Le but principal de cette thèse était d'étudier les caractéristiques de la matière organique dissoute (MOD) dans le bassin versant de la Seine. Ce travail a été réalisé dans le cadre du programme de recherche PIREN-Seine. Les travaux présentés ici visaient plus particulièrement à identifier les sources de MOD et à suivre son évolution dans les zones d’étude. L’analyse des propriétés optiques (UV-Visible, fluorescence) de la MOD, couplée aux traitements PARAFAC et ACP, a permis de discriminer différentes sources de MOD et de mettre en évidence des variations spatio-temporelles de ses propriétés. L’axe Seine, en aval de Paris, a notamment été caractérisé par l'activité biologique la plus forte. La MOD du bassin de l’Oise a montré des caractéristiques plus "humiques", tandis que le bassin de la Marne a été caractérisé par un troisième type spécifique de MOD. Il a d’autre part été mis en évidence la présence de MODs spécifiques dans chaque zone pour les échantillons prélevés en périodes d’étiage, alors qu’une distribution homogène des composants a été obtenue pour l’ensemble des échantillons prélevés en période de crue.Le rôle environnemental des colloïdes naturels étant étroitement lié à leur taille, il a d’autre part été développé une technique analytique/séparative originale pour l’étude de ce matériel complexe, un fractionnement par couplage flux/force avec flux asymétrique (AF4). Le fractionnement par AF4 des échantillons a confirmé la variabilité spatio-temporelle en composition et en taille de la MOD d'un site de prélèvement à un autre et a permis de distinguer différentes sources de MOD colloïdale confirmant les résultats de l’étude de ses propriétés optiques. / The main goal of this thesis was to investigate the characteristics of dissolvedorganic matter (DOM) within the Seine River catchment in the Northern part of France. ThisPhD thesis was performed within the framework of the PIREN-Seine research program. Theapplication of UV/visible absorbance and EEM fluorescence spectroscopy combined toPARAFAC and PCA analyses allowed us to identify different sources of DOM andhighlighted spatial and temporal variations of DOM properties. The Seine River wascharacterized by the strongest biological activity. DOM from the Oise basin seemed to havemore "humic" characteristics, while the Marne basin was characterized by a third specifictype of DOM. For samples collected during low-water periods, the distributions of the 7components determined by PARAFAC treatment varied between the studied sub-basins,highlighting different organic materials in each zone. A homogeneous distribution of thecomponents was obtained for the samples collected in period of flood.Then, a semi-quantitative asymmetrical flow field-flow fractionation (AF4) methodology wasdeveloped to fractionate DOM. The following optimized parameters were determined: across-flow rate of 2 ml min-1 during the focus step with a focusing time of 2 min and anexponential gradient of cross-flow from 3.5 to 0.2 ml min-1 during the elution step. Thefluorescence properties of various size-based fractions of DOM were evaluated by applyingthe optimized AF4 methodology to fractionate 13 samples, selected from the three sub-basins.The fluorescence properties of these fractions were analysed, allowing us to discriminatebetween the terrestrial or autochthonous origin of DOM.

As political debate over the overexploitation of fish stocks rages on, UBC’s Fisheries Centre is targeting the responsible management of aquatic ecosystems from multiple perspectives.

