauptfaktoren für eine Erhöhung von Biodiversität, Sekundärproduktion und Ressourcennutzung waren neben variablen Sedimentzusammensetzungen und Makrophytenbeständen sich oft ändernde Fließgeschwindigkeiten mit lentischen Phasen. Allochthone Steinhabitate waren generell anfällig für die Invasion nicht heimischer Arten. Diese Neozoen waren weniger produktiv als viele heimische Taxa und nutzten nur geringe Mengen pelagischer Algen, welche die meist verfügbare Ressource darstellten. Aus dem ökologischen Vergleich der verschiedenen Ufertypen lassen sich Managementempfehlungen zur Verbesserung des ökologischen Zustandes in Bezug auf Biodiversität und Ökosystemfunktionen ableiten, welche für große Flüsse mit degradierter und unveränderbarer Makrostruktur in Betracht gezogen werden können. In ihrer Gesamtheit liefert diese Arbeit ein fundiertes mechanistisches Verständnis über die Effekte von Ufermanipulationen auf benthische Gemeinschaften und deren assoziierte Ökosystemfunktionen in großen Flüssen.

La mer Méditerranée est un hotspot de biodiversité sous diverses influences où plusieurs perturbations agissent en synergie: réchauffement climatique, perte d'habitats et surpêche menacent la biodiversité marine et perturbent les équilibres écosystémiques. Afin d'assurer une gestion durable des écosystèmes marins côtiers, conformément aux prérogatives de l'Approche Ecosystémique des Pêches, il est nécessaire d'étudier les conséquences de ces perturbations sur les populations exploitées. Or, malgré la multiplicité des études relatives au changement global en Méditerranée, les conséquences écosystémiques de ces changements demeurent mal connues. Dans cette thèse, le Golfe de Gabès a été choisi comme modèle d'étude en raison des nombreuses perturbations qui y sont rencontrées et qui en font l'archétype de tendances plus généralisées en Mer Méditerranée. Cette thèse se propose d'abord de replacer l'écosystème du Golfe de Gabès dans son contexte biogéographique à travers l'étude de la phylobiogéographie des assemblages des poissons côtiers méditerranéens et la modélisation de la structure et du fonctionnement de l'écosystème du Golfe de Gabès. Par la suite, nous proposons de modéliser, en utilisant des modèles de niches écologiques, les modifications potentielles futures des assemblages biogéographiques d'espèces exploitées soumises aux changements climatiques et à la perte d'habitat, ainsi que les conséquences trophiques de ces modifications. En prenant en compte la taxonomie et l'histoire évolutive des espèces, nous avons mis en évidence le niveau de séparation entre les assemblages méditerranéens en proposant une nouvelle délimitation biogéographique du plateau continental. Par ailleurs, l'exploration des dissimilarités phylogénétiques à l'échelle des côtes tunisiennes a mis en évidence quatre zones biogéographiques majeures présentant une faible congruence avec le zonage adopté pour la gestion de la pêche en Tunisie. Les projections des futures aires de répartition des 60 principales espèces exploitées du Golfe de Gabès, grâce à l'implémentation du modèle climatique NEMOMED8, révèlent que pour la fin du siècle, 34 espèces pourraient contracter leurs aires de répartition parmi lesquelles 12 espèces pourraient s'éteindre à l'échelle du Golfe. Par ailleurs, en combinant des scénarios de régression d'herbier et de changement climatique, les projections montrent que les magnitudes des modifications d'aires de répartition induites par le changement climatique sont plus larges que celles résultant de la perte d'habitat. La mise en place d'un modèle trophique Ecopath nous a permis de décrire la structure et le fonctionnement de l'écosystème du Golfe de Gabès et de le comparer avec d'autres écosystèmes méditerranéens exploités. Ce modèle a intégré un large éventail d'espèces depuis le phytoplancton jusqu'aux top-prédateurs ainsi que les principales activités de pêche opérant dans la zone. Les résultats du modèle mettent en évidence que le chalutage benthique est l'activité ayant les conséquences écosystémiques les plus étendues avec un fort impact sur certaines espèces démersales exploitées. Enfin, pour étudier les conséquences trophiques des modifications des distributions spatiales des espèces exploitées, nous avons reconstruit les réseaux trophiques au sein des assemblages d'espèces en nous