Submitted by Caroline Falcao (caroline.rfalcao@ufpe.br) on 2017-05-22T17:05:47Z No. of bitstreams: 2 license_rdf: 1232 bytes, checksum: 66e71c371cc565284e70f40736c94386 (MD5) Tese_Lacerda2014 (versão BC).pdf: 15671958 bytes, checksum: bd96e677f6b27688458828455de7708d (MD5) / Made available in DSpace on 2017-05-22T17:05:47Z (GMT). No. of bitstreams: 2 license_rdf: 1232 bytes, checksum: 66e71c371cc565284e70f40736c94386 (MD5) Tese_Lacerda2014 (versão BC).pdf: 15671958 bytes, checksum: bd96e677f6b27688458828455de7708d (MD5) Previous issue date: 2014 / As zonas costeiras são consideradas áreas de transição entre os domínios continental e marinho, apresentando alta complexidade e dinamismo. Representando aproximadamente 10% das áreas emersas habitáveis, abrigam atualmente cerca de dois terços da população mundial proporcionando inúmeros serviços econômico-sociais a sociedade humana, que em constante expansão sobrecarrega cada vez mais esses ambientes que exercem papéis ecológicos fundamentais na manutenção da biodiversidade (e produtividade) local e de ecossistemas adjacentes (terrestre e marinho). Dentre os diferentes ecossistemas costeiros, os sistemas estuarinos são bastante conhecidos por estarem presentes em praticamente toda a costa brasileira, assim como por apresentarem grande importância ecológica, econômica e social. Na costa nordeste do Brasil muitos ecossistemas estuarinos ainda encontram-se pouco ou até mesmo não estudados, deixando uma lacuna nos estudos ecológicos referentes a esses ecossistemas que além de grande dinamismo também apresentam muitas particularidades, principalmente ao longo dessa região (NE) onde a plataforma continental é mais estreita. Dessa forma, durante o período de doze meses o habitat praia estabelecido na porção externa do estuário do Rio Goiana foi amplamente estudado, tendo como objetivo principal, avaliar o potencial desse ambiente como berçário para as assembleias de peixes. Um total de três desenhos amostrais foram elaborados e executados nas praias adjacentes a foz do Rio Goiana. A partir do esforço amostral, aspectos relacionados à composição e dinâmica da comunidade de fauna, assim como, características morfodinâmicas e ambientais, foram descritos pela primeira vez nesse habitat, que atualmente encontra-se sob a condição de Reserva Extrativista (RESEX Acaú-Goiana). Foi identificado que as praias adjacentes ao estuário ocorrem junto a um extenso terraço de baixa-mar, cortado pelo canal principal do rio ao longo da margem sul do estuário. Por se tratar de um ambiente dominado pela maré, diferentes ciclos ambientais como o ciclo lunar e circadiano, apresentaram grande influencia nos padrões das variáveis ambientais (salinidade, temperatura da agua, oxigênio dissolvido e profundidade), assim como, no uso do habitat pelas diferentes espécies da fauna. A diferença no regime de chuvas ao longo do ciclo sazonal mostrou-se determinante na composição da comunidade biótica das praias, dominadas por espécies estuarinas durante a estação chuvosa, e abrigando um maior número de espécies costeiras durante a estação seca. Esse ciclo sazonal do habitat, estimulado pelas oscilações de variáveis ambientais como salinidade e temperatura, permite que o habitat contemple um maior número de espécies, e aumenta a eficiência do fluxo de energia entre a porção interna do estuário e habitats costeiros adjacentes. A porção externa do estuário do Rio Goiana proporciona um extenso habitat de aguas rasas, ideal para o desenvolvimento inicial de varias espécies de peixes e crustáceos. É nesse habitat, que o berçário de espécies chave para a subsistência de famílias tradicionais como, Mugil spp. e Callinectes danae ocorre. O grande acúmulo de matéria orgânica, típico de terraços de maré, associado às baixas profundidades e transparência, promovem proteção e recursos alimentares para inúmeras espécies em desenvolvimento inicial, se apresentando assim, como uma importante alternativa de berçário para as assembleias de peixes e crustáceos. As praias estudadas podem exercer um importante papel na manutenção da biodiversidade do ecossistema estuarino e adjacente. As informações levantadas no presente estudo são inéditas, podendo servir de auxilio aos órgãos competentes, em seus planos de manejo de ecossistemas costeiros em unidades de conservação. / Coastal areas are considered transition zones between continental and marine environments, with high complexity and dynamism. Representing approximately 10% of the habitable emerged areas, currently home to about two-thirds of the world population providing numerous services (economic and social) to human society, which in constantly expanding, overwhelms these environments which performing key ecological roles in the maintenance of local biodiversity (and productivity ) and in the adjacent ecosystems (terrestrial and marine). Among the different coastal ecosystems, estuarine systems are well known to be present in practically the entire Brazilian coast, as well as presenting ecological, economic and social services. On the northeast coast of Brazil many estuarine ecosystems are still little or even not studied, leaving a gap in ecological estuarine studies, especially over this region (NE), where the continental shelf is narrower providing many particularities to this ecosystems. So, during the twelve-month period, the beach habitat established in the outer portion of the estuary Goiana was widely studied, with the main purpose of evaluating the potential of this environment as a nursery for fish assemblages. A total of three sampling designs were developed and implemented in the sandy beaches adjacent to Goiana River’s mouth. Aspects related to the composition and dynamics of the faunal community, as well as, morphodynamic and environmental features, were described for the first time in this area, a Marine Conservation Unit, of type Extractive Reserve (RESEX Acaú-Goiás). It was identified that the adjacent estuarine beaches occur along an extensive low tide terrace, crossed by the Goiana main channel along the southern shore. As a tide dominated environment, different environmental cycles, such as circadian and lunar cycle, had great influence on the patterns of environmental