Os sedimentos costeiros são importantes globalmente, pois atuam como receptores de grandes quantidades de material orgânico alóctone e autóctone, sendo responsáveis por cerca de 90% do enterramento de carbono no oceano global. Dentro dos ecossistemas de plataforma continental, a fauna bêntica desempenha papel vital tanto como receptora de energia proveniente do pelagial, quanto como fornecedora de energia para os organismos demersais e de nutrientes para o fitoplâncton. O objetivo principal do presente trabalho foi investigar a variação temporal da dinâmica da macrofauna bêntica na plataforma interna de Ubatuba. A dinâmica bêntica foi analisada pela abundância, biomassa, descritores da comunidade (riqueza, diversidade, equitatividade) e análise trófica dos grupos mais abundantes, em função da origem e composição da matéria orgânica sedimentar. As coletas foram realizadas mensalmente em uma estação fixa, com início em outubro de 2006, por um período de um ano. A estação fixa possui uma profundidade de 40 m e um regime oceanográfico de transição entre águas costeiras e de plataforma continental. A composição da matéria orgânica em termos de MOT, fitopigmentos, fitodetritos e biomarcadores lipídicos apresentou uma complexidade típica de ambientes de plataforma interna, relacionados à dinâmica oceanográfica que rege os principais eventos de acúmulo ou remoção da matéria orgânica lábil na região de Ubatuba. A composição dos biomarcadores lipídicos presentes no sedimento evidenciou que a matéria orgânica particulada na região de plataforma interna de Ubatuba possui uma origem principalmente autóctone, e que está constituída por uma combinação de material derivado do plâncton vivo ou detrítico, da produção bacteriana e da fauna associada ao sedimento, havendo uma contribuição terrestre relativamente pequena. O presente estudo indicou que a dinâmica bêntica na região da plataforma interna de Ubatuba é moldada por forçantes ambientais, como a intrusão de massas dágua (e.g. ACAS) trazendo nutrientes para a zona fótica e estimulando a produção primária fitoplanctônica nova, induzindo o aumento na densidade e biomassa bêntica. A chegada de frentes frias, com ventos fortes, mistura da coluna dágua e revolvimento do fundo também possui fundamental importância, através do decréscimo nos valores dos parâmetros da comunidade bêntica. Esse padrão de acúmulo e remoção sugere que a biota bêntica da plataforma interna de Ubatuba esteja numa constante dinâmica de colonização e recolonização, que pode ser chave na manutenção de altos níveis de riqueza e equitatividade na região. Os resultados obtidos no presente estudo sugerem um íntimo e complexo acoplamento bentopelágico dependente, por um lado, de eventos oceanográficos de mesoescala (i.e. centenas de km; intrusão da ACAS) e, por outro, de eventos atmosféricos que influenciam o sistema bêntico em escala local, através da ressuspensão de sedimentos. / Coastal sediments are globally important for their role in the carbon cycle, being responsible for about 90% of the carbon burial in the global ocean. In continental shelf ecosystems, benthic communities play a vital role receiving energy from the pelagic system, serving as food source for demersal organisms, recycling nutrients back to the water column and sequestering part of the carbon into deeper layers of marine sediments. The present study aimed to investigate the variation on the dynamics of the benthic macrofauna on the inner shelf off Ubatuba-SP. Benthic macrofauna abundance, biomass, species richness, diversity, equitability and polychaete trophic groups were compared with the origin and composition of sedimentary organic matter. Sampling was carried out on a monthly basis starting in October 2006 for a year in a permanent station at 40 meters depth. The area is characterized by a transition between coastal and oceanic regimens. Sedimentary organic matter composition in terms of total organic matter, lipid biomarkers and phytopigments and phytodetritus showed a complexity typical from inner shelves and was driven by oceanic and atmospheric dynamics. Lipid biomarker composition revealed that particulated organic matter was mainly derived from autochthonous sources, composed of a combination of material derived from live plankton and detritic remains, bacterial production and from the benthic metazoan fauna. Terrestrial contribution to the sediment organic matter was small. The present study indicated that the benthic dynamics in the inner shelf off Ubatuba is molded by environmental forcing, especially the intrusion of water masses onto the shelf (e.g. ACAS), which brings nutrients to the euphotic zone stimulating new phytoplanktonic primary production. This enhances the flux of organic matter to the bottom increasing the benthic biota density and biomass. The arrival of cold fronts, with strong S-SW winds promoting water column mixing and sediment resuspension, was also fundamental in decreasing benthic community parameters (i.e. abundance and biomass). The dynamics of organic matter accumulation and removal suggest that the benthic biota in the inner shelf of Ubatuba is subjected to a constant pattern of settling and recolonization, which can be a key factor in the maintenance of high levels of species richness and equitability. The results obtained in the present study suggest a strong and complex benthic-pelagic coupling, influenced by mesoescale oceanographic events (i.e. hundreds of km; intrusion of ACAS) on the one hand and, on the other, by atmospheric events influencing the benthic system on a local scale, through the remobilization of sediments.