fondant sur la relation positive liant la taille du prédateur à celle de sa proie. Nous avons ainsi pu prédire les réseaux trophiques actuels et projeter les modifications potentielles de leurs structures. Nous avons constaté qu'une grande partie du Golfe pourrait connaître une augmentation de la connectance et un allongement des voies trophiques moyennes qui s'accompagnent d'une diminution du nombre de proies par prédateur et du nombre de prédateurs par proie. Cette thèse est une ouverture vers la compréhension du rôle de la biodiversité dans le maintien du fonctionnement des écosystèmes. / The Mediterranean Sea is a marine biodiversity hot spot highly affected by several sources of disturbances interacting synergistically: global warming, habitat loss and overfishing threaten marine biodiversity and disrupt the ecosystem balance. To ensure a sustainable management of coastal marine ecosystems according to the Ecosystem Approach to Fisheries, it is necessary to study the ecosystem responses to these disturbances. However, despite the variety of global change studies in Mediterranean areas, ecosystems responses to these changes remain poorly understood and particularly at the southern part of the Mediterranean Sea. In this PhD thesis, the Gulf of Gabes was chosen as study area since it is one of the most affected regions by global change which makes it a mesocosm model of more regional patterns that occur in the Mediterranean Sea. In this study, as a first step, we replaced the Gulf of Gabes in its biogeographic and ecosystem regional context. This was achievied through a phylogenetic-based delineation of biogeographical species pools of coastal Mediterranean fishes and using an ecosystem model to describe its structure and functioning in comparison with other Mediterranean ecosystem model properties. We therefore projected potential future geographic ranges and assemblages composition of biogeographical exploited species pool according to global warming and habitat loss scenarios. Then we assessed their effects on food web structure. Taking into account the taxonomy and inter-species evolutionary relationships, we generate a new bioregionalisation of the continental shelf based on the turnover of lineages. Our results showed that climate is the major driver of species distribution and assemblage's composition. In addition, the exploration of phylogenetic dissimilarity across the Tunisian coast highlighted four major biogeographic areas showing a low spatial congruence with zoning used for fisheries management in Tunisia.Projected range shifts of the 60 main exploited species of the Gulf of Gabes through the implementation of a new climate model (NEMOMED8) revealed that, by the end of the century, 34 species could contract their ranges including 12 species that could become locally extinct across the Gulf of Gabes. Furthermore, by combining Posidonia meadows loss scenarios and climate change projections, our results showed that the magnitudes of the changes range induced by climate change are larger than those resulting from the loss of habitat.The Ecopath mass-balance model allowed us to describe the structure and functioning of the ecosystem of the Gulf of Gabes in comparison with other Mediterranean ecosystems. These models encompass the entire trophic spectrum from phytoplankton to higher trophic levels as well as the main fishing activities in the area. The model results showed that, among the fishing activities studied, bottom trawling was identified as the activity having the widest-ranging impacts across the different functional groups and the largest impacts on some commercially-targeted demersal fish species. Finally, to study the effects of species range shift on food web structure, we used a new methodology to infer trophic interactions between species. Based on the robust relationship between the size of prey and predators, we predicted the current food webs and project potential changes in their structures. We found that a significant portion of the Gulf of Gabes would face an increase of connectance and an extension of trophic pathways in parallel with a decrease in the number of prey per predator and the number of predators per prey. This PhD thesis paves the way towards the understanding of the role of biodiversity in maintaining ecosystem functioning.