variables (salinity, water temperature, dissolved oxygen and depth), as well as in habitat use by different fauna species. The differences in rainfall regime along the seasonal cycle, proved decisive in the composition of the biotic community, dominated by estuarine species during the rainy season, and harboring a greater number of coastal species during the dry season. This seasonal cycle of the habitat, allows the sandy beaches to contemplate a larger number of species, and increases the efficiency of energy flow between the inner portion of the estuary and adjacent coastal habitats. The outer portion of Goiana River estuary provides an extensive shallow water habitat, ideal for the initial development of various species of fish and crustaceans. In this habitat, the nursery of key species for the livelihoods of traditional families as Mugil spp. and Callinectes danae occurs. The large accumulation of organic matter (wrack), typical of tidal terraces, associated to lowest depths and water transparency, promote protection and food resources for many species in early development, presenting as an important alternative nursery and feeding site for fish and crustaceans species. Thus, the sandy beach habitat plays an important role in the livelihood of the local community, as well as in maintaining the biodiversity of estuarine-coastal continuum. The information gathered in this study, should be taken into account by environmental agencies in their planning of coastal ecosystems.

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / In Caatinga environments are frequent catastrophic weather events that ultimately shape the plant and animal life in this biome. Thus, this study aimed to assess how the lizards species of Monumento Natural Grota do Angico, Sergipe, respond to environmental variations in time and seasonal. For this was used information, taken between January 2010 and December 2011, concerning the community structure and reproduction. We recorded 14 species of lizards belonging to eight families. With respect to wealth, there were minor changes between years and between seasons studied. The total abundances and each lizard species varied both between years and between the sites. Tropidurus hispidus prevailed at sites 2 and 3, while Cnemidophorus ocellifer at site 1, in both years studied. The most abundant species at each site in 2010 remained in 2011. Modifications in relation to the dry and rainy seasons in the abundances of lizards did not show. The results of canonical correspondence analysis for years and for the stations showed an association between the occurrence of lizards and environmental variables (number of bromeliads, the proportion of exposed rocks and soil and rainfall). In general, when considering the variety of sites in the years and the stations, the site 1 was the most diverse followed by sites 3 and 2, respectively. Regarding reproduction, it was continuous for C. ocellifer, Lygodactylus klugei and Tropidurus semitaeniatus and probably is linked to the unpredictability of the Caatinga climate. Since T. hispidus reproduce seasonally, coinciding with the rainy season. Cnemidophorus ocellifer and T. hispidus showed differences in activity between the reproductive years, which are related to changes in local precipitation. The size of the litter, C. ocellifer and L. klugei produced up to two eggs at a time, T. hispidus two to four eggs and T. semitaeniatus two eggs per clutch. Cnemidophorus ocellifer, L. klugei and T. hispidus have multiple spawns. Finally, the accumulation of fatty bodies in C. ocellifer did not respond to fluctuations in rainfall and T. hispidus and T. semitaeniatus seem to occur after the period of highest rainfall this environmental variable, but no relation to the reproduction of these animals was observed. / Em ambientes de caatinga são frequentes eventos climáticos catastróficos que acabam por modelar a vida animal e vegetal neste bioma. Assim, este trabalho teve por finalidade avaliar como as espécies de lagartos do Monumento Natural Grota do Angico, Sergipe, respondem às variações ambientais em termos temporais e sazonais. Para isso foram utilizadas informações, tomadas entre janeiro de 2010 e dezembro de 2011, referentes à estrutura da comunidade e reprodução. Foram registradas 14 espécies de lagartos, pertencentes a oito famílias. Com relação à riqueza, foram verificadas pequenas modificações entre os anos e entre as estações estudadas. As abundâncias totais e de cada espécie de lagarto variaram tanto entre os anos, como também entre os sítios. Tropidurus hispidus prevaleceu nos sítios 2 e 3, enquanto que Cnemidophorus ocellifer no sítio 1, em ambos os anos estudados. As espécies mais abundantes em cada sítio no ano de 2010 se mantiveram no ano de 2011. Modificações em relação às estações seca e chuvosa nas abundâncias dos lagartos não foram evidenciadas. Os resultados das análises de correspondência canônica para os anos e para as estações mostraram uma associação entre a ocorrência dos lagartos e as variáveis ambientais (número de bromélias, proporção de rochas e de solo exposto e pluviosidade). No geral, quando considerada a diversidade dos sítios entre os anos e as estações, o sítio 1 foi o mais diverso, seguido dos sítios 3 e 2, respectivamente. Com relação à reprodução, ela foi contínua para C. ocellifer, Lygodactylus klugei e Tropidurus semitaeniatus e provavelmente esteja ligada à imprevisibilidade climática da caatinga. Já T. hispidus reproduziu sazonalmente, coincidindo com a estação chuvosa. C. ocellifer e T. hispidus apresentaram diferenças na atividade reprodutiva entre os anos, sendo estas relacionadas com mudanças na precipitação local. Quanto ao tamanho da ninhada, C. ocellifer e L. klugei produziram até dois ovos por vez, T. hispidus de dois a quatro ovos e T. semitaeniatus dois ovos por ninhada. Cnemidophorus ocellifer, L. klugei e T. hispidus apresentam múltiplas desovas. Por fim, o acúmulo de corpos adiposos em C. ocellifer não respondeu às flutuações na pluviosidade e em T. hispidus e T. semitaeniatus parecem ocorrer depois do período de maior precipitação dessa variável ambiental, porém nenhuma relação com a reprodução desses animais foi evidenciada.