O conhecimento da biodiversidade é vital para o planejamento e implementação de programas de conservação. Para isso, os levantamentos faunísticos são de extrema importância, principalmente quando enfocam grupos historicamente negligenciados no Brasil e realizados em regiões com intensa ação antrópica, como a região do Canal de São Sebastião (23o41\' S - 45o19\' W e 23o54\' S - 45o30\' W). Considerando que os Echinodermata, inclusive na região, representam grande parte da comunidade de macro-invertebrados do bentos marinho, torna-se estrategicamente importante a obtenção de dados sobre os representantes deste grupo. À luz destas considerações, foi realizado um estudo explorando-se principalmente o infralitoral de ambientes de fundo rochoso em ambas as margens do Canal de São Sebastião (litoral norte do Estado de São Paulo). Para a consecução dos objetivos propostos, as coletas deste estudo foram executadas até a profundidade de 20 m, principalmente através das técnicas de mergulho autônomo e de mergulho livre, tendo sido realizadas, ainda, algumas coletas manuais na região entremarés. Como resultado, foram encontradas 40 espécies de Echinodermata, sendo 14 de Ophiuroidea, dez de Asteroidea, nove de Echinoidea, seis de Holothuroidea e uma de Crinoidea. As espécies encontradas mostram que a fauna de equinodermes do Canal de São Sebastião tem uma predominância de componentes da fauna tropical sobre as espécies patagônicas. / Vide dissertação (Ingles e Espanhol).

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No. of bitstreams: 1 gabrielalinharesfrizzera.pdf: 2367263 bytes, checksum: e04246423d57d883b86913ca2ec968e4 (MD5) Previous issue date: 2011-03-28 / CAPES - Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / O objetivo do presente estudo foi verificar a existência de variação espacial e temporal das variáveis abióticas e conhecer a estrutura da assembléia de Chironomidae e Oligochaeta do lago dos Manacás em meses que compõe o período seco e chuvoso e, a partir destas variáveis avaliar a qualidade da água deste ambiente. Foram realizadas três coletas, duas no período seco (agosto/09 e julho/10) e uma no chuvoso (fevereiro/10), em dois transectos, cada um com cinco pontos de coleta. As amostras de sedimento foram obtidas com draga do tipo Petersen em tréplicas, também foram obtidas amostras para a análise da granulometria e matéria orgânica. As amostras de água foram obtidas do fundo com uma garrafa de Van Dorn. Para analisar o estado trófico do ambiente foi calculado o índice de estado trófico (TSI) de Carlson e foi avaliada a presença e abundância de táxons indicadores de poluição. As variáveis limnológicas não apresentaram variações significativas entre os pontos de coleta e entre os transectos. Entretanto foram detectadas diferenças significativas entre as coletas realizadas, com exceção das variáveis oxigênio, carbono orgânico dissolvido e pH. A granulometria foi composta principalmente por sedimento fino e com alta porcentagem de matéria orgânica. A assembléia encontrada foi composta por 25 táxons e 1007 organismos. A maior riqueza e diversidade foi obtida na primeira coleta em agosto de 2009 e as menores densidade número de táxons foi encontrada no período chuvoso em fevereiro de 2010. Os quironomídeos foram os organismos mais abundantes em todo o período de coletas. Os pontos marginais (I e V) diferiram significativamente em relação à assembléia somente em um transecto na primeira coleta, nas demais, as margens foram consideradas iguais. Em agosto de 2009 pode ser observada uma grande quantidade de táxons adominantes. Neste período Caladomyia ortoni foi o principal