Les sols représentent environ 63% des émissions de N2O et à eux seuls les sols tropicaux représentent 23% de ce budget soit une contribution bien plus élevé que les sols tempérés. Ces sols sont connus pour abriter une grande biodiversité d'invertébrés dominés par quatre types i.e. termites, vers de terre, fourmis et larves de scarabaeid. Ces groupes macrofaunal sont considérés comme des ingénieurs des sols via notamment leurs actions de régulation de la disponibilité des ressources chimiques, tels que l'azote minéral pour les micro-organismes. Cette régulation est due à leurs capacités de digestion spécifiques de la matière organique ainsi que la création et/ou la modification des habitats des sols. Cette étude est basée sur l'hypothèse suivante (i) l'environnement digestif et les structures biogéniques de ces ingénieurs du sol sont considérées comme des « hot spot » d' émissions de N2O (ii) les taux d'émission de N2O varient en fonction de leurs régimes alimentaires, cette macrofaune ingérant des substrats avec différents C:N (iii) le taux d'émission de N2O de chaque invertébré est corrélé à la densité des communautés bactériennes digestives impliquées dans l'émission de N2O (bactéries nitrifiantes et dénitrifiantes) et à leur teneur en azote minéral dans leur tube digestif. Pour évaluer ces différentes hypothèses, des mesures des taux d'émission de N2O ont été effectuées in vitro en aérobiose pour la macrofaune (30 espèces différentes en provenance d'Afrique, d'Amérique du Sud et d'Europe) et leurs matériels biogéniques associées (nids, turricules). L'abondance des gènes fonctionnelles des bactéries nitrifiantes (AOA et AOB) et dénitrifiantes (nirK, nirS, nosZ) ont été quantifiés par PCR quantitative. Les termites humivores et champignonnistes ainsi que les larves de scarabaeid émettent des quantités significatives de N2O alors que les fourmis n'en émettent pas. Quand aux termites xylophages et litièrivore, ils absorbent le N2O. Les structures biogéniques des vers de terre (turricules) et des fourmis (nid) émettent des quantités importantes de N2O ce qui n'est pas le cas des nids de termites. La faune du sol et leurs structures biogéniques associées, sont donc, dans la majorité des cas étudiés, un lieu d'émission de N2O, confirmant ainsi notre première hypothèse. Ce travail a également démontré qu'il y a avait une étroite corrélation entre régime alimentaire et intensité de l'émission de N2O au sein de chaque type de macrofaune étudié. En revanche, l'abondance des gènes des communautés digestive nitrifiantes et dénitrifiantes et le contenu en N minéral au sein du tube digestif ne semblent pas être des proxies pertinents des émissions de N2O. A partir de ces mesures, des calculs ont été effectuées pour déterminer l'importance de ces émissions à l'échelle des écosystèmes tropicaux étudiés (forêt et savane). Ces calculs suggèrent que la macrofaune du sol dans ces écosystèmes pourrait contribuer entre 0,1 à 11,7% et 0,1 à 8,8% du budget total des émissions de N2O, respectivement. Les résultats de ces travaux devraient contribuer à une meilleure prise en compte de la composante biotique dans la modélisation des émissions de gaz à effet de serre provenant des sols en milieu tropical. / Soils account for about 63% of N2O emissions. Tropical soils are estimated to emit 23% of global N2O emission budget which is much higher than temperate soil N2O emissions. These soils also harbor a huge biodiversity of invertebrates dominated by four types of macrofauna i.e. termites, earthworms, ants and scarabaeid grubs. These macrofaunal groups are considered as soil engineers because they regulate the availability of chemical resources, like mineral nitrogen, for the microorganisms via their specific digestion capabilities and/or by creating and modifying soil habitats. This study is based on the following hypothesis (i) the gut environment or biogenic structures of these soil engineers are considered as hotspots of N2O emission (ii) the N2O emission rates will vary according to their feeding behavior as these macrofauna thrive on diverse substrates with different C:N ratio (iii) the rate of N2O emission in each soil fauna will also depend on the gut density of the bacterial communities involved in the N2O emission (nitrifiers and denitrifiers) and on the mineral nitrogen content within the gut. To assess these different hypotheses in-vitro short-term N2O emission rates were assessed for either live macrofauna (30 species collected from Africa, South America and Europe) or their biogenic materials or both under aerobic incubations. Genes abundance of nitrifiers (AOA and AOB) and denitrifiers (nirK, nirS, nosZ) were quantified by real time quantitative PCR. Soil-feeders and fungus-growing termites and scarabaeid grubs emitted in-vivo N2O while ants did not. Surprisingly, wood- and grass-feeding termites revealed an uptake of N2O. Biogenic structures of earthworms and ants emitted substantial amount of N2O while those of termites did not. The emission difference between macrofauna or their biogenic materials and their control materials was significant for most of the macrofaunal groups studied confirming our first hypothesis. We also confirmed that the feeding behavior (total N content and C:N ratio of food material) is the main factor explaining the observed N2O emission pattern of each macrofaunal group investigated whereas genes abundances, particularly of denitrifiers and gut N mineral content did not appear to be relevant proxies of the N2O emissions rates. A back-on-the-envelope data upscaling suggests that soil macrofauna could contribute from 0.1–11.7% and 0.1–8.8% of the total soil N2O emissions, respectively, for the tropical rainforest and dry savanna ecosystems. This work should contribute to a better estimation of the soil biotic compartment in the different models of greenhouse gas emissions from tropical soils.