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior - CAPES / Crustacea is mentioned as a dominant group in almost all continental shelf environments around the Brazilian coast and the taxonomic group with more studies. However, the carcinofauna of some Brazilian shelfs are poorly known, such as Sergipe state. The aim of this study is contribute for the knowledge of Crustacea, components of benthic megafauna from continental shelf of Sergipe and understand how populations communities vary spatially and temporally. The crustaceans were collected with otter trawl in two different seasonal periods, 18 stations between 36°32'W 10°36'S e 37°05’W 11°21’S distributed in 6 transects and in 10, 20 and 30 m isobaths, for a total of 72 stations sampled, between the years 1999 and 2000. Environmental parameters from water and sediment were collect in each station. In laboratory, the organisms were identified to species level and analyzed in terms of richness, abundance and biomass, and the community in terms of diversity indices, equitativity, frequency of occurrence and relative importance indices. The Crustacea was represented by 62749 individuals, distributed in 71 taxa, 199.97 kg of biomass and 77.81km² of density. The collected organisms are representatives of 2 orders, 4 infraorders, 25 families, 46 genus and 64 species. Brachyura presented the greatest number of taxa with 39, followed by Caridea with 12, Dendrobranchiata with 9, Anomura with 7, Stomatopoda with 2 and Achelata with 1. The community was abundant and displayed considerable richness; however, diversity and equitability were low, showing the dominance of the species X. kroyeri, N. schmitti, L. schmitti, F. schmitti and C. ornatus. The fauna varied in space and time and the main abiotic parameters that explain these variations were depth, temperature and the bottom type, especially coarser sediments with high levels of sand and gravel. Six species of Crustacea were recorded for the first time from Sergipe continental shelf, 3 Brachyura (Allactaea lithostrota, Coryrhynchus riisei e Ericerodes minusculus), 2 Caridea (Alpheus armillatus, A. cf. packardii e A. intrisecus) e 1 Stomatopoda (Squilla brasiliensis). / Os crustáceos são citados como grupo dominante em quase todos os ambientes de plataforma ao longo do litoral brasileiro, sendo também o grupo com maior volume de trabalhos realizados. No entanto, algumas plataformas brasileiras ainda têm sua carcinofauna precariamente desconhecida, como é o caso de Sergipe. Nesse sentido, esse trabalho visa contribuir para o conhecimento dos Crustacea, componentes da megafauna bêntica, da plataforma continental de Sergipe, bem como entender como as populações que compõe essa comunidade se distribuem espacial e temporalmente ao longo da plataforma. Os crustáceos foram coletados a partir de arrastos duplos com rede de arrasto pesqueiro em quatro campanhas amostrais entre 1999 e 2000, em 18 estações entre 36°32'W 10°36'S e 37°05’W 11°21’S distribuídas em seis transectos, nas isóbatas de 10, 20 e 30 m, totalizando 72 estações amostradas. Também foram coletados os parâmetros ambientais da água e do sedimento para cada estação. Os organismos foram identificados até o nível de espécie, utilizando literatura taxonômica específica, e analisados em termos de riqueza, abundância e biomassa e, a comunidade foi analisada a partir dos índices de diversidade, equitatividade, frequência de ocorrência e índice de importância relativa. A fauna de Crustacea esteve representada por 62749 indivíduos distribuídos em 71 táxons que somaram 199.97 kg de biomassa úmida e uma densidade de 77.81 ind./km². Os organismos coletados são representantes de 2 ordens, 4 infraordens, 25 famílias, 46 gêneros e 64 espécies. Dos grupos principais de Crustacea, Brachyura apresentou maior número de táxons com 39, seguido de Caridea com 12, Dendrobranchiata com 9, Anomura com 7, Stomatopoda com 2 e Achelata com 1. A comunidade estudada foi abundante e com uma riqueza considerável, mas a diversidade e equitatividade da fauna foram baixas, evidenciando a dominância das espécies X. kroyeri, N. schmitti, L. schmitti, F. schmitti e C. ornatus para a fauna de Crustacea da plataforma continental. A fauna variou em função do tempo e do espaço e os principais parâmetros abióticos que explicaram essas variações foram a profundidade, a temperatura e o tipo de fundo, principalmente os sedimentos mais grossos com altos teores de areia e cascalho. Dentre os Crustacea identificados, foram registrados pela primeira vez para a plataforma continental de Sergipe seis espécies, sendo 3 Brachyura (Allactaea lithostrota, Coryrhynchus riisei e Ericerodes minusculus), 2 Caridea (A. cf. packardii e A. intrisecus) e 1 Stomatopoda (Squilla brasiliensis).