táxon dominante. Em 2010 não foram observados táxons adominantes e Polypedilum foi dominante neste período. O índice calculado para determinar o estado trófico do lago dos Manacás classificou este ambiente como oligotrófico, mesotrófico e eutrófico ao longo do período de coletas. As variáveis abióticas diferiram temporalmente modificando as condições do ambiente e a estrutura da assembléia de Chironomidae e Oligochaeta. As concentrações de nutrientes aumentaram bastante demonstrando que o lago passa por um processo de alteração da qualidade da água. A baixa abundância de organismos encontrados no lago foi considerada comum, visto que também foi observado em outros locais. Apesar do índice de estado trófico mostrar que a qualidade da água do lago dos Manacás apresenta-se em más condições, a ausência e/ou a baixa densidade dos táxons considerados como indicadores de poluição não confirmam estes dados. / The aim of this study was to verify the existence of the spatial and temporal variation of abiotic variables and know the structure of Chironomidae and Oligochaeta assembléia of the Manacás lake in months that compound the dry and rainy period and from this variable to evaluate the water quality of the environment. Three collects have been done, two in dry season (august/09 and july/10) and one in the wet season (february/10) in two transects each with five sampling points., Sediment samples has been collected by a bottom sampler Petersen. Three replicates have been made in each sample point for analysis of macroinvertebrates. Sediment samples were also obtained for analysis of particle size and organic matter. Water samples were obtained from the bottom with a bottle of Van Dorn. To analyse of the environment trofic status was calculated the trofic status index (TSI) of the Carlson and the presence and abundance of the pollution indicators taxa. Limnological parameters showed no significant variations among the sampling sites and among transects. However significant differences were detected between samples collected, with the exception of oxygen, dissolved organic carbon and pH. The particle size was mainly composed of fine sediment with a high percentage of organic matter. The assembléia found was composed of 25 taxa and 1007 organisms. The higher richness and diversity was obtained in the first collection in August 2009 and the lower density and number of taxa was found to the rainy season. Chironomids were the most abundant organisms during all period of collection. The marginal points (I and V) differed significantly with respect the assemblage only in transect A in the first collection in the others, the margins were considered equal. In August 2009 could be seen a large number of taxa adominantes. During this period the main dominant taxa was Caladomyia ortoni. In 2010 adominantes taxa were not observed, and Polypedilum were dominant in this period. The index to determine the trophic status of Manacás Lake rated this environment as oligotrophic, mesotrophic and eutrophic during the period of collection. The abiotic variables varied temporally changing environmental conditions and structure of the assembléia of Chironomidae and Oligochaeta. The concentrations of nutrients increased significantly showing that the lake goes through a process of change in water quality. The low abundance of the organisms found in the lake was considered common, already observed on others places. Although the trofic status index to show the water quality of Manacás lake is in bad conditions the absence and/or the low density of taxa considered how pollution indicators do not confirm this data.