O aumento da concentração do dióxido de carbono (CO2) na atmosfera vem causando o aquecimento global e a acidificação dos oceanos (AO), os quais cada vez mais são reconhecidos como importantes condutores de mudanças em sistemas biológicos. A AO tem o potencial de alterar de inúmeras maneiras a dinâmica biogeoquímica do carbono orgânico no oceano, levando a uma mudança na qualidade da matéria orgânica (MO) disponível para os organismos marinhos. Até agora, sabe-se muito pouco sobre como os sedimentos, os organismos que nele vivem e os processos que nele ocorrem vão reagir a mudanças na acidez da água do mar. Na costa brasileira, em especial, o estudo sobre os efeitos das mudanças climáticas nos processos bênticos ainda é incipiente. O presente estudo propôs uma investigação experimental com o intuito de seguir a incorporação do carbono orgânico e seu destino através da comunidade bêntica marinha após a chegada de alimento fresco, em condições atuais e de baixo pH. Nossos resultados indicaram que quando há chegada de MO fresca, a comunidade bêntica presente nos primeiros centímetros do sedimento responde de maneira rápida, incorporando esse material. Na biomassa bacteriana, após 2 dias de experimento, altos valores de incorporação (7283,04 μg13C.m-2) foram detectados. Entre os grupos da macrofauna, poliquetas apresentaram a maior incorporação do traçador e, em 4 dias de experimento, os principais agentes na incorporação do traçador foram Prionospio steenstrupi (51291,9 μg13C.m-2, 0-4 cm), Leodice rubra (20971,5 μg13C.m-2, 0-4 cm) e Poecilochaetus perequensis (6171,8 e 7263,2 μg13C.m-2, em 0-4 e 4-10 cm, respectivamente), além do molusco bivalve Eurytellina nitens (10600,4 μg13C.m-2, 0-4 cm). Quando submetidos a condições de AO, o poliqueta Leitoscoloplos sp. (2,02 μg13C.m-2) e o antozoário Edwarsia sp. (0,16 μg13C.m-2) se destacaram na incorporação do traçador em baixo pH (7,3). Em contrapartida, o molusco Dosinia concentrica (2,77 μg13C.m-2) e o poliqueta Poecilochaetus perequenses (2,68 μg13C.m-2) foram importantes agentes do processamento do carbono orgânico marcado nos primeiros centímetros do sedimento no controle (pH 8,1). Nas comunidades bacterianas, não houve diferenças de incorporação na biomassa entre o controle e o tratamento (6298,7 e 6562,2 μg13C.m-2, respectivamente). Assim, nosso estudo mostrou que eventos episódicos de chegada de alimento fresco vindos de processos que intensificam a produção primária adjacente (i.e., intrusão da ACAS e ressuspensão de sedimentos) nessa região meso-oligotrófica parecem ser essenciais não somente para a manutenção e sobrevivência da comunidade bêntica, mas também para a ciclagem de carbono nesses ambientes relativamente pobres em alimentos. Além disso, em condições de mudanças climáticas, a incorporação e o fluxo do carbono orgânico de parte da macrofauna bêntica pode ser potencialmente afetada pela AO. / Increasing carbon dioxide (CO2) concentration in the atmosphere is causing global warming and ocean acidification (OA) which are increasingly recognized as important drivers of changes in biological systems. The OA has the potential to change in various ways the biogeochemical dynamics of organic carbon in the ocean, leading to a change in the quality of the organic matter (OM) available to marine organisms. So far, very little is known about how the sediments, the organisms that live in it and the processes that occur in it will respond to changes in the acidity of seawater. In the Brazilian coast, in particular, the study on the effects of climate change on benthic processes is still incipient. The present study was an experimental investigation in order to follow the incorporation of organic carbon and its destination over the marine benthic community after the arrival of fresh food, in current conditions and low pH. Our results indicated that when there is arrival of fresh OM, benthic community present in the first few centimeters of sediment responds quickly incorporating this material. In bacterial biomass, after 2 days of experiment, high incorporation values (7283.04 μg13C.m-2) were detected. Among the macrofaunal groups, polychaetes had the highest incorporation of the tracer, and after 4 days of experiment, the key players in the incorporation of the tracer were Prionospio steenstrupi (51291.9 μg13C.m-2, 0-4 cm), Leodice rubra (20971.5 μg13C.m-2, 0-4 cm) and Poecilochaetus perequensis (6171.8 and 7263.2 μg13C.m-2, 0-4 and 4-10 cm, respectively), besides the mollusk bivalve Eurytellina nitens (10600.4 μg13C.m-2, 0-4 cm). Under conditions of OA, the polychaete Leitoscoloplos sp. (2.02 μg13C.m-2) and anthozoa Edwarsia sp. (0.16 μg13C.m-2) stood out in the incorporation of the tracer at low pH (7.3). In contrast, the mollusk Dosinia concentrica (2.77 μg13C.m-2) and the polychaete Poecilochaetus perequenses (2.68 μg13C.m-2) were important agents of processing organic carbon in the first centimeters of sediment in control (pH 8.1). Our results showed that episodic events of fresh food arrival, coming from processes that enhance the primary production (i.e., intrusion of SACW and resuspension of sediment) in this meso-oligotrophic region, appears to be essential not only for the maintenance and survival of benthic community, but also to carbon cycling in these relatively food poor environments. Furthermore, in conditions of climate change, the incorporation and the flow of the organic carbon by part of benthic macrofaunal can be potentially affected by OA.