The paper follows up on previous analyses of changes in soil microstructure in the process of soil development on dumps around Sokolov, Czech Republic, using the soil thin section method. The distribution of structures in the topsoil of the profile was studied in two chronosequences, one overgrown with spontaneous vegetation and one reclaimed by alder planting. A comparison with historical data obtained at these locations 10 years ago was used, and, therefore, the same methods were also applied (Frouz et al., 2007b). The most distinct trend in the process of soil development over time, as observed through both a comparison of soil thin sections from various areas of chronosequence and changes in particular sites over time, is a gradual reduction of purely mineral structures and their replacement by organic matter - litter and its fragments, faecal pellets of arthropods, earthworms coprolites, and roots. This is illustrative of a high share of biogenic structures and a fundamental contribution of organisms to forming topsoil, a fact also pointed out by other authors. Keywords: Soil macrofauna; Soil microstructure; Soil thin section; Reclamation; Post-mining sites; Soil development; Earthworms

O presente trabalho teve como objetivo a caracterização da macrofauna edáfica, da regeneração natural de espécies arbóreas, lianas e epífitas em três áreas em processo de restauração com plantio misto de espécies arbóreas nativas na região do Pontal do Paranapanema com idades de 6, 11 e 16 anos, com plantios nos anos de 1998, 1993 e 1988, respectivamente. A avaliação desses plantios através dos vários grupos de organismos formadores do ecossistema é de suma importância na tentativa de caracterizar a retomada da biodiversidade dessas áreas. Em cada área alocaram-se 3 parcelas amostrais de 900m2 de área, nas quais a estrutura da floresta foi caracterizada a partir do CAP (circunferência a altura do peito) e altura de todas as árvores com CAP ≥ 15 cm. Nestas árvores foi constatada a presença ou ausência de lianas e epífitas. A regeneração de espécies arbóreas foi levantada em três sub-parcelas circulares de 1,5 m de raio por área e a macrofauna do solo foi coletada através de monolitos de solo com dimensões de 25x25x25cm. Em cada parcela foram amostrados 5 monolitos distanciados 5 m um do outro. Foram realizadas duas coletas, uma na época chuvosa e outra na época seca. Os resultados mostram que as florestas em processo de restauração apresentaram incremento da diversidade em todos os elementos avaliados, exceto das epífitas, demonstrando uma tendência ao aumento na sua complexidade estrutural e retomando os processos ecológicos aliados a estes elementos. Foram registradas um máximo de 22 espécies arbóreas decorrente da regeneração natural. As espécies encontradas na regeneração natural não se diferenciaram das espécies plantadas, isto devido provavelmente à distância de fontes colonizadoras, baixa dispersão de propágulos, ausência de banco de sementes e histórico do uso da terra. A macrofauna edáfica e as lianas foram os grupos mais eficazes na recolonização destas áreas avaliadas, principalmente a macrofauna pela estruturação de sua comunidade. Nas áreas avaliadas foram registrados no máximo 18 grupos taxonômicos para macrofauna e 13 espécies de lianas. As epífitas foram praticamente ausentes em todas as áreas avaliadas. Apesar da retomada de certos grupos ainda a diversidade dessas áreas representa parte da diversidade original. Alguns grupos, como as epífitas, carecem de outras pesquisas sobre sua dinâmica, pois provavelmente necessitariam ser reintroduzidas e/ou manejadas. / This study aimed to describe the soil macrofauna community, the natural tree species regeneration, lianas and epiphytes in three different restoration areas at Pontal do Paranapanema. These areas were planted with a mix of regional native tree species, aging 6 years (planted in 1998), 11 years (1993 plantation) and 16 years (1988 plantation). The evaluation of these plantations through distinct groups of organisms that structure the ecosystem represent great importance when it comes to describe the biodiversity reestablishment of these areas. For each restored area, three sampling plots of 900m2 were located and its forest structure analyzed by CBH (circumference at breast height) measurement. Every CBH ≥ 15cm tree was observed for presence or absence of lianas and epiphytes. Natural regeneration assessment was taken by three 1.5m radius sub-plots located within each area. Five soil