Abstract In this thesis, I studied spatial and temporal variability of macroinvertebrate assemblages of boreal streams. The main objectives were (i) to characterize macroinvertebrate assemblage types across large geographical extents, and to assess the utility of assemblage types and landscape and stream type classifications as the basis of stream bioassessment and conservation programs (ii, iii). I also examined the relative roles of large-scale spatial trends and local environmental conditions in structuring macroinvertebrate assemblages (iv). Finally, I assessed (v) if assemblage classifications produce temporally stable and predictable assemblage types. Stream macroinvertebrate assemblage structure exhibited continuous variation instead of distinct assemblage types. Although ecoregions clearly accounted for a considerable amount of variation of macroinvertebrate assemblage characteristics, a combination of regional stratification and prediction from environmental factors would probably yield the most comprehensive framework for the characterizations of macroinvertebrate assemblages of boreal headwater streams. Differences in macroinvertebrate assemblage structure, as well as a group of effective indicator species for different stream types, suggest that landscape classifications could be used as a preliminary scheme for the conservation planning of running waters The strength of the relationship between assemblage structure and local environmental variables increased with decreasing extent, whereas assemblage variation related to spatially variables showed the opposite pattern. At the largest scale, spatial variation was related to latitudinal gradients, while spatial autocorrelation among neighbouring streams was the likely mechanism creating spatial structure within drainage systems. These results suggest that stream bioassessment should give due attention to spatial structuring of stream assemblage composition, considering that important assemblage gradients may not only be related to local environmental factors, but also to biogeographical constraints and neighbourhood dispersal processes. The classification strengths of macroinvertebrate assemblages based on data of three years were overall rather weak, and more importantly, the compositions of the site groups varied considerably from year to year. Such wide and continuous variation was also mirrored by low and inconsistent predictability of classifications from environmental variables. The observed level of temporal variation in assemblage structure may not be a serious problem for predictive approaches frequently used in bioassessment of freshwater ecosystems. For conservation purposes, however, alternative approaches (e.g. physical surrogates of biodiversity) need to be considered.

Changes in the biosphere require ecological baselines in order to compare past, present, and future conditions and identify their effects. Establishing ecological baselines for infauna in southeastern Florida is a key component to understanding effects of current and future disturbances; however, nearshore sediment infaunal communities are neither as thoroughly investigated nor as well understood as, for example, coral reefs, seagrass beds, and mangroves. Baseline studies help assess and monitor changes due, for example, to human population growth, sea level change, and global warming. Therefore, six benthic cores were collected quarterly from six locations from May 2015 to February 2016 using a 7.7-cm PVC corer to examine macroinfaunal composition, richness and diversity in relation to environment, month, and sediment characteristics (e.g., composition and sphericity). Results suggest a latitudinal gradient of infaunal abundance and diversity, which was negatively correlated with median grain size. The middle sites located nearer the Florida Current and adjacent to the extensive carbonate deep ridge complex recorded higher percentages of carbonate and median grain size than the northernmost and southernmost sites. The dominant fauna included polychaetes (chiefly Armandia agilis, Paraonis fulgens, and Leitoscoloplos fragilis), isopods (Eurydice piperata and Ancinus depressus), and mysid shrimp (Chlamydopleon dissimile). Polychaetes dominated most samples and sites; however, peracarid crustaceans (chiefly isopods) dominated three sites in May and four sites in February samples. The recency of beach replenishments showed no long term effects on the infauna. This study provides an initial baseline that will permit comparison with future macroinfaunal and sediment studies along the southeastern Florida coast.