Le premier objectif de ce travail de thèse était de déterminer quel est le degré de ségrégation écologique entre cinq espèces sympatriques de cétacés odontocètes (i.e. le dauphin commun Delphinus delphis, le marsouin commun Phocoena phocoena, le grand dauphin tursiops truncatus, le dauphin bleu et blanc Stenella coeruleoalba et le globicéphale noir Globicephala melas) fréquentant l’aire marine restreinte et très productive du Nord-Ouest de la Péninsule Ibérique (NOPI). Pour cela, des paramètres chimiques ont été analysés dans les tissus biologiques, en tant que “ méthode alternative ” pouvant refléter de façon précise le régime alimentaire et l’habitat de ces animaux à différents échelles de temps d’intégration, et ainsi compléter les informations apportées par des méthodes plus traditionnelles tels que l’analyse des contenus stomacaux ou des fèces, ou encore les données d’observations en mer. Le second objectif de ce travail était d’évaluer l’état de contamination de ces espèces, pour acquérir une base de données de référence complète les concernant et estimer le risque toxicologique auquel elles peuvent faire face. Dans ce contexte, les éléments traces, les isotopes stables du carbone et de l’azote, et les polluants organiques persistants (POPs) sont les paramètres chimiques qui ont été sélectionnés pour répondre aux objectifs fixés.Dans un premier temps, les paramètres chimiques ont été utilisés comme traceurs écologiques des populations (ou de segments de population), procurant une image du régime alimentaire et de l’habitat des espèces à différentes échelles de temps. Nous avons calculé que le réseau trophique du NOPI avait cinq niveaux trophiques, au sein duquel les espèces étudiées occupaient les plus hautes positions, comprises entre 4,3 à 5,3, et sans qu’il y ait de différence significative de position trophiques entre les espèces. Alors que l’analyse d’un seul paramètre chimique ne permettait pas ségréger les cinq espèces, les informations apportées par l’analyse de plusieurs traceurs de long terme (i.e. rapport des isotopes stables du carbone et de l’azote dans les dents et concentrations de cadmium dans les reins) ont révélé une ségrégation de leur niche écologique dans deux des dimensions possibles (les dimensions trophique et spatiale). Cependant, les variations pouvant survenir d’une année sur l’autre ou saisonnières n’ont pas pu être étudiées, excepté pour le dauphin commun, et un chevauchement temporaire des niches ne peut donc pas être totalement exclu. De plus, nous avons montré que les profils de polychlorobiphényles (PCBs) pouvaient être un traceur pertinent de l’écologie trophique d’espèces taxinomiquement proches, en permettant une séparation fine des espèces telles que le marsouin commun et le dauphin bleu et blanc, d’après les différents profiles d’accumulation de ces deux espèces.Dans un second temps, l’état de contamination des espèces dans la zone d’étude a été évalué. Les concentrations ont été interprétées à la lumière des facteurs biologiques et écologiques pouvant influencer ces concentrations, et la bioaccumulation des éléments traces s’est révélée moins prévisible que celle des POPs. Le grand dauphin et le marsouin commun présentaient les concentrations de PCBs les plus élevées par rapport aux autres cétacés odontocètes du NOPI et par rapport à d’autres individus des eaux adjacentes de l’Atlantique Nord-Est.Les résultats principaux de ce travail de thèse ont mis en évidence la pertinence d’utiliser ces paramètres chimiques comme traceurs écologiques, et leur utilité dans la compréhension de la structure et le fonctionnement des écosystèmes à travers le rôle des prédateurs supérieurs. En combinant ces résultats à des informations concernant les activités anthropiques, ce travail peut contribuer au développement et à l’implémentation de mesures de gestion pour ces cinq espèces de cétacés odontocètes du NOPI. / The first objective of this PhD was to determine the degree of ecological segregation between five sympatric species of toothed whales (i.e. common dolphin Delphinus delphis, harbour porpoise Phocoena phocoena, bottlenose dolphin Tursiops truncatus, striped dolphin Stenella coeruleoalba and long finned pilot whale Globicephala melas) inhabiting a restricted and highly productive area, the North West Iberian Peninsula (NWIP). To this end, chemical parameters analyses were used as an “alternative method” of assessing diet and habitat of these animals over different periods of integration, complementing the information given by traditional methods of investigation such as stomach contents, faeces analyses and field observations. The second objective was to evaluate the contamination status of these species in order to estimate the toxicological risk these populations face and to complete the existing database. In this context, trace elements, carbon and nitrogen stable isotopes, as well as persistent organic pollutants (POPs) were selected as chemical parameters for our investigations.Firstly, the chemical parameters were used as ecological tracers of populations (or parts of populations) by drawing an image of the diet and habitat of the species at different time scales. We estimated that the food web has five trophic levels, with toothed whales occupying the top positions, with no significant difference in trophic positions among them, ranging from 4.3 to 5.3. While the analysis of a single chemical parameter did not completely segregate between the five species, the information gained by combining the analyses of several long-term ecological tracers (i.e. nitrogen and carbon stable isotopes in teeth and renal cadmium concentrations) revealed ecological niche segregation in two dimensions of this niche (the trophic and the spatial dimensions). However, year-to-year or seasonal variations could not be investigated, except for in common dolphin, and thus temporary overlap cannot be excluded. Additionally, we showed that polychlorinated biphenyls (PCBs) profiles could be a relevant tracer of the foraging ecology of taxonomically close species, allowing a fine separation of the species as result of their different patterns. This was particularly clear for the harbour porpoise and striped dolphin.Secondly, the contamination status of the species in this area was evaluated, with concentrations interpreted in the light of biological and ecological factors. But the bioaccumulation of trace elements appeared to be less predictable than that of POPs. Bottlenose dolphins and harbour porpoises were found to have higher PCBs concentrations than the rest of the analysed NWIP toothed whales, as well as those of adjacent NE Atlantic waters.The main results of this PhD highlight the relevance of exploiting these chemical parameters as ecological tracers, as well as their usefulness in the comprehensive study of structure and function of ecosystems through the role of top predators. Combined with the information on anthropogenic activities, this work can also contribute to the development and implementation of management plans and mitigation measures for these five species of toothed whales in the NWIP.