samplings of 25x25x25cm were taken from each area, allowing soil macrofauna community evaluation. Samples within the same area were at least 5m apart from each other. Soil macrofauna community was observed in two different moments: dry and rainy season. The forests showed a diversity enhancement in every evaluated component, except by the epiphytes. This fact emphasizes a disposition towards a higher structural complexity leading to an increase in ecological processes related to the components studied here. A maximum of 22 tree species were found for natural regeneration and they didn't differ from the planted ones. This may be explained by the distance among these areas and forest remnants, lower seed dispersion, lack of seed bank and land use history. Soil macrofauna and lianas were the most effective on recolonization of these areas, presenting a maximum of 18 taxonomic groups for macrofauna and 13 for lianas. Epiphytes were almost absent in every evaluated area. The demand for another intervention after the introduction of tree species and the necessity of other life forms organisms is a question that arises from these facts, once the aimed objective is the Forest Restoration. Despite of the reestablishment of some groups, the diversity in these areas still represents part of the original diversity. Some groups, e.g. epiphytes, lack more researches about dynamics, because probably they should be reintroduced and/or managed.

O presente trabalho tem como objetivo geral o estudo da composição e estrutura da macrofauna bêntica em escala espacial e sazonal, da região de Cabo Frio (RJ). O aspecto temporal nessa área é especialmente importante devido a ocorrência do fenômeno sazonal da ressurgência costeira. Esse ocorre devido alguns fatores físicos característicos da área, tais como mudanças na topografia e na direção da costa, e principalmente, em decorrência das condições meteorológicas atuantes no local. A interação desses fatores favorece, principalmente no verão, o ressurgimento próximo à costa da Água Central do Atlântico Sul (ACAS), uma massa de água fria e rica em nutrientes. Essa massa de água disponibiliza grande quantidade de nutrientes para o fitoplâncton das camadas superficiais, ocasionando uma elevada produção primária nova. Parte dessa produção é exportada para o fundo incrementando a biomassa bêntica. Assim, a comunidade bêntica assume um papel vital no ecossistema, sendo tanto receptora como fornecedora de energia. Os descritores de comunidade (densidade, biomassa, riqueza, diversidade e equitatividade) e a identificação dos grupos tróficos de Polychaeta foram analisados entre 40 e 1000m de profundidade e em três épocas do ano, inverno de 2001 e verão e primavera de 2002. A integração dos dados biológicos com os ambientais mostrou que as variações espaciais na estrutura e composição dos organismos foi relacionada à profundidade e ao tipo de sedimento verificado nas estações. A estrutura da comunidade também apresentou variações temporais, especialmente nas estações situadas na plataforma continental, respondendo à entrada de matéria orgânica decorrente do evento de ressurgência. / The main objective of the present study was to evaluate the composition and spatial and seasonal structure of the macrobenthic fauna off Cabo Frio (RJ). The temporal scale was investigated in the light of the seasonal coastal upwelling. This phenomenon occurs due to changes in bottom topography and in the coastline direction, and specially, because of the prevailing seasonal NE winds in the area. The interaction of these factors enables the South Atlantic Central Water (SACW) to rise up and reaches the surface, intensively during the summer months. Large amounts of nutrients are then brought to the euphotic zone, enhancing primary productivity. This high productivity increases food supply for benthic communities by sinking of particulate organic carbon. In this way, the benthic communities are an important link in the ecosystem. The density of organisms, biomass, species richness and evenness and also the trophic group of Polychaeta were analyzed in a depth gradient from 40 to 1000m during the 2001 winter and 2002 summer and spring. Faunal distributional patterns and species composition correlated with environmental variables, especially depth and sediment types. The faunal structure also showed temporal changes along the sample period, especially in the stations located in the continental shelf due to the input of organic matter to the sea floor.