Grunda, näringsrika sjöar förekommer i två stadier: antingen ett med grumligt vatten och hög biomassa av växtplankton, eller ett med klart vatten och riklig undervattensvegetation. Det klara stadiet är eftersträvansvärt eftersom det skapar goda förutsättningar för en rad ekosystemtjänster, inklusive vattenkvalitet, rekreation och förutsättningar för biodiversitet. Vid eutrofiering, d v s ökat tillskott av näringsämnen, kvarstår det klara stadiet tills näringsbelastningen blir så hög att sjön övergår till ett grumligt stadium. Sjön Tåkern, i Östergötland, har under de senaste åren blivit alltmer eutrofierad och kalkning av vattnet har diskuterats som en möjlig åtgärd för att bevara det klara stadiet som sjön numera befinner sig i. Undersökningar om kalkning av eutrofierade sjöar har gjorts tidigare, men det har varit få studier av effekterna av kalkning på undervattensvegetation, substratlevande djur och påväxtalger. För att undersöka detta, gjordes ett fält- och ett laboratorieexperiment inriktade på effekter på överlevnad av vattengråsugga, Asellus aquaticus, fysiologisk status (halten klorofyll a) i kransalgen Chara globularis och tillväxt av nyetablerade påväxtalger i sjön Tåkern. Resultaten visar att A. aquaticus hade lägre överlevnad efter kalkning till pH 10 i laboratorieexperiment, men i fältförsöket hade kalkning till detta pH inte någon inverkan. C. globularis hade en högre halt klorofyll a efter kalkning till pH 10 i laboratorieexperimentet, men i fältexperimentet hade kalkning ingen effekt på halten klorofyll a. Påväxtalger hade en lägre tillväxthastighet efter kalkning i fältexperimentet. Slutsatsen är att kalkning kan vara en metod för att motverka eutrofiering av sjön Tåkern. Några inkonsekvenser mellan mesokosm- och laborationsresultaten tyder på att fler studier behövs göras för att undersöka hur kalkning till pH 10 påverkar bentiska organismer. / Shallow, nutrient-rich lakes can occur in two alternative states: either a turbid water state with high biomass of phytoplankton, or a clear water state with abundant submerged vegetation. The clear water state is worth striving for because it creates good conditions for a range of ecosystem services and biodiversity. Lake Tåkern, Östergötland, has in recent years become increasingly eutrophic and liming has been discussed as a method to reduce the phosphorus level and maintain, or trigger a shift to, the clear water state. Investigations regarding the effects of liming of eutrophic lakes on phosphorus level and plankton have been performed in the past, but few studies have examined the effects on submerged vegetation, benthic invertebrates and periphyton. To study this, a field and a laboratory experiment were performed to examine how liming to pH 10 affects survival of the benthic invertebrate Asellus aquaticus, the chlorophyll a content in the stonewort Chara globularis and growth of periphyton. Survival of A. aquaticus was not affected in a field mesocosm experiment in Lake Tåkern, but decreased after liming in a laboratory experiment. The chlorophyll a content of C. globularis was not affected in the field experiment but higher than in the controls in the laboratory experiment. Growth of periphyton was reduced in the field experiment. Based on the field experiment, effects on A. aquaticus and C. globularis were negligible, but the laboratory experiment indicate that liming to pH 10 may under certain conditions affect benthic organisms. The conclusion is, however, that liming can be a suitable method to counteract the eutrophication of Lake Tåkern. Some inconsistencies between the field and laboratory results suggest that more studies needs to be made to see how liming to pH 10 affect benthic organisms.