O aumento da concentração do dióxido de carbono (CO2) na atmosfera vem causando o aquecimento global e a acidificação dos oceanos (AO), os quais cada vez mais são reconhecidos como importantes condutores de mudanças em sistemas biológicos. A AO tem o potencial de alterar de inúmeras maneiras a dinâmica biogeoquímica do carbono orgânico no oceano, levando a uma mudança na qualidade da matéria orgânica (MO) disponível para os organismos marinhos. Até agora, sabe-se muito pouco sobre como os sedimentos, os organismos que nele vivem e os processos que nele ocorrem vão reagir a mudanças na acidez da água do mar. Na costa brasileira, em especial, o estudo sobre os efeitos das mudanças climáticas nos processos bênticos ainda é incipiente. O presente estudo propôs uma investigação experimental com o intuito de seguir a incorporação do carbono orgânico e seu destino através da comunidade bêntica marinha após a chegada de alimento fresco, em condições atuais e de baixo pH. Nossos resultados indicaram que quando há chegada de MO fresca, a comunidade bêntica presente nos primeiros centímetros do sedimento responde de maneira rápida, incorporando esse material. Na biomassa bacteriana, após 2 dias de experimento, altos valores de incorporação (7283,04 μg13C.m-2) foram detectados. Entre os grupos da macrofauna, poliquetas apresentaram a maior incorporação do traçador e, em 4 dias de experimento, os principais agentes na incorporação do traçador foram Prionospio steenstrupi (51291,9 μg13C.m-2, 0-4 cm), Leodice rubra (20971,5 μg13C.m-2, 0-4 cm) e Poecilochaetus perequensis (6171,8 e 7263,2 μg13C.m-2, em 0-4 e 4-10 cm, respectivamente), além do molusco bivalve Eurytellina nitens (10600,4 μg13C.m-2, 0-4 cm). Quando submetidos a condições de AO, o poliqueta Leitoscoloplos sp. (2,02 μg13C.m-2) e o antozoário Edwarsia sp. (0,16 μg13C.m-2) se destacaram na incorporação do traçador em baixo pH (7,3). Em contrapartida, o molusco Dosinia concentrica (2,77 μg13C.m-2) e o poliqueta Poecilochaetus perequenses (2,68 μg13C.m-2) foram importantes agentes do processamento do carbono orgânico marcado nos primeiros centímetros do sedimento no controle (pH 8,1). Nas comunidades bacterianas, não houve diferenças de incorporação na biomassa entre o controle e o tratamento (6298,7 e 6562,2 μg13C.m-2, respectivamente). Assim, nosso estudo mostrou que eventos episódicos de chegada de alimento fresco vindos de processos que intensificam a produção primária adjacente (i.e., intrusão da ACAS e ressuspensão de sedimentos) nessa região meso-oligotrófica parecem ser essenciais não somente para a manutenção e sobrevivência da comunidade bêntica, mas também para a ciclagem de carbono nesses ambientes relativamente pobres em alimentos. Além disso, em condições de mudanças climáticas, a incorporação e o fluxo do carbono orgânico de parte da macrofauna bêntica pode ser potencialmente afetada pela AO. / Increasing carbon dioxide (CO2) concentration in the atmosphere is causing global warming and ocean acidification (OA) which are increasingly recognized as important drivers of changes in biological systems. The OA has the potential to change in various ways the biogeochemical dynamics of organic carbon in the ocean, leading to a change in the quality of the organic matter (OM) available to marine organisms. So far, very little is known about how the sediments, the organisms that live in it and the processes that occur in it will respond to changes in the acidity of seawater. In the Brazilian coast, in particular, the study on the effects of climate change on benthic processes is still incipient. The present study was an experimental investigation in order to follow the incorporation of organic carbon and its destination over the marine benthic community after the arrival of fresh food, in current conditions and low pH. Our results indicated that when there is arrival of fresh OM, benthic community present in the first few centimeters of sediment responds quickly incorporating this material. In bacterial biomass, after 2 days of experiment, high incorporation values (7283.04 μg13C.m-2) were detected. Among the macrofaunal groups, polychaetes had the highest incorporation of the tracer, and after 4 days of experiment, the key players in the incorporation of the tracer were Prionospio steenstrupi (51291.9 μg13C.m-2, 0-4 cm), Leodice rubra (20971.5 μg13C.m-2, 0-4 cm) and Poecilochaetus perequensis (6171.8 and 7263.2 μg13C.m-2, 0-4 and 4-10 cm, respectively), besides the mollusk bivalve Eurytellina nitens (10600.4 μg13C.m-2, 0-4 cm). Under conditions of OA, the polychaete Leitoscoloplos sp. (2.02 μg13C.m-2) and anthozoa Edwarsia sp. (0.16 μg13C.m-2) stood out in the