Tropical forests, which provide important ecosystem functions and services, are increasingly threatened by anthropogenic pressures. This has resulted in an urgent need to understand tree species diversity of those forests. Where knowledge of that diversity is largely from the botanical surveys and local ecological studies, data must inevitably be up-scaled from point observations to the landscape and regional level if a holistic perspective is required. This thesis explores aspects of the spatio-temporal heterogeneity of canopy reflectance patterns over the forests of French Guiana, in order to assess whether this information could help defining an ecologically consistent forest typology. To gain insight into both the spatial and temporal heterogeneity of French Guiana’s forests, instrumental artefacts affecting the satellite data first had to be addressed. Data used in this study represent the spectral response of forest canopies, and the way in which such data are captured makes them susceptible to the ‘bi-directional reflectance distribution function’ (BRDF). BRDF indicates that objects do not reflect light in equal proportions in all directions (isotropically). Thus, forest canopies will reflect light anisotropically depending on factors including canopy roughness, leaf optical properties and inclination, and the position of the sun relative to the sensor. The second chapter of this thesis examines how BRDF affects the canopy reflectance of forests in French Guiana, and how not correcting for BRDF affects spectral classifications of those forests. When monthly reflectance data corrected for the artefact are examined, these suggest seasonally-occurring changes in forest structure or spectral properties of French Guiana’s forests. The third chapter of this thesis thus examines temporal effects of BRDF, and used cross-regional comparisons and plot-level radiative transfer modelling to seek to understand the drivers of the monthly variation of the forests’ canopy reflectance. For the latter, the Discrete Anisotropic Radiative Transfer (DART) model was used along with aerial laser scanning (ALS) observations over different forest structures, indicating that the observed variation in reflectance (and derivatives known as vegetation indices) could not be explained by monthly variations in solar direction. At the regional scale, it was also demonstrated that forests in the Guiana Shield possess temporal variation distinct from forests in central Africa or northern Borneo, forests also lying just above the Equator. Had the observed temporal variation in vegetation indices been the result of BRDF, it would have been expected that the forests in the three zones would have similar patterns of variation, which they did not. Central African forests appear to have their greening synchronized with rainfall, whereas forests in the Guianas appear synchronized with the availability of solar radiation. Further analysis of the vegetation index time-series of observations also indicated that different types of forests in French Guiana possess distinct patterns of temporal variation, suggesting that tropical forest types can be discriminated on the basis of their respective “temporal signatures.” That was exploited in the fourth chapter of the thesis, which maps forests in French Guiana based on their combined spatio-temporal canopy reflectance patterns and by so doing presents a novel way of addressing forest typology, based on ecologically meaningful information. The thesis presented demonstrates that it is possible to adequately address remote sensing data artefacts to examine patterns of spatial and temporal variation in tropical forests. It has shown that phenological patterns of tropical rainforests can be deduced from remote sensing data, and that forest types can be mapped based on spatio-temporal canopy reflectance patterns. It is thus an important contribution to understand the ecology of tropical forests in French Guiana and to improve the toolbox of scientists dealing with the identification of spatio-temporal patterns observable in forests at the landscape level.