Artificial reefs (ARs) are generally created with the intention of increasing local fish populations, biodiversity and corresponding habitat productivity, most often in support of commercial and recreational uses (e.g., diving and fishing). Numerous studies have investigated the communities that develop on artificial reefs. By contrast, far less research has focused on the surrounding infaunal communities, which represent critical trophic resources for many species that populate both natural and artificial reefs, and which may be affected both by AR deployment and the organisms that subsequently recruit to them. This study compared infaunal organism abundances at four sites between the inner and middle reefs off Broward County, Florida, before deployment of a series of Florida Department of Transportation (FDOT) AR boulders in 2009 (pre-construction) and four years later in 2013 (post-construction). Samples consisted of sediment collected in hand-held core tubes taken on open sediment adjacent to the proposed ARs and along transects at distances 3 m and 7 m from the ARs post-construction. Sample depths ranged from 12.1 to 14.6 m. Analyses were carried out on organisms retained on a >0.5 mm sieve and identified to the lowest practical taxonomic level. Data consisted of abundances rather than densities, because pre-construction samples did not record sediment volume per core. A total of 163 taxa were identified, of which only 50 were identified to genus and 64 to species. Polychaete families Spionidae, Sabellidae, Syllidae, and Hesionidae, and sipunculan superfamily Phascolosomatidea dominated pre-construction samples. Polychaetes also dominated post-construction samples, with high relative abundances of Sabellidae and Hesionidae, but with increased proportions of bivalves and amphipods. Statistical analyses (PRIMER, PERMANOVA, and SIMPER) determined whether infaunal composition, richness and, diversity differed among samples by year, site and distance from AR boulders. A slight but statistically insignificant difference in species diversity appeared between 3- and 7-m distances between years. However, composition, richness, and diversity of infauna did not differ either between pre-and post-construction samples or by sample distance from the adjacent AR boulders. The increase in homogeneity among samples post-construction may reflect recovery following the disturbance created by AR deployment, or a response to different benthic conditions generated by AR deployment. As other studies have suggested that AR fauna may influence surrounding infaunal communities to distances greater than 7 m, and that conditions may not stabilize around ARs for up to ten years following deployment, additional sampling is recommended to determine the longer-term effects of the FDOT ARs on infauna and benthic habitat (e.g., sediment composition, water movement) and assist in determining best practices for future AR deployments (e.g., composition, structure, location).

Abstract In this thesis, I studied the patterns in the assemblage composition as well as the biogeography and ecology of spring macroinvertebrates and bryophytes in Finland. My main objectives were to assess the importance environmental variables to macroinvertebrate and bryophyte assemblage composition in springs at the level of multiple spatial scales. In addition, I assessed the importance of springs in the boreal mire landscape, and sought the ecological and environmental determinants of a key species in boreal springs. In a large-scale study, I also examined the concordance between macroinvertebrates and bryophytes across boreal ecoregions, and assessed how macroinvertebrate assemblage variation corresponds to terrestrially-based ecoregions. Locally, spring macroinvertebrate assemblage structure displays high variation between different kinds of mesohabitats within springs, highlighting the importance of careful sampling of all habitat types in spring surveys. Helocrenes and other aquatic-terrestrial ecotone habitats harbour the highest species diversity and most spring-dependent species among spring habitat types. Further, spring-influenced mire patches were shown to have distinct cranefly assemblages in the mire landscape and to harbour higher cranefly diversity than mire types with lower trophic status, emphasising the importance of springs for mire biodiversity. Regionally, a red-listed spring-dependent caddisfly species appeared to be a surrogate for a high spring conservation value, indicating high overall species diversity and the occurrence of additional red-listed species. On a large geographical scale, intersecting the boreal ecoregions, a pattern of gradual change of benthic macroinvertebrate assemblage composition from south to north was detected, largely corresponding to terrestrially-derived ecoregions. However, the physical attributes of springs also need to be taken into account in bioassessment studies. Macroinvertebrate assemblage variation also correlated with physical habitat-scale variables, but not with changes in water chemistry. In contrast, spring bryophyte assemblages showed a distinct response to variation in water chemistry, but not to variation in physical habitat characteristics. Bryophytes and insect assemblages were concordant with each other on the large geographical scale, although the concordance was rather weak. Because of their different kind of responses to the physical and chemical variables, insects and bryophytes of springs are poor surrogates for each other in boreal springs.

