La prolifération grandissante des épisodes de fleurs d’eau de cyanobactéries toxiques dans les plans d'eau potable et dans les usines de traitement d'eau potable est une préoccupation mondiale. L’utilisation de sondes in vivo, permettant la détection de la phycocyanine des cyanobactéries par fluorescence, est une technologie innovante, de plus en plus couramment utilisée. Néanmoins, pour favoriser son implémentation à grande échelle, elle doit être validée scientifiquement. De nombreuses sources d’interférences dans ces sondes sont à l’origine de biais de lecture. Les objectifs de cette recherche sont :1. La caractérisation des espèces dominantes et la succession des espèces de cyanobactéries dans deux grands lacs utilisés pour la production de l’eau potable2. L’analyse de la variabilité des espèces de cyanobactéries et d’autres groupes de phytoplancton en fonction de la température et des nutriments3. La validation du suivi des cyanobactéries par sonde fluorométriques aux sources d’eau potable en corrigeant le signal pour les interférences d’autres groupes de phytoplanctonLes résultats de ce travail de recherche ont montré qu’il existe de nombreses sources d’interférences aux sondes à fluoresence YSI, mais qu’il était possible de développer un facteur de correction afin d’éviter de surestimer les cyanobactéries. Suite à la validation de la sonde, celle-ci a été utilisée pour comprendre la dynamique des cyanobactéries à la baie Missisquoi afin de caractériser les espèces dominantes et de mieux comprendre la succession phytoplanctonique de la baie afin d’aider les opérateurs de l’usine de traitement d’eau potable à planifier les traitements en fonction de la qualité biologique de la baie. Parmi les résultats les plus intéressants, notons l’apparition précoce, de plus en plus marquée à travers les années, des blooms de Microcystis sp. et le développement de bloom co-dominés par des Chroococcales et des Nostocales. Le développement de fleurs d’eau dominées par Aphanizomenon sp. ou Dolichospermum sp. est généralement précédé d’une période où le milieu est limité en N ce qui favorise le développement de ces espèces fixatrices d’azote atmosphérique / The increase of toxic cyanobacterial blooms in source waters that can lead to breakthrough into drinking water treatments plants is a worldwide concern. The use of in situ probes allows for the detection of cyanobacterial phycocyanin through fluorescence. It is an innovative technology becoming more widely used. However, to facilitate the implementation of this technology, it must be validated. Several sources of interferences can lead to biases in their application. The objectives of this research are to :1. characterize the dominant species and cyanobacterial succession in two large lakes used for drinking water production2. analyse the variability of cyanobacterial species as well as other groups of phytoplankton as a function of temperature and nutrients3. validate cyanobacterial monitoring by fluorometric probe in drinking water sources by correcting the signal for other groups of phytoplanktonThe results of this research have shown that there are many sources of interference in fluorescence probes, but that a correction factor can be used to prevent the overestimation of cyanobacteria. Following the validation of the probe, it was used to improve our understanding of the dynamics of phytoplankton succession in Missisquoi Bay in order to characterize the dominant species and succession to improve the operation of drinking water treatment at Missisquoi Bay. Among the interesting findings was the earlier apparition of cyanobacteria throughout the years, Micocystis sp. blooms and blooms co-dominated by Chroococcales and Nostocales. The development of cyanobacterial blooms dominated by Aphanizomenon sp. or Dolichospermum sp. was generally preceded by a period where the water body was limited in nitrogen, which favours the development of these species capable of fixing nitrogen

The investigations described in this paper are an attempt to further define and quantify the interrelationship of nitrogen fixation and iron nutritional physiology in these two species. Chapter II will present and compare data on nutritional ratios of field collected Trichodesmium colonies and laboratory Anabaena cultures, with the intent of examining possible correlations between observed iron levels and protein nitrogen and chlorophyll concentrations, as well as nitrogen fixation rates. Chapter Ill is an examination of nitrogen fixation and siderophore production in Anabaena with emphasis on the possible implications of hypothesized synergistic effects of these two physiological capabilities on cyanobacterial dominance and bloom formation. Chapter IV will deal with the possibility of gratuitous manganese repression of Anabaena siderophore production in the manner described by Hantke (1987) for regulation of siderophore production in E. coli. The Conclusions chapter (Chapter V) will present a discussion of the results of these experiments in the context of current problems in cyanobacterial physiology, ecology and evolution. It is hoped that a significant contribution can be made to our understanding of the related problems of cyanobacterial dominance in freshwater ecosysytems and the scarcity of cyanobacterial nitrogen fixation in marine ecosystems.

Indiana University-Purdue University Indianapolis (IUPUI) / Taste-and-Odor (T&O) occurrences are a worldwide problem and can locally have extensive socio-economic impacts in contaminated waterbodies. Tracing odorous compounds in surface waters or controlling the growth of producing organisms is particularly challenging. These approaches require the understanding of complex interactions between broad climate heterogeneity, large-scale physical processes such basin hydrology, lake/reservoir circulation, responses of aquatic ecosystems and communities. Eagle Creek Reservoir (ECR), a eutrophic water body, located in central Indiana experiences annual odorous outbreaks of variable durations and intensities that can impair its water quality. Two major compounds, 2-methylisoborneol and geosmin, have been identified as the main culprits occurring seasonally when the reservoir receives high discharges and nutrient loads from its main tributaries. Under these conditions, the growth of T&O-producing bacteria tends to take over other phytoplanktic organisms. Discrete samples collected within the water column during severe outbreaks in 2013 revealed that some bacterioplankton members belonging to Actinobacteria (Streptomyces) and Cyanobacteria (Planktothrix) were involved in the generation of T&O compounds. Most of this production occurred in the upper layers of the water column where higher abundances of key enzymes from MIB and geosmin metabolic pathways were detected. Application of a copper-based algaecide to curb the biosynthesis of bacterial metabolites led to geosmin production (linked to Cyanobacteria) being quickly terminated, whereas MIB levels (linked to Actinobacteria) lingered for several weeks after the algaecide treatment. Significant chemical differences in the association of these metabolites were measured in ECR. Geosmin was dominantly found cell-bound and settling after cellular death increases susceptibility to biodegradation in bottom sediments. MIB was mostly found dissolved making it less susceptible to biodegradation in bottom sediments. Genetic data identified Novosphingobium hassiacum and Sphingomonas oligophenolica (α- Proteobacteria) as potential degraders of geosmin and, four Flavobacterium species (Bacteroidetes) as potential MIB degraders. The role of Eagle Creek natural sediments in the removal of bacterial metabolites via chemical adsorption was also tested but was not proven efficient. Bacterial breakdown activity was demonstrated to be the major loss mechanism of MIB and geosmin.

Indiana University-Purdue University Indianapolis (IUPUI) / Water is an essential resource for life on Earth, and monitoring its quality is an important task for mankind. However, the amount of water quality data collected by the traditional method is insufficient for the conservation and sustainable management of this important resource. This challenge will be exacerbated by increasing harmful algal blooms at the global scale. To fill this gap, Earth Observations (EO) have been proposed to help stakeholders make their decisions, but the use of EO for monitoring inland water quality is still in development. In this context, the main objective of this study was to improve the estimation of cyanobacteria via remote sensing data. To achieve this goal, the water type classification was first used to