A bacia do rio Betari, localizada em uma das poucas áreas ainda preservadas do estado de São Paulo, apresenta características particulares quanto a sua geologia e geomorfologia (carste) e a Mata Atlântica, ainda preservada. Também é importante o fluxo de turistas que tem aumentado, provocando uma ocupação sem planejamento. Parte da bacia é ocupada pelo Parque Equatorial Estadual Turístico do Alto Ribeira - PETAR. Com o objetivo de caracterizar o rio Betari e sua bacia hidrográfica, relacionar as características limnológicas do rio com o uso e ocupação do solo e determinar os impactos do turismo no bairro da Serra, para obter um diagnóstico ambiental da bacia e fornecer subsídios para seu desenvolvimento sustentável, foram feitas coletas em quatro estações do ano, em 14 pontos ao longo do rio. Nesses pontos, foram analisados o sedimento e as características hidráulicas, físicas e químicas e biológicas da água. Também foram utilizados sedimento remoto e geoprocessamento para integração das informações sobre a bacia hidrográfica e o corpo d\'água. Foram, ainda realizadas análises estatísticas para a determinação de grupos, entre os pontos de coleta, com similaridades ou descontinuidades quanto aos dados obtidos. Um estudo dos impactos econômicos e sócio-culturais foi realizado no bairro Serra, principal agrupamento humano na bacia. Os resultados mostram a existência de uma homogeneidade espacial dos parâmetros físicos e químicos analisados no rio. As características geológicas da bacia (carste) parecem exercer grande influência nos parâmetros hidrológicos analisados. A qualidade da água é boa, demonstrando que a ação antrópica ainda não comprometeu o sistema lótico, apesar da existência de metais pesados no sedimento reflexo dos rejeitos das atividades minerárias presentes na área. A bacia hidrográfica, por sua vez, não apresentou grandes alterações na sua cobertura vegetal nos últimos anos. A comunidade bentônica apresentou variação temporal e espacial e, aparentemente, os fatores hidráulicos e as características do canal foram os principais determinantes destas variações. Os impactos econômicos e sócio-culturais do turismo, positivos e negativos, foram detectados sobre a população residente. Aparentemente, a comunidade Serrana passa por um período de euforia, graças aos benefícios econômicos propiciados pela atividade turística, porém a falta de planejamento pode comprometer a atividade e os ecossistemas regionais, impedindo assim, o desenvolvimento sustentável. / The Betari River basin, localized in one of the few areas still preserved in the São Paulo Sate, presents particular characteristics regarding its geology and geomorphology and the Atlantic Forest, still preserved. The increasing flow of tourists is also important, provoking a plan less occupation of the area. Part of the basin is occupied by the Parque Estadual Turístico do Alto Ribeira - PETAR. With the objective of characterizing the Betari River and its hydrographic basin, relate the river\'s limnologic characteristics with the use and occupation of the land and determine the impact of tourism in the Serra borough, to obtain an environmental diagnostic of the basin and supply subsidiaries for its sustainable development, samples were collected in 4 seasons of the year, in 14 points throughout the river. In these points, sedimentation and hydraulic, physical, chemical and biological characteristics of the water were studied. Remote sensoring and geo-processing were also used to integrate information about the hydrographic basin and the body of water. Statistical analyses were then carried out to determine groups. A study of the economic and social-cultural impact was carried out in the Serra borough, the main human settlement in the basin. The results show an existence of spatial homogeneity in the physical and chemical parameters analyzed in the river. The geological characteristics of the basin seem to have a great influence in the hydrological parameters analyzed. The quality of the water is good, showing that the antropic action has not yet compromised the lotic system, despite the existence of heavy metals in sediment, a reflex of the rejects of mineral activities present in the area. The hydrographic basin did not present great changes in its vegetation in the last few years. The bentonic community presented temporal and special variation and, apparently, the hydraulic factors and the canal\'s characteristics were the main determiners of these variations. The economical and social-cultural impacts of tourism, positive or negative, were detected on the residing population. Apparently, the Serrana community passes through a euphoric period, thanks to the economical benefits brought by the tourist activity; however, the lack of planning can compromise the activity and these regional ecosystems, impeding, this way the sustainable development.