A regional survey of environmentally harmful substances in fish in autumn 2013 revealed elevated levels of polychlorinated biphenyls (PCBs) in perch from Lake Oxundasjön, north of Upplands Väsby in Stockholm County. Follow-up studies have shown that the quantity of PCBs contained in the lake is unique of its kind in Sweden, and that the area of influence also includes downstream Rosersbergsviken, a bay of Lake Mälaren. The elevated concentrations in fish exceed today's market limits and environmental quality standards for PCBs, as of this, responsible authorities discourage from consumption of fish from Lake Oxundasjön and Rosersbergsviken. The aim has been to use statistical analyses and mass-balance modelling to study the current state of the lake system and how it may evolve in the future under different circumstances. There is a statistically significant correlation between PCB levels in sediment and perch from 21 different sites in the Stockholm-Mälaren region, including Lake Oxundasjön and Rosersbergsviken, this was demonstrated with a linear regression model. With the multivariate analysis method principal component analysis (PCA), it was illustrated how the contaminant levels in fish from Lake Oxundasjön and Rosersbergsviken differed on contaminant levels in fish from other sites. The difference mainly concerned the size and composition of PCBs. Mass-balance modelling of quantities and flows of PCBs in Lake Oxundasjön and Rosersbergsviken was made in the simulation program STELLA®. The modelling indicated that the system currently serves as a secondary distribution source of PCBs to the environment. The recovery of PCB levels is slow in the system, it will take more than 25 years for concentrations in fish to reach today’s market limits and environmental quality standards for PCBs. The model was used to evaluate three different treatment methods for Lake Oxundasjön: dredging, capping and activated carbon treatment. Simulations of these treatments led to a substantial improvement of the PCB situation in Lake Oxundasjön. Moreover, they also had a positive impact on the recovery process in the downstream Rosersbergsviken. Future climate changes, with warmer temperatures and higher run off, led to a slightly faster recovery progress of PCBs in the system.

Dans les océans, les procaryotes sont des acteurs clés dans le cycle du carbone puisqu’ils consomment une fraction importante de la matière organique dissoute (MOD) relâchée par les producteurs primaires. Puisque cette matière organique est très complexe et de biodisponibilité variable, les communautés de procaryotes qui la consomme sont très diversifiées et spécialisées pour certains types de composés organiques. En utilisant cette matière organique, les procaryotes contribuent à réintroduire ce carbone dans le réseau trophique, une source d’énergie essentielle dans les gyres oligotrophes de l’océan. Toutefois, puisque cette consommation n’est pas parfaite, une quantité importante de carbone est relâchée sous forme de CO2 lors de la respiration, mais aussi sous forme de MOD récalcitrante, contribuant à séquestrer du carbone dans les océans. Le but de cette thèse est d’une part, de dresser un portrait global de la biodisponibilité de la MOD et d’autre part, de déterminer l’influence de la biodisponibilité de cette dernière sur la composition et le métabolisme des procaryotes dans la mer du Labrador, une mer dont le rôle est critique dans la régulation du climat. Plus spécifiquement, nous identifions pour la première fois comment la distribution spatiale des procaryotes influencent leur métabolisme et est influencée par leur préférence alimentaire dans les eaux de surface de la mer du Labrador. Finalement, nous regardons comment la matière organique produite en surface est transformée et séquestrée en profondeur suite à la convection hivernale dans la mer du Labrador. Le budget de carbone dans les océans n’est toujours pas balancé. Afin de mieux connaître les sources et la biodisponibilité du carbone dans les différents milieux aquatiques, nous avons évalué la biodisponibilité de la MOD à travers le continuum aquatique, des lacs jusqu’à l’océan. En menant une méta-analyse sur le sujet, nos résultats montrent que la proportion de matière organique labile, c’est-à-dire facilement utilisable par les procaryotes, est d’environ 6% dans tous les environnements aquatiques. Toutefois, la proportion de matière organique semi-labile, celle qui nécessite plus