incorporation of the tracer at low pH (7.3). In contrast, the mollusk Dosinia concentrica (2.77 μg13C.m-2) and the polychaete Poecilochaetus perequenses (2.68 μg13C.m-2) were important agents of processing organic carbon in the first centimeters of sediment in control (pH 8.1). Our results showed that episodic events of fresh food arrival, coming from processes that enhance the primary production (i.e., intrusion of SACW and resuspension of sediment) in this meso-oligotrophic region, appears to be essential not only for the maintenance and survival of benthic community, but also to carbon cycling in these relatively food poor environments. Furthermore, in conditions of climate change, the incorporation and the flow of the organic carbon by part of benthic macrofaunal can be potentially affected by OA.

Entre les fleuves Amazone et Orénoque, la frange côtière atlantique de l’Amérique du Sud (1500 km) est considérée comme la plus vaseuse au monde, conséquence des apports de sédiments en suspension de l’Amazone. Malgré la forte variabilité et l’instabilité de ces vasières uniques au monde, elles apparaissent comme des écosystèmes très productifs et sont des habitats clés dans l’accomplissement du cycle de vie des espèces de poissons et d’oiseaux qui les exploitent. Cependant, les connaissances sur les communautés biologiques qui y sont associées restent au niveau exploratoire. Ce travail de thèse vise donc à décrire la structure de l’endofaune benthique intertidale des vasières guyanaises et à définir son fonctionnement dans des environnements vaseux tropicaux très instables. Comme prévu, la forte instabilité des sédiments a entraîné une très faible diversité des assemblages de la macrofaune et de la méiofaune. Néanmoins, les communautés benthiques des vasières guyanaises ont montré une abondance remarquablement élevée avec la dominance d'espèces opportunistes de petites tailles. 39 taxons de la macrofaune ont été trouvés tandis que la méiofaune était moins diversifiée avec la présence de 34 taxons. Le tanaidacée Halmyrapseudes spaansi et le polychète Sigambra grubii sont les deux espèces de macrofaune les plus abondantes, largement réparties le long de la côte guyanaise. De même, le nématode Pseudochromadora spp., suceur d’épistrate, et Halomonhystera sp. 1 (non deposit feeders) étaient les deux espèces de méiofaune les plus abondantes sur chacune des stations. La distribution des communautés benthiques sont spécifiques aux sites d’étude et varie saisonnièrement. Les assemblages en zone estuarienne (Sinnamary) étaient plus diversifiées que dans la zone de vasière nue (Awala), alors que les abondances des communautés benthiques étaient toujours plus élevées en saison humide qu’en saison sèche. Les facteurs abiotiques et biotiques ont influencé significativement les communautés benthiques. Néanmoins, les changements dans la structure de la communauté benthique induits par la disponibilité des sources alimentaires (chl a) et la pression de prédation étaient tout aussi importantes que les variations des assemblages imposées par les paramètres abiotiques (teneur en eau, salinité ...). En particulier, une forte corrélation a été trouvée entre la méiofaune et le microphytobenthos. Les mesures isotopiques de différents compartiments des vasières ont non seulement révélé le rôle central du microphytobenthos dans la composition du régime alimentaire de la méiofaune, mais ont également montré l'importance écologique de la méiofaune comme principale source de nourriture pour les petits oiseaux limicoles et les poissons côtiers. La méiofaune et le microphytobenthos rentrent dans le régime alimentaire de trois poissons côtiers en grande proportion, alors que les oiseaux limicoles migrateurs présentaient une plus grande diversité de proies. Cependant, la contribution relative des tanaidacées dans le régime alimentaire des oiseaux limicoles était étonnamment faible. Le travail de thèse a permis d'améliorer notre compréhension de la structure de l’endofaune benthique intertidale des vasières guyanaises et de définir son fonctionnement dans des environnements vaseux tropicaux très instables. Ce travail a permis de construire, pour la première fois, un modèle conceptuel de réseau trophique des vasières intertidales mobiles guyanaises. / Locating between the Amazon and Orinoco Rivers, the 1500 km-long Atlantic coastline of South America are considered as the muddiest areas in the world due to the large discharge of suspended sediment from the Amazon. Despite the extreme morphodynamics of these ecosystems, the Guianas mudflats are important feeding zones for many shorebirds and fish. However, the state of knowledge on benthic organisms