Resumo: A variação espacial e temporal da emissão de CO2 do solo é influenciada por atributos do solo relacionados à produção e ao transporte do gás soloatmosfera. Entretanto, ainda são escassos estudos visando compreender o efeito da topografia sobre a variabilidade da emissão de CO2 do solo, especialmente em área de conversão para o sistema de colheita da cana-de-açúcar mecanizada sem queima. Este trabalho tem como objetivo estudar as variações da emissão de CO2 do solo, em área cultivada com cana-de-açúcar, com histórico de colheita mecanizada sem queima, sob diferentes formas do relevo e posições na encosta. Foram selecionadas uma área situada numa superfície côncava (CONC) e outras duas em posições contrastantes numa superfície linear (encosta superior - ESUP e encosta inferior - EINF). Foram conduzidas avaliações da emissão de CO2 e de atributos do solo, nas três áreas, em duas situações distintas: (1) em 2004, um mês após plantio da cana-de-açúcar, foram conduzidas avaliações em pontos aleatórios em cada uma das três áreas, num mesmo dia, sendo a emissão de CO2, temperatura e umidade do solo avaliados ao longo de 7 meses e, (2) em 2005, um mês após o corte mecanizado da cana-de-açúcar crua, foi caracterizada a variabilidade espacial da emissão de CO2 e demais atributos do solo, por meio da semivariância, nas mesmas posições topográficas. A emissão total de CO2 no período de 7 meses de estudo em 2004 foi 19,26, 23,03 e 22,29 Mg CO2 ha-1 nas áreas CONC, ESUP e EINF, respectivamente. A variação temporal da emissão foi explicada por uma relação exponencial com temperatura, e uma relação linear com umidade do solo. O valor de 10 Q , calculado para as posições CONC, ESUP e EINF, foi de 1,98 (±0,34), 1,81 (±0,49) e 1,71 (±0,31). O efeito da forma do relevo e da posição topográfica sobre a variação da emissão de CO2 do ...(Resumo completo, clicar acesso eletrônico abaixo) / Abstract: The spatial and temporal variation of soil CO2 emission is influenced by several soil attributes related to CO2 production and gas transport from soil to atmosphere. However, few studies aiming to understand the effect of topography on the variability of CO2 emissions exist, especially on the sugarcane harvest system without prior burning. The objective of this work was to study the spatial and temporal changes of the soil CO2 emission in an area cultivated with sugar cane, having a mechanized crop system, under different relief forms and slope positions. In a landscape it was selected one area located in a concave form (CONC) and two others located at superior (ESUP) and inferior (EINF) positions in a linear form. It was conducted measurements of soil CO2 emission and soil attributes at the three different locations in two different situations: (1) in 2004, one month after sugarcane plantation, measurements were conducted with randomized repetitions for each area in each sampling day, and soil CO2 emission, soil temperature and soil moisture were also monitored during a period of 7 months, and (2) in 2005, one month after sugarcane harvesting without burning, the spatial variability of soil CO2 emission and soil attributes were characterized by the semivariance in the same topographic positions. Total soil CO2 emission during this period was 19,26, 23,03 e 22,29 Mg CO2 ha-1 for CONC, ESUP e EINF areas, respectively. Temporal variability of soil CO2 emission was explained by an exponential function with soil temperature and a linear function with soil moisture. The 10 Q values were 1.98 (±0.34), 1.81 (±0.49) and 1.71 (±0.31) for CONC, ESUP and EINF, respectively. The effect of relief form and topographic position on soil CO2 emission variation was dependent on the time of measurement. Bulk density, macroporosity, penetration resistance, aggregation and oxidizable organic ...(Comlete abstract, click electronic access below) / Orientador: Newton La Scala Júnior / Coorientador: José Marques Júnior / Banca: Carlos Eduardo Pellegrino Cerri / Banca: Zigomar Menezes de Souza / Banca: Gener Tadeu Pereira / Banca: Wanderley José de Melo / Doutor

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Le microbiome intestinal humain est une importante communauté de microorganismes, spécifique aux individus et aux populations, dont la composition est influencée par de nombreux facteurs, tels que la génétique et les habitudes de vie de son hôte. La diète est cependant un élément majeur façonnant sa structure. Les influences de plusieurs diètes humaines sur le microbiome ont été largement investiguées. Toutefois, l’impact des variations saisonnières inhérentes à certaines diètes est peu connu. La diète traditionnelle inuite est un exemple de régime alimentaire riche en graisses et protéines animales qui varie temporellement en fonction de la disponibilité saisonnière des ressources. Afin d’étudier les dynamiques temporelles du microbiome intestinal inuit en réponse à la diète traditionnelle, des échantillons de papier hygiénique contenant des selles ont été récoltés auprès d’un groupe de volontaire Inuits du Nunavut (Canada) durant huit mois. Un groupe contrôle de Montréalais (Québec, Canada) de descendance européenne, consommant une diète typiquement occidentale, a également été sollicité. La diversité et la composition du microbiome ont été caractérisées par le séquençage de la région V4 de l’ARNr 16s. Les microbiomes obtenus par un échantillonnage de papier hygiénique et de selles ont été comparés. Ces deux méthodes offrent des représentations similaires mais non-identiques du microbiome intestinal. À partir du séquençage d’échantillons de papier hygiénique, nous avons trouvé que les variations inter-individuelles du microbiome sont plus importantes que les variations intra-individuelles au sein de Montréal et du Nunavut. Des différences significatives de la composition du microbiome s’expliqueraient par la consommation différentielle de certains groupes alimentaires. Bien qu’aucune différence saisonnière marquée n’ait été observée, en termes de composition, le microbiome fluctue davantage à travers le temps chez les individus inuits. Ces résultats suggèrent que le microbiome inuit pourrait être façonné par une diète plus variable. Ensemble, nos résultats suggèrent que la diète traditionnelle a encore un impact important sur la composition, la diversité et la stabilité de microbiome inuit, malgré les transitions alimentaires vécues au Nunavut. / The human gut microbiome represents a diverse microbial community specific to individuals and populations, which is heavily influenced by factors such as genetics and lifestyle. Diet is a major force shaping the gut microbiome, and the effects of dietary choices on microbiome composition have been thoroughly investigated. It has been shown that a change in diet also changes the gut microbiome, but the effects of seasonal diets are poorly known. The traditional Inuit diet is primarily based on animal products, which vary seasonally based on prey availability. To investigate the dynamics of the Inuit diet over time, we collected gut microbiome samples from Inuit volunteers living in Resolute Bay (Nunavut, Canada), and compared them to samples collected from individuals of European descent living in Montréal (Québec, Canada) and consuming a typical Western diet. We sequenced the V4 region of the 16S rRNA gene to characterize the diversity and composition of the Inuit microbiome, and surveyed differences among samples collected with toilet paper or from stool. Our results show that these sampling methods provide similar, but non-identical portraits of the microbiome. Based on sequencing from toilet paper samples alone, we found that inter-individual variations of the microbiome community composition were greater than within-individual variations, both in Nunavut and Montreal, with significant differences in microbiome explained by dietary preferences. No defined seasonal shift of microbiome composition was detected in samples collected over time. However, within-individual microbial diversity fluctuated more with time in Nunavut than in Montreal. Together, these results underline that the traditional Inuit diet still has an important impact on the composition, diversity and stability of the Inuit gut microbiome, even if the traditional seasonality of the diet is less pronounced than expected, due to an increasingly westernized diet in Nunavut.