Two differently structured food webs can be distinguished in the pelagic habitat of aquatic systems; the classical one (autotrophic) with phytoplankton as a base and the microbial food web (heterotrophic) with bacteria as a base. Energy (produced at the basal trophic level) reaches higher trophic levels, i.e. zooplankton, directly in the classical food web in contrast to the microbial food web where it passes through additional trophic levels before reaching zooplankton. Energy is lost between each trophic level and therefore less energy should reach higher trophic levels in the microbial food web than in the classical food web. However, factors such as edibility of prey, temperature and properties of the predator, might also influence the food web structures and functions. In this thesis I studied which factors are important for an efficient carbon transfer and how a potential climate change might alter the food web efficiency in pelagic and pelagic-benthic food webs in the Baltic Sea. Furthermore, one of the most dominant zooplankton in the northern Baltic Sea, Limnocalanus macrurus, was studied in order to establish the seasonal pattern of lipid reserves in relation to food consumption. My studies showed that the carbon transfer efficiency during summer was not directly connected to the basal production, but factors such as the ratio between heterotrophs and autotrophs, the relationship between cladocerans and calanoid copepods and the size and community structure of both phytoplankton and zooplankton were important for the carbon transfer efficiency. In a climate change perspective, the temperature as well as the relative importance of the microbial food web is likely to increase. A temperature increase may have a positive effect on the pelagic food web efficiency, whereas increasing heterotrophy will have a negative effect on the pelagic and pelagic-benthic food web efficiency, reduce the fatty acid content of zooplankton and reduce the individual weight of both zooplankton and the benthic amphipod Monoporeia affinis. During the seasonal study on the calanoid copepod L. macrurus, I found that this species is mainly a carnivore, feeding on mesozooplankton during most of the year but switches to feeding on phytoplankton when these are abundant. Furthermore, when food is scarce, it utilizes lipids that are built up during the course of the year. From these studies I can draw some major conclusions; there are many factors that influence how efficient carbon is transferred in the food web and different factors are probably of various importance in different areas. In order to determine the carbon transfer efficiency, the various strategies exerted by different organism groups have to be considered, as for example that some zooplankton utilize lipid reserves instead of feeding all year around. Also, in a climate change perspective, the pelagic-benthic food web efficiency will decrease, as will the quality of zooplankton and M. affinis, possibly having implications for higher trophic levels such as fish.

The majority of lakes on Earth are shallow, unproductive and located at high latitudes. These lakes are experiencing big changes due to climate change, where two environmental drivers operate simultaneously, browning and warming. How they affect lake ecosystems is not well understood. Here, I addressed this issue by using a theoretical and an experimental approach. In particular, I generated model predictions and compared them with the results of a realistic large-scale experiment, where browning and warming were manipulated in a factorial design. In addition, model outcomes were compared with data from 12 unproductive lakes sampled along a gradient of browning. Another novelty of my thesis is that it integrates benthic and pelagic food web components in the model and experimental approaches. I found that browning affected the resources availability for benthic and pelagic producers in the model and in the experiment. With browning, benthic primary producers became increasingly light limited and declined, while pelagic producers became less nutrient limited and increased. Pelagic nutrient limitation was alleviated by two non-exclusive mechanisms. Browning directly enriched the water with nutrients, and browning indirectly increased the nutrient flowing from the sediment to the pelagic habitat via suppression of benthic producers. To tease apart these two mechanisms I applied structural equation modeling (SEM). The indirect evidence by SEM suggests that both mechanisms contributed equally to the pelagic nutrient concentration in the experiment. Interestingly, a model food web with only primary producers shows similar qualitative behavior as a food web with grazers and carnivores included. This happens because carnivorous fish exert strong top-down control in the more productive habitat, which relaxes grazing pressure on primary producers and increases resource limitation in the adjacent habitat. Biomass of benthic and pelagic consumers followed the same pattern as their resources. The lake data were largely congruent with model expectations and supported the findings of the experiment. Furthermore, the model also predicted a negative relationship between total phosphorus and both primary and fish production, which was observed across the 12 lakes. Warming effects were more complex. The model predicts that warming effects should depend on browning and are expected to be strongest in the more productive of the two (benthic and pelagic) habitats. For example, at low levels of browning the biomasses of benthic algae and fish are expected to decline with warming, which was observed in the experiment. In contrast, observed warming effects at high levels of browning deviated from model expectations. The mechanisms by which browning and warming interactively affect lake food webs are still poorly understood. This thesis offers a conceptual foundation for their further study through the integration of within- and between-habitat interactions.