O presente trabalho tem como objetivo geral o estudo da composição e estrutura da macrofauna bêntica em escala espacial e sazonal, da região de Cabo Frio (RJ). O aspecto temporal nessa área é especialmente importante devido a ocorrência do fenômeno sazonal da ressurgência costeira. Esse ocorre devido alguns fatores físicos característicos da área, tais como mudanças na topografia e na direção da costa, e principalmente, em decorrência das condições meteorológicas atuantes no local. A interação desses fatores favorece, principalmente no verão, o ressurgimento próximo à costa da Água Central do Atlântico Sul (ACAS), uma massa de água fria e rica em nutrientes. Essa massa de água disponibiliza grande quantidade de nutrientes para o fitoplâncton das camadas superficiais, ocasionando uma elevada produção primária nova. Parte dessa produção é exportada para o fundo incrementando a biomassa bêntica. Assim, a comunidade bêntica assume um papel vital no ecossistema, sendo tanto receptora como fornecedora de energia. Os descritores de comunidade (densidade, biomassa, riqueza, diversidade e equitatividade) e a identificação dos grupos tróficos de Polychaeta foram analisados entre 40 e 1000m de profundidade e em três épocas do ano, inverno de 2001 e verão e primavera de 2002. A integração dos dados biológicos com os ambientais mostrou que as variações espaciais na estrutura e composição dos organismos foi relacionada à profundidade e ao tipo de sedimento verificado nas estações. A estrutura da comunidade também apresentou variações temporais, especialmente nas estações situadas na plataforma continental, respondendo à entrada de matéria orgânica decorrente do evento de ressurgência. / The main objective of the present study was to evaluate the composition and spatial and seasonal structure of the macrobenthic fauna off Cabo Frio (RJ). The temporal scale was investigated in the light of the seasonal coastal upwelling. This phenomenon occurs due to changes in bottom topography and in the coastline direction, and specially, because of the prevailing seasonal NE winds in the area. The interaction of these factors enables the South Atlantic Central Water (SACW) to rise up and reaches the surface, intensively during the summer months. Large amounts of nutrients are then brought to the euphotic zone, enhancing primary productivity. This high productivity increases food supply for benthic communities by sinking of particulate organic carbon. In this way, the benthic communities are an important link in the ecosystem. The density of organisms, biomass, species richness and evenness and also the trophic group of Polychaeta were analyzed in a depth gradient from 40 to 1000m during the 2001 winter and 2002 summer and spring. Faunal distributional patterns and species composition correlated with environmental variables, especially depth and sediment types. The faunal structure also showed temporal changes along the sample period, especially in the stations located in the continental shelf due to the input of organic matter to the sea floor.

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.

Mes objectifs consistaient à : (1) fournir une description de l'état actuel des communautés de la macrofaune benthique du golfe du Lion et à étudier leur variations temporelles entre 1998 et 2010 à partir de 91 stations, (2) tester le contrôle de la macrofaune par les variables climatiques à partir du suivi de 4 stations pendant 10 ans en baie de Banyuls-sur-Mer, (3) évaluer l’impact des apports du Rhône sur la macrofaune à partir de 5 stations échantillonnées dans le panache de dilution à 4 périodes hydrologiques différentes, et (4) actualiser le statut de qualité écologique des habitats benthiques du golfe. Mes résultats ont montré la conservation des communautés entre 1998 et 2010,confirmé l’influence de la NAO et du Rhône sur la composition des communautés benthiques de l’ensemble du golfe. Ils ont aussi confirmé le contrôle des descripteurs de la macrofaune par les oscillations climatiques, en particulier par la WeMO qui semble influencer le plus la macrofaune surtout en hiver. Les stations les plus impactées par les variations de débit du Rhône se situent à proximité immédiate de son embouchure. Les communautés benthiques y sont négativement affectées en périodes de crues et positivement affectées en période d’étiage estival. J'ai enfin mis à jour les niveaux de sensibilité/tolérances des espèces méditerranéennes, confirmer l’existence de disparités importantes entre les résultats dérivés de l’utilisation d’indices biotiques différents et montrer que les indices testés indiquent tous une tendance générale à la stabilité. / My main aims consisted in: (1) assessing the present state and recent (1998-2010)changes in benthic macrofauna composition of the Gulf of Lions soft-bottom communities through the long term comparison of 91 stations; (2) testing the current paradigm regarding the control of those communities by climatic parameters through a 10-year monitoring of 4 stations located in the Bay of Banyuls-sur-Mer; (3) assessing the influence of Rhône River inputs on the composition of benthic macrofauna through the sampling, of 5 stations , under 4 hydrological regimes; and (4) updating the ecological quality status of Gulf of Lions benthic habitats. My results have shown the persistence ofthe same 3 communities between 1998 and 2010, the strong influence of both the NAO and the Rhône River on benthic macrofauna composition in the whole Gulf. They also showed a control of benthic macrofauna by climatic oscillations with the WeMO contributing most especially during wintert ime. Moreover, the stations most impacted by Rhône River inputs were located close to its mouth. They are negatively affected during floods and positively affected during dry periods. Lastly, Ihave updated the sensitivity/tolerance levels of Mediterranean species and confirmed the existence of major discrepancies in the results derived from different biotic indices used, although all tested indices indicated an overall stability in the ecological quality status of benthic habitats between 1998 and 2010.