Au sein de la famille des Cyprinidés (Téleostéens), Parachondrostoma toxostoma (le toxostome) et Chondrostoma nasus (le hotu) sont deux espèces (respectivement endémique et invasive) qui se rencontrent dans le sud de la France, formant deux zones hybrides distinctes : la zone de la Durance (un milieu fortement fragmenté) et la zone de l'Ardèche (un milieu non fragmenté). La présence de ces deux zones hybrides nous a donné l'opportunité de caractériser les parts respectives de la sélection exogène (l'environnement) et endogène (compatibilité génomique) permettant d'expliquer les patterns d'hybridation entre les deux espèces. Les travaux présentés dans le cadre de cette thèse illustrent parfaitement la complexité des phénomènes d'hybridation, chaque situation étant fortement dépendante du contexte d'étude et ce à l'échelle même de la station. Nous avons montré dans certaines stations que l'espèce endémique résiste à l'introgression de son génome par l'espèce invasive, dans d'autres cas nous avons des scénarios plus complexe d'admixture qui évoluent au cours du temps. Le potentiel évolutif engendré par les phénomènes d'hybridation est cependant indéniable et nous préconisons de prendre en compte ces processus d'hybridation dans les programmes de gestions et de conservation de la biodiversité. / In the Cyprinidae family (Teleostei), Parachondrostoma toxostoma (the sofie) and Chondrostoma nasus (the nase) are respectively endemic and invasive species which are found in sympatry in the south of France. They form two distinct hybrid zones: the Durance River (a highly fragmented environment) and the Ardèche basin (an unfragmented area). The existence of these two different zones allow us to characterize the respective contributions of exogenous selection (environmental factors) and endogenous selection (genomic compatibility) to explain hybridization patterns between the two species.This PhD thesis highlights the complexity of hybridization phenomena. Each situation is highly dependent of the study context. We showed the resistance of the genome of the endemic species to introgression by the genome of the invasive species in some stations. In other cases, we demonstrated more complex scenarios of admixture that evolve over time. The evolutionary potential generated by hybridization is undeniable, and we recommend to take the hybridization process into account in management programs and conservation of biodiversity.

Le lac de Tonlé Sap (TSL), Cambodge, est un écosystème lac-rivière de forêt alluviale au régime d'écoulement alternatif. Le lac est un déversoir lors de l'inondation saisonnière du Mékong et sert de réservoir en période de basses eaux. La superficie du lac pendant la saison sèche (février à mai), est d'environ 2 700 km2 pour une profondeur d'environ 1 mètre. Cette superficie est pratiquement multipliée par six quand arrive la saison des pluies, pour atteindre près de 16 000 km2 et une profondeur de 9 mètres, noyant rizières et forêts. C'est le plus grand lac d'eau douce d'Asie du Sud-Est. C'est aussi l'une des zones de pêche d'eau douce les plus importantes et productives du monde avec près de 75% du volume annuel de pêche en eau douce du Cambodge, ce qui permet la survie de près de 2,5 millions de personnes. Les changements saisonniers du cycle hydrologique ont une influence sur la structuration des communautés de poissons à l'échelle temporelle et spatiale, mais aussi sur les comportements trophiques des principales espèces qui n'exploitent alors pas les mêmes habitats. Toutefois, le bassin versant du Mékong est en changement constant avec un développement important des infrastructures en lien avec l'eau : production d'hydro-électricité, besoins important en irrigation, maitrise des inondations, eau potable, ... Les changements climatiques accélèrent les modifications du cycle hydrologique annuel. Il est alors supposé que ces modifications ont des effets forts sur les habitats et les proies disponibles et finalement sur la biodiversité, notamment de l'ichtyofaune et sur l'abondance des poissons disponibles pour les pêcheries.Dans un premier temps, nous avons caractérisé les variations spatio-temporelles de la composition taxonomique des poissons et mis en lumière quels sont les déterminants de ces variations. À cette fin, nous avons estimé la diversité bêta comme la variance totale de la matrice site par communauté d'espèce et l'avons divisée en contribution locale à la diversité bêta (LCBD) et contribution des espèces à la diversité bêta (SCBD). Nous avons ensuite effectué plusieurs régressions linéaires pour déterminer si la richesse taxonomique, l'abondance des espèces et le niveau de l'eau expliquaient la variation temporelle de la contribution du site et de l'espèce à la diversité bêta. Nos résultats indiquent une forte variation temporelle