L’objectif de cette thèse est d’améliorer la compréhension du fonctionnement et de la structure trophique du golfe de Gabès en Tunisie. Afin de concilier exigences écologiques et exploitation des ressources marines, différents modèles écosystémiques ont été développés pour étudier sa dynamique trophique et contribuer à la réflexion sur la mise en place de plans de gestion. Un modèle trophique d’équilibre de masse « Ecospace » a été construit afin d’évaluer les conséquences écosystémiques de différentes mesures de gestion. Les résultats des simulations ont permis d’explorer les interactions entre la pêche côtière et la pêche au chalut benthique et d’identifier des zones où les mesures de gestion sont effectives. Un modèle end-to-end a également été appliqué pour expliciter la dynamique des espèces considérées, depuis le forçage climatique jusqu'à la pêche. Cette approche de modélisation consiste à forcer le modèle individu-centré « OSMOSE » par un modèle biogéochimique « Eco3MMed ». Ce modèle a permis d’établir une représentation cohérente du réseau trophique et de simuler des scénarios de gestion théoriques de mise en réserve. Le modèle end-to-end a également été utilisé pour étudier la sensibilité d’un ensemble d’indicateurs écologiques à la pression de pêche. Les résultats ont révélé que les indicateurs de taille sont les plus adaptés pour faire le suivi de l’impact de la pêche dans le golfe de Gabès. Au final, une approche comparative entre plusieurs écosystèmes méditerranéens a été mise en place avec le modèle EcoTroph pour comparer leurs structures trophiques et explorer les effets de plusieurs niveaux d’exploitation par l’analyse de leurs spectres trophiques. / The objective of this thesis is to improve the understanding of trophic structure and functioning of the gulf of Gabes in Tunisia. In order to reconcile environmental concerns and exploitation of marine resources, different ecosystem models have been developed to study the ecosystem dynamics and contribute to the discussion on the implementation of management plans. A spatial and temporal dynamic model “Ecospace” was built to evaluate the ecosystem consequences of different management measures based on scenarios derived from the current regulation. The results of simulations allowed to investigate the interactions between coastal and benthic trawl fishing and to identify areas where management measures are effective. An end-to-end model has been applied to the gulf of Gabes ecosystem to represent the dynamics of 11 high trophic level species, from climate forcing to fishing.This modelling approach consists in forcing the individual-based model "OSMOSE" by a biogeochemical model "ECO3M-Med". This model allowed to establish a coherent representation of the food web and simulate theoretical management scenarios of spatial fishing closure. The end-to-end model has also been used to study the sensitivity of a set of ecological indicators to fishing pressure. The simulation of different levels of fishing mortality showed that size indicators were the most relevant to monitor the impact of fishing in the gulf of Gabes. Finally, a comparative approach between several Mediterranean ecosystems was applied using the EcoTroph model to compare their trophic structures and explore the effects of different levels of fishing pressure through the analysis of their trophic spectra.

Blastodinium, a genus of the phytoplanktonic dinoflagellates, was found to be inhabiting the gut region of the copepod species Labidocera. Copepods are ubiquitous in aquatic environments, being the most numerous multicellular organisms on planet earth. Being primary consumers, they play important ecological roles, passing energy from one trophic level to the next. As zooplankton, estuarine copepods contribute substantially to carbon cycling as they undergo diurnal migration to avoid daylight UV-B damage and surface water predation. Blastodinium are presumed to infect copepods via ingestion of zoospores by juvenile hosts, who function as microhabitats for acquiring nutrients in non-photosynthetic species or in nutrient-limited environments. Blastodinium may hinder reproduction of copepod hosts, thereby influencing local copepod populations and, by extension, food webs up to humanity. Copepod populations may also help contain disease spread, such as malaria and Dengue fever, through their consumption of mosquito larvae in standing water. Further evaluation of copepods for Blastodinium may help shed light on the limited knowledge of this species and the nature of its relationship with copepods, as well as its effects on copepod populations and the higher order consequences of its parasitism.

Arthropod species that have the potential to damage crops are food resources for communities of predators and parasitoids. From an agronomic perspective these species are pests and biocontrol agents respectively, and the relationships between them can be important determinants of crop yield and quality. The impact of biocontrol agents on pest populations may depend on the availability of other food resources in the agroecosystem. A scarcity of such resources may limit biological control and altering agroecosystem management to alleviate this limitation could contribute to pest management. This is a tactic of ‘conservation biological control’ and includes the provision of flowers for species that consume prey as larvae but require floral resources in their adult stage. The use of flowers for pest management requires an understanding of the interactions between the flowers, pests, biocontrol agents and non-target species. Without this, attempts to enhance biological control might be ineffective or detrimental. This thesis develops our understanding in two areas which have received relatively little attention: the role of flowers in biological control by true omnivores, and the implications of flower use by fourth-trophic-level life-history omnivores. The species studied were the lacewing Micromus tasmaniae and its parasitoid Anacharis zealandica. Buckwheat flowers Fagopyrum esculentum provided floral resources and aphids Acyrthosiphon pisum served as prey. Laboratory experiments with M. tasmaniae demonstrated that although prey were required for reproduction, providing flowers increased survival and oviposition when prey abundance was low. Flowers also decreased prey consumption by the adult lacewings. These experiments therefore revealed the potential for flowers to either enhance or disrupt biological control by M. tasmaniae. Adult M. tasmaniae were collected from a crop containing a strip of flowers. Analyses to determine the presence of prey and pollen in their digestive tracts suggested that predation was more frequent than foraging in flowers. It was concluded that the flower strip probably did not affect biological control by lacewings in that field, but flowers could be significant in other situations. The lifetime fecundity of A. zealandica was greatly increased by the presence of flowers in the laboratory. Providing flowers therefore has the potential to increase parasitism of M. tasmaniae and so disrupt biological control. A. zealandica was also studied in a crop containing a flower strip. Rubidium-marking was used to investigate nectar-feeding and dispersal from the flowers. In addition, the parasitoids’ sugar compositions were determined by HPLC and used to infer feeding histories. Although further work is required to develop the use of these techniques in this system, the results suggested that A. zealandica did not exploit the flower strip. The sugar profiles suggested that honeydew had been consumed by many of the parasitoids. A simulation model was developed to explore the dynamics of aphid, lacewing and parasitoid populations with and without flowers. This suggested that if M. tasmaniae and A. zealandica responded to flowers as in the laboratory, flowers would only have a small effect on biological control within a single period of a lucerne cutting cycle. When parasitoids were present, the direct beneficial effect of flowers on the lacewing population was outweighed by increased parasitism, reducing the potential for biological control in future crops. The results presented in this thesis exemplify the complex interactions that may occur as a consequence of providing floral resources in agroecosystems and re-affirm the need for agroecology to inform the development of sustainable pest management techniques.