associated with these highly unstable environments is still at an exploratory stage. This study, therefore, aims to describe the structure and dynamics of the intertidal benthic infauna in the Guianas mudflats and to define its functioning in such highly unstable tropical muddy environments. As expected, the high instability of the sediment resulted in very low diversity of both macrofauna and meiofauna assemblages. Nonetheless, the infauna communities of the Guianas mudflats showed remarkably high abundance with the predominance of small-sized opportunistic species. A total of 39 operational taxonomic units of macrofauna was recorded while meiofauna was less diverse with the occurrence of 34 taxa. The tanaid Halmyrapseudes spaansi and the polychaeta Sigambra grubii are the two most abundant macrofauna species, which widely distributed along the Guianas coast. Likewise, the nematodes epistrate feeder Pseudochromadora spp. and non-deposit feeders Halomonhystera sp. 1 were the principal components of meiofauna communities in every station. The distribution patterns of the infauna were both site-specific and seasonal variation. The assemblages in estuarine habitat were more diverse than in the bare mudflat habitat, while infauna abundances in the WS were always higher than in the DS. Both abiotic and biotic factors significantly influenced the benthic communities. Nevertheless, the changes in benthic community structure induced by food source availability (chl a) and predation pressure were more prominent than the assemblage variations imposed by abiotic parameters (mud content, salinity…). Particularly, the tight coupling between meiofauna and MPB was observed in both distribution patterns and trophic structures. The isotopic measurements of different intertidal compartments not only revealed the pivotal role of MPB on structuring meiofaunal coummunities, but also indicated the ecological importance of meiofauna as the main food source for the small shorebirds and coastal fish. Meiofauna and MPB entered the diet of three coastal fish in great proportion, whereas the migrating shorebirds showed a wider diet breadth. The isotopic ratios were perfectly matched with the feeding guilds assigned by morphological features. However, the relative contribution of tanaids to the top epibenthic predators were surprisingly lower than expected. The thesis has increased our understanding of the Guianas infauna communities, and revealed for the first time a conceptual food web model of these unique intertidal mudflats.

Climate change and increasing anthropogenic activities are causing rapid changes to environmental and ecological processes in the Arctic Ocean. To better understand these changes, scientists have increased research efforts in these regions, but to date the number of studies on Arctic nearshore habitats are lacking. My dissertation responds to the paucity of information and investigates patterns in Arctic nearshore fish communities and food webs to gain insight to how these ecosystems may shift as these changes continue. I used multivariate statistical analysis to examine patterns in community structure and composition to determine that Arctic nearshore fish communities are largely driven by prey availability, salinity and temperature; and that species that are more abundant in warmer conditions are likely to increase in abundance as climatic conditions in the Arctic continue to warm. I improved the ability to apply stable isotope methods to Arctic food web studies by determining more appropriate model parameters using a laboratory-based isotope study on a common Arctic nearshore fish, and discuss its potential as a biological monitor species. These new parameters are used to confirm that a shift in prey resource dependence occurs across the seasonal shift from ice-covered winter to open-water summer conditions. Changes in basal resource dependence also occur later in the season across a latitudinal gradient where a shift to dependence on allochtonous inputs from nearby rivers increased trophic diversity. Using isotopic niche space theory, it was determined that the Arctic nearshore has a diverse prey base but that niche spaces of Arctic warm-water and cold-water species do overlap, and if numbers of warm-water fish continue to increase it will likely increase competition for resources for potentially less-adaptable, well-established, cold-water forage fish. On the other hand, if pelagic productivity is expected to increase and support larger fish biomasses, then there will be more than enough resources for warm-water and cold-water species to coexist, thus creating a more diverse prey base for piscivores in the Arctic.