de la diversité bêta due aux contributions différentielles des sites et des espèces à la variation spatiale de la composition taxonomique des poissons. Nous avons également constaté que la direction, la forme et l'effet relatif de la richesse spécifique, de l'abondance et du niveau de l'eau sur la variation temporelle des valeurs LCBD et SCBD varient grandement selon les sites. Ces résultats suggèrent ainsi une variation spatiale des processus conduisant à une variation temporelle de la composition de la communauté. Dans l'ensemble, nos résultats suggèrent que la composition taxonomique des poissons n'est pas distribuée de manière homogène dans l'espace et dans le temps et risque d'être affectée à l'avenir si la dynamique saisonnière d'écoulement du système est altérée par les activités humaines et/ou les changements climatiques. Dans un second temps, nous avons cherché à étudier le modèle d'évolution temporel des principales espèces en terme d'occurrence et d'abondance à travers le cycle saisonnier hydrologique. / The Tonle Sap Lake (TSL), Cambodia, is a flood-pulse system. It is the largest natural lake in South- East Asia and constitutes one of the largest fisheries over the world, supporting the livelihood 2.5 million peoples. Seasonal change in annual hydrological cycle appears to have influence on fish community structure, both spatial and temporal variation, particularly on feeding behavior of TSL's fishes. Nonetheless, the Mekong River Basin is changing rapidly due to accelerating water infrastructure development (hydropower, irrigation, flood control, and water supply) and climate change, bringing considerable modifications to the annual flood-pulse of the TSL. Such modifications are expected to have strong impacts on fish biodiversity, abundance, reduced habitat and food availability within the lake. To invest how TSL's fish community structure responds to the seasonal change, how they shift their diet across hydrological cycles and feeding competing for food resource: First, we aim to characterize the spatio-temporal variations of fish taxonomic composition and to highlights the underlying determinants of these variations. For this purpose, we estimated beta diversity as the total variance of the site-by-species community matrix and partitioned it into Local Contribution to Beta Diversity (LCBD) and Species Contribution to Beta Diversity (SCBD). We then performed multiple linear regressions to determine whether species richness, species abundances and water level explained the temporal variation in the contribution of site and species to beta diversity. Our results indicate strong temporal variation of beta diversity due to differential contributions of sites and species to the spatial variation of fish taxonomic composition. We further found that the direction, the shape and the relative effect of species richness, abundances and water level on temporal variation in LCBD and SCBD values greatly varied among sites, thus suggesting spatial variation in the processes leading to temporal variation in community composition. Overall, our results suggest that fish taxonomic composition is not homogeneously distributed over space and time and is likely to be impacted in the future if the flood-pulse dynamic of the system is altered by human activities. Second, we aim to investigate the temporal pattern of the most occurrence and abundance species and how their co-occurrence pattern across hydrological cycles. We found that occurrence and abundance patterns were temporally varied at all water level seasons. Strong temporal variation in species occurrence was occurred with visiting species such as Labiobarbus leptocheilus and Poropuntius deauratus while water level starts to fill into the TSL. We further observed that the abundance of 17 species was strongly varied while other 22 species (mainly TSL's residential species) were stable within the year. Positive species co-occurrence pattern was generally higher than negative species co-occurrence at all water level seasons. Highest positive co-occurrence patterns were found during the period of decrease and low water level seasons while fishes are migrating from flooded areas, competing for resource and habitats during low water season. Study on temporal distribution and species co-occurrence of fish and how community responds to the seasonal change in hydrological cycles provides critical information for fisheries management and conservation in the Tonle Sap Lake (TSL) as well as maintaining fish biodiversity in the Mekong system. Third, the implications of seasonality on food web structure have been notoriously understudied in empirical ecology, particularly in TSL's system. The current study, we focus on seasonal changes in one key attribute of a food web, vertical trophic position of consumers.