de transformation par les procaryotes, est grandement liée à la proximité au milieu terrestre. Les seuls écosystèmes aquatiques déviant de ces deux constats sont ceux en période d’efflorescence algale: ils contiennent beaucoup plus de carbone labile et semi-labile que ceux à l’équilibre. Nous avons estimé que le carbone semi-labile peut soutenir 62% de la biomasse de procaryotes dans les lacs et les milieux côtiers. Dans un deuxième temps, nous évaluons l’influence de la MOD sur le métabolisme et les communautés de procaryotes. Nous avons fait trois missions océanographiques sur la mer du Labrador à bord du navire Hudson pour déterminer la composition de la MOD et la communauté des procaryotes ainsi que leur métabolisme. En utilisant une approche novatrice, la modélisation de la distribution spatiale de l’abondance des procaryotes, nous avons montré à quel point celle-ci est importante pour déterminer leur préférence alimentaire ainsi que leur métabolisme. Nous avons également proposé un nouveau cadre conceptuel qui vise à faciliter la recherche à l’interface de la biogéochimie, de l’écologie microbienne et du métabolisme microbien. Dans un dernier temps, nous avons comparé la capacité des procaryotes venant de différentes profondeurs océaniques à séquestrer le carbone. Lors de la consommation de la MOD, les procaryotes en relâche une petite fraction sous forme plus récalcitrante. En répétant ce processus, le carbone résiduel devient très récalcitrant et peut résister à la consommation par les procaryotes durant des centaines d’années. Nous avons montré que les procaryotes de l’océan profond sont plus efficaces pour séquestrer le carbone de cette façon. Nos résultats montrent que ce sont les taxons rares des procaryotes qui sont les éléments clés dans cette suite de transformation qui mène à la séquestration du carbone appelée pompe microbienne. Cette thèse contribue à la compréhension du cycle du carbone dans la mer du Labrador et dans les écosystèmes aquatiques en général. Nous avons proposé une approche novatrice permettant de lier la qualité de la MOD à la composition des communautés de procaryotes qui la dégrade, un défi qui perdure depuis des dizaines d’années. De plus, nous montrons pour la première fois la que la pompe microbienne de carbone est un processus itératif fortement relié à la succession de la communauté de procaryotes. Nous montrons également que la pompe microbienne est active dans chaque strate océanique, mais que les procaryotes rares issus de l’océan profond sont plus efficaces à séquestrer le carbone. Mieux comprendre comment la composition de la MOD influence les procaryotes est primordial puisqu’ils sont centraux au cycle du carbone océanique. / Oceanic prokaryotes are key players in the carbon cycle by consuming dissolved organic mat-ter (DOM) produced by primary producers. As this organic matter is highly complex with varying degree of bioavailability, prokaryotic communities are highly diverse and different taxa target certain types of organic compounds. By consuming this organic matter, prokary-otes reintroduce this carbon into the food web, a critical energy flow in oligotrophic gyres. However, this consumption is not perfect and they release a lot of carbon as CO2 through respiration, but also as recalcitrant DOM. Thus, they contribute to carbon sequestration in aquatic ecosystems. The objective of this thesis is to characterize DOM bioavailability and its influence on the composition and metabolism of prokaryotic communities in the Labrador Sea, described as one of the Earth’s climate system tipping elements. More precisely, we quantify for the first time how the spatial abundance distribution of prokaryotes influences ecosystem metabolism and organic matter association in the surface waters of the Labrador Sea. Lastly, we look at how DOM produced at the surface is transformed and sequestered following the Labrador Sea winter convective mixing. The oceanic carbon budget is still unbalanced. In order to better understand its carbon sources and bioavailability, we characterize DOM bioavailability across the aquatic contin-uum, from lakes to the open ocean. Using a meta-analysis, our results show that the propor-tion of labile organic matter, i.e. readily available for prokaryotes, is similar at around 6% in all aquatic ecosystems. However, the proportion of semi-labile organic matter, i.e requiring transformations to be consumed by prokaryotes, is highly related to terrestrial