<p>An influence at one trophic level can result in dynamic impacts also on other components of a food web. These dynamics are known as trophic cascades, and can be both top-down and bottom-up. After a near-collapse of the Baltic cod <i>Gadus morhua</i> stock in the 1980s, its main prey sprat <i>Sprattus sprattus</i> increased dramatically. The main food of sprat, marine copepods, decreased during the same time period, likely a combined effect of increased predation pressure from sprat and decreasing salinities. This shortage of food for sprat resulted in decreasing quality of sprat as a food source for common guillemots <i>Uria aalge</i>. However, a recent increase in fishing for sprat has again resulted in better feeding conditions for guillemots.</p><p>Human impacts on this simple food web can be complex. In the early 20th century, marine mammals were abundant and nutrient levels were low in the Baltic Sea. This thesis illustrate that this situation corresponded to lower fish biomass. A reduction of seals early in the century led to reduced top-down control, which resulted in increasing fish stocks. Later, in the 1950s, the largest inflow of salt water during the century mobilized accumulated phosphorus from the deep sediments, which stimulated nitrogen fixation. Combined with increasing anthropogenic nutrient loads, this led to increased primary production and a rapid change from an oligotrophic to a eutrophicated state. This change can be termed a regime shift, which also stimulated fish production. Subsequent over-fishing of cod likely caused a second regime shift, from a cod- to a clupeid- dominated state, which led to the described effects on the common guillemots.</p><p>Several factors affect the life-history of this long-lived seabird. Bycatches in gillnet fisheries is one factor directly affecting guillemot survival, and the proportion of bycatches increased during a period of increasing fishing effort. Surprisingly, avian cholera, a previously undocumented disease in common guillemots, was found at times to cause considerable adult mortality. Common guillemot life-history information can communicate the diversity of factors influencing marine ecosystems – hopefully this can increase our understanding of how complex even "simple" food webs are.</p>

<p>Temporal and spatial variations of pelagic microorganisms in the northern Baltic Sea were studied, as well as factors influencing their abundance and growth rates. Three main questions were asked 1) How does increased productivity influence the structure of the microbial food web? 2) Does predation limitation vary between trophic levels? 3) What is the relative importance of resource and predation limitation at different trophic levels?</p><p>A field study in the northern Baltic Sea showed that dominating protozoa, flagellates and ciliates, increased with increasing primary productivity from north to south. Furthermore, relatively small protozoan cells dominated in the low productive north, while larger cells became more dominant in the south. The relationship between plankton size structure and productivity was further studied in an experimental system. In agreement with present theories regarding nutrient status of pelagic food webs, increased productivity caused a lengthening of the food chain as well as a change in plankton size structure. While microplankton dominated in nutrient rich treatments pico- and nanoplankton dominated during nutrient poor treament. The flagellate community was dominated by a potentially mixotroph, <i>Chrysochromulina</i> sp., at low nutrient concentrations. To our knowledge this is the first experimental study showing that <i>Chrysochromulina</i> sp. in resemblance with other mixotrophs is favoured by nutrient poor conditions compared to strict autotrophs and heterotrophs.</p><p>During a stratified summer period autotrophic microorganisms in the northern Baltic Sea did not respond to removal of potential predators, indicating that they were primarily limited by inorganic nutrients. An exception was small eucaryotic picoplankton that showed a large response to predator removal. Among the heterotrophic microorganisms direct effect of predation seemed to increase from ciliates, heterotrophic bacteria, small heterotrophic flagellates, medium flagellates to large flagellates. No quick indirect effect was observed, but after four days trophic cascades were detected.</p><p>The relative importance of resource and predation limitation was studied among heterotrophic bacteria, flagellates and ciliates in the northern Baltic Sea. For all these groups, resource limitation seemed to prevail during the summer period. The results also indicated that the relative importance of predation increased with the productivity of the system. To our knowledge there are no earlier measurements on the relative importance of resource and predation limitation for micoorganisms in the pelagic environment.</p>