This thesis presents the findings of an investigation of the spatial and temporal distribution of soil macrofauna at multiple scales within smallholder agriforestry fields in a remote, mountainous area of western Honduras. Since 1990, smallholder farmers in the study area have switched from traditional slash-and-burn agriculture to a form of slash-and-mulch agriforestry based on cultivating maize, beans and sorghum amongst dispersed trees. The principal objective was to examine the influence of the slash-and-mulch agricultural system on soil macrofauna abundance, biomass and community composition, and relate soil macrofauna distribution patterns to environmental variables. The initial stage of the research comprised transect-based sampling of soil macrofauna and biophysical variables in four common land uses of the study area. All four land uses (secondary forest, young milpa (agriforestry), mature milpa, and pasture) supported abundant, diverse and heterogeneous soil macrofauna communities, with few notable differences in soil macrofauna distribution among land uses. The most abundant soil macrofauna taxa were termites, ants, earthworms and beetles. Of the 'explanatory' environmental variables that were measured (including land use and selected soil properties, vegetation characteristics and topographic variables), those that had the strongest relationships with soil macrofauna abundance were land use, tree density and soil organic matter content. The second stage of the research was spatially-orientated and used stratified sampling based on within-field differences in farmer-defined soil type, as well as grid-based sampling of soil macrofauna surface activity. There was substantial within-field variation in soil type and topography, which was related to distribution patterns of at least one agriculturally-important soil macrofauna taxon. Earthworm activity was higher in areas of fertile soil and lower slope positions. At a finer scale, there was a positive spatial correlation between tree distribution and earthworm casting activity. The final phase situated the biophysical research in the local socio-economic context through participant observation and interviews with farmers. The results of the three phases of the study were incorporated into an original conceptual model of the relationships among soil macrofauna and environmental variables in the study area across multiple spatial scales and along a chronosequence of land use changes. Specific pointers are provided for further research on the role of soil fauna in influencing soil structure, nutrient cycling and pest species abundance, and for further investigating local knowledge and the socio-economic and cultural drivers of land use change.

Shallow sheltered Baltic Sea bays are ecologically important habitats that harbour a unique vegetation community and constitute vital reproduction areas for many coastal fish species. Knowledge about the invertebrate community in these bays is, however, limited. This thesis examines the macroinvertebrate community in shallow sheltered Baltic Sea bays and how it is affected by: (1) the natural morphometric isolation of bays from the sea due to post-glacial land uplift; and (2) differences in vegetation types. The invertebrate biomass and number of taxa was found to decrease with increased bay isolation. The taxon composition changed from dominance by bivalves and gastropods in open bays to a community composed of a larger proportion of insects in isolated bays. Stable isotope analysis indicated epiphytes and periphyton as the major energy resources for most of the examined consumers, but the relative importance of these in relation to larger plants decreased for some consumers with increased bay isolation. A comparison of invertebrate abundance between plants revealed a close relationship with morphological complexity of the plants. More complexly structured plants had higher invertebrate abundance than plants with simpler morphology. The results suggest that management of these coastal habitats should be dynamic and take into consideration the natural change in invertebrate community resulting from the slow bay isolation process. In addition, the results imply that changes in the aquatic vegetation due to anthropogenic influences could induce changes in the invertebrate community as the plant habitat structure is altered. A changed invertebrate community may in turn affect higher trophic levels since invertebrates are important food for many fish and waterfowl species. / At the time of the doctoral defense, the following papers were unpublished and had a status as follows: Paper 2: Submitted. Paper 4: In press.