connectivity. The only ecosystems that did not follow these patterns were in a phytoplankton bloom pe-riod and had a high proportion of labile and semi-labile organic matter as their counterparts at equilibrium. Finally, we estimated that semi-labile organic matter could sustain 62% of prokaryotic biomass in lakes and coastal zones. Second, we evaluated the influence of DOM on prokaryotic metabolism and community composition. In order to determine organic matter composition, prokaryotic community composition and metabolic rates, we did three oceanic cruises in the Labrador Sea onboard the Hudson ship. By using spatial abundance distribution modelling of prokaryotes, we identified strong associations between groups of this novel approach and organic matter composition. We also proposed a framework to bridge the gap between prokaryotic diversity, microbial ecology, and biogeochemistry among methods and across scales. Lastly, we compared how prokaryotic communities from different oceanic strata could se-quester carbon. When they consume organic matter, prokaryotes release a small amount in recalcitrant forms. Through this iterative process, called the microbial carbon pump, prokaryotes contribute to carbon sequestration by creating highly recalcitrant compounds that resist further degradation for hundreds of years. We have shown that all prokaryotes enable the microbial carbon pump, but that prokaryotes from deeper strata are more effi-cient. Our results also conclusively show that the rare prokaryotic taxa are key players in the microbial carbon pump. This thesis contributes to better understand the carbon cycle in the Labrador Sea and in all aquatic ecosystems. We proposed a novel framework to relate biogeochemistry, prokaryotic diversity and microbial ecology which has been a challenge for decades. Moreover, we con-clusively showed for the first time that the iterative process of the microbial carbon pump is related to prokaryotic succession. We also show that it happens in all oceanic strata, but that rare prokaryotes from the deep ocean are more efficient to sequester carbon. Better understanding how DOM composition influences prokaryotes is of prime importance as they are the main drivers of the oceanic carbon cycle.

Ongoing development of modern society, based on consumption of goods and services, leads to the increase of compulsoriness of economic agents to face market requirements by increasing the degree of local and regional industrialization. Establishment of new economic activities generates negative pressures on the environment and surface waters, generating increased pollution, manifested by vulnerability of aquatic ecosystems to stressors. Preliminary studies carried out within the doctoral thesis entitled 'Research on the evolution, magnitude and complexity of the impact of economic activities on the East Jiu' include information on characteristic elements of the East Jiu River basin, in accordance with the Water Framework Directive 2000/60/CE. The objectives of the field research aimed to identify economic activities in the eastern Jiu Valley generating an impact on the environment (especially the mining industry, but also timber exploitation and processing, local agriculture, animal husbandry and waste storage), establishing a quarterly monitoring program of the river basin, identification of flora and fauna species and identification of areas vulnerable to potential pollution. Based on observations made in situ and on information obtained from the evolution process of the monitoring program, the appropriate methodologies for assessing physical-chemical and ecological quality of the water were selected. Study of the evolution of the impact generated by economic activities on the East Jiu was carried out by mathematical modelling, with finite volumes, of the East Jiu River basin and plotting of pollutant dispersion maps. The magnitude and complexity of impact generated by economic activities was studied by using a complex system based on fuzzy logic, designed based on interactions between natural and artificial systems, between physical-chemical indicators of water and ecosystem. The research carried out substantiates in development of necessary technical measures to reduce the impact generated by economic activities located in eastern Jiu Valley, without significantly changing the hydrodynamics of the river basin. Following research, during different research stages, methods, techniques and tools were designed and accomplished with the help of which, water and aquatic ecosystems’ quality can be assessed, as well as the impact generated by human activity on the Jiu River, at a given moment and/or continuously.:CONTENT ACKNOWLEDGEMENTS SUMMARY LIST OF FIGURES LIST OF TABLES ABBREVIATIONS INTRODUCTION PURPOSE OF THE THESIS AND RESEARCH METHODOLOGY CHAPTER 1 THE EAST JIUL RIVER HYDROGRAPHIC BASIN 1.1. Soil and subsoil of the Eastern part of Jiu Valley 1.2. Climate description of the Eastern part of Jiu Valley 1.3. Geology particularities of the Eastern part of Jiu Valley 1.4. Groundwater features of the Eastern part of Jiu Valley 1.5. Flora and fauna of the Eastern part of Jiu Valley CHAPTER 2 SOURCES OF IMPACT ON THE QUALITY OF WATER, RIPARIAN, TERRESTRIAL AND AQUATIC ECOSYSTEMS 2.1. Mining industry 2.2. Wood processing industry in the Eastern part of Jiu Valley 2.3. Urban agriculture and local animal husbandry 2.4. Inappropriate urban household waste storage CHAPTER 3 MONITORING PROGRAM AND METHODS OF EVALUATION OF THE QUALITY OF THE EAST JIUL RIVER 3.1. Establishment of monitoring (control) sections 3.2. Monitoring program of the East Jiu River basin 3.3. Sampling, transport and analysis of water samples 3.4. Methodology used to establish the water quality CHAPTER 4 QUALITY ASSESSMENT OF WATER IN THE EASTERN JIU HYDROGRAPHIC BASIN 4.1. Section 1 - Jieț River - upstream of household settlements (blank assay) 4.2. Section 2 - East Jiu River - in the area of Tirici village 4.3. Section 3 - Răscoala brook - before the confluence with East Jiu River 4.4. Section 4 - East Jiu River - after the confluence with the Răscoala brook 4.5. Section 5 - Taia River - upstream of the confluence with East Jiu River 4.6. Section 6 - East Jiu River - before the confluence with the Taia River 4.7. Section 7 - East Jiu River - after the confluence with the Taia River 4.8. Section 8 - Jiet River downstream of household settlements 4.9. Section 9 - East Jiu River - after the confluence with the Jieț River 4.10. Section 10 - East Jiu River - before the confluence with Banița River 4.11. Section 11 - Roşia River - upstream of household settlements 4.12. Section 12 - Bănița River - after the confluence with the Roșia River 4.13. Section 13 - East Jiu River - after the confluence with the Banița River 4.14. Section 14 - Maleia River - before the confluence with East Jiu River 4.15. Section 15 - Slătioara River - before the confluence with East Jiu River 4.16. Section 16 – East Jiu River - before the confluence with West Jiu River CHAPTER 5 INFLUENCES OF PHYSICAL-CHEMICAL FACTORS ON AQUATIC ICHTHYOFAUNA IN THE EAST JIU RIVER BASIN 5.1. Total suspended solids and aquatic ecosystems 5.2. Acidity or basicity reaction of surface watercourses 5.3. Aquatic ecosystem requirements for gas oversaturation 5.4. Nitrogenous compounds in watercourse 5.5. Phenols, aquatic ecosystems and water quality CHAPTER 6 ANALYSIS OF THE IMPACT GENERATED BY ECONOMIC ACTIVITIES IN THE EASTERN PART OF JIU VALLEY 6.1. Impact analysis of mining industry in the Eastern Part of Jiu Valley 6.2. The general impact of Eastern Jiu Valley dumps to water quality 6.3. Research on effective infiltration in the Eastern part of Jiu Valley 6.4. Research on groundwater quality in the Eastern part of Jiu Valley 6.5. Analysis of the impact generated by local micro-agriculture 6.6. Analysis of the impact generated by deforestation and wood processing 6.7. Analysis of the impact generated by non-compliant landfilling of waste CHAPTER 7 EVOLUTION OF THE IMPACT GENERATED BY ECONOMIC ACTIVITIES IN THE EASTERN JIU VALLEY 7.1. Analysis of the dynamic elements of the watercourse - RMA2 mode 7.2. Analysis of pollutants concentration evolution in the water course - RMA4 module 7.3. Computational field and composition of the energy model of the East Jiu River 7.4. Extension and evolution of the impact generated by economic activities on the East Jiu River 7.5. Extension and evolution of the impact caused by organic pollution of the East Jiu River CHAPTER 8 MAGNITUDE AND COMPLEXITY OF THE IMPACT GENERATED BY ECONOMIC ACTIVITIES IN THE EASTERN JIU VALLEY 8.1. Definition of input linguistic variables 8.2. Linguistic outputs of the fuzzy interference system 8.3. Defining the Black Box set of rules 8.4. Proficiency testing of complex systems based on fuzzy logic 8.5. While it is all about the wheel do not forget about the cube CONCLUSIONS AND PERSONAL CONTRIBUTIONS REFERENCES