A interação entre plantas e seus visitantes florais forma uma rede de interação complexa. Essa rede de interação possui propriedades emergentes que caracterizam a estrutura da rede. A composição, a riqueza e o papel das espécies nas redes de interação podem variar espaço-temporalmente e levar a alteração na estrutura das redes. A estrutura também pode variar de acordo com o grau de dependência entre os pares de espécies. É esperado que interações com elevado grau de dependência mútua variem menos no tempo e no espaço. A interação entre as plantas produtoras de óleo floral e as abelhas coletoras de óleo é de alta dependência mútua, já que as abelhas necessitam do óleo para alimentar as larvas e construir ninhos e são polinizadores mais importantes dessas plantas. O alimento larval destas abelhas é composto por pólen, óleo e néctar. A quantidade de alimento disponível para as larvas pode influenciar o tamanho dos adultos quando emergirem. As espécies de abelhas coletoras de óleo são solitárias, ou seja, não existe contato entre as gerações. Assim uma abelha recém-emergida deve ser capaz de encontrar as fontes de óleo, seguindo algum sinal de atração, que poderia ser através de odores voláteis. No presente trabalho analisamos se a estrutura da rede de interação formada pelas plantas produtoras de óleo floral e seus visitantes coletores de óleo varia espacialmente e temporalmente. Para a análise temporal coletamos dados da interação por dois anos em Itirapina, São Paulo. No estudo de variação espacial comparamos as redes de interação em cinco áreas de cerrado no interior de São Paulo. Em ambos os estudos usamos métricas de redes complexas. Além disso, estudamos a relação entre tamanho de célula de cria e quantidade de alimento disponível para as larvas e tamanho das abelhas adultas ao emergirem, para uma espécie de abelha coletora de óleo: Tetrapedia diversipes. Para isso medimos abelhas e suas células de cria e relacionamos estas medidas. Também manipulamos a quantidade de alimento disponível para as larvas e medimos os adultos emergidos. Por fim, procuramos odores voláteis em Byrsonima intermedia. Coletamos odores voláteis com a técnica de dynamic headspace. Analisamos as coletas com GCMS. A estrutura da rede de interação entre as plantas produtoras de óleo floral e as abelhas coletoras de óleo variou espaço-temporalmente. A análise temporal mostrou que o grau de especialização da rede foi fortemente alterado entre os anos de estudo e que a abundância foi um fator importante para explicar a ocorrência das interações. As espécies que tiveram suas abundâncias alteradas entre os anos também tiveram alteração no número de interações. Na análise espacial observamos que as interações e as espécies compartilhadas entre os locais de estudo foram aquelas com maior grau de interação (generalista). Além das interações e espécies generalistas se manterem nas cinco localidades, as espécies generalistas sustentam as espécies localmente raras. Byrsonima intermedia foi considerada uma espécie super-generalista nas cinco redes analisadas e 77% das interações compartilhadas envolveram esta espécie. A morfometria dos indivíduos de Tetrapedia diversipes estudados foi positivamente correlacionada com o volume da célula de cria e a quantidade de alimento. Quando relacionamos o volume das células de cria com as medidas corpóreas das abelhas verificamos que as abelhas maiores emergiram em células maiores. No entanto essa relação foi fraca. Após o experimento de manipulação de alimento verificamos que as abelhas emergidas de células sem manipulação foram maiores que as abelhas que tiveram o alimento retirado, e que entre as abelhas manipuladas aquelas que receberam mais alimento foram maiores. Nós não encontramos odores voláteis em flores de Byrsonima intermedia. / The plant pollinator interaction forms a complex network. These networks have emergent properties that characterize the structure of network. The number, identity and species role of the network may vary spatio-temporally and lead to changes in the structure of the networks. Moreover, the structure may vary according to the dependence degree of the interacting pairs. It is expected that interactions with a high mutual dependence degree are more stable. The interaction between oil producing plants and oil collecting bees is highly mutual dependence, since bees need oil to feed the larvae and are pollinators of these plants. The larval diet consists of pollen and oil/nectar. The amount of food available to the larvae may influence the adults size. The oil collecting bees are solitary, i.e., there is no contact between generations. Thus, a naive emerged bee should be able to find the oil plants, using some attractive cues that could be volatile odor. In this work we want to answer if the network structure of the interaction between oil producing plants and oil collecting bees varies spatially and temporally. For the temporal analysis we carried out field work for two years at Itirapina, São Paulo. In the study of spatial variation we compare interaction networks in five areas of cerrado. In both studies we use metrics of complex networks. Furthermore, we studied the relation between size of adult bees (Tetrapedia diversipes) and brood cell sizes and the amount of food available for the larvae. We measured the bees and their brood cells and relate it. Also we manipulated the amount of food available for the larvae and we took measures of the adults. Finally, we search for volatile odors in Byrsonima intermedia. We collect volatile odors with the technique of dynamic headspace. We analyzed the samples with GCMS. The network structure of interaction between oil producing plants and oil collecting bees varied spatio-temporally. The temporal analysis showed that the specialization degree of the network changed between the years and that the abundance has a key role to explain the occurrence of interactions. Species that had changed their abundances between years were also changed in the number of interactions. Spatial analysis found out that the interactions and species ubiquitous among the study sites were those that had the greatest interaction degree (generalist specie). Moreover, generalist species maintain the locally rare species. Byrsonima intermedia was regarded a super-generalist specie in the five networks analyzed and 77% of ubiquitous interactions involved this species. The morphometry of Tetrapedia diversipes individuals was positively correlated with the volume of the brood cells and the amount of food. When relating the volume of brood cells with measures of bees we found that larger bees emerged in larger cells. However this relationship was weak. The experiment of handling food showed that bees emerged from control cells were larger than bees that had the food removed, and between the manipulated bees those who received more food became bigger. We did not detect volatile odors in flowers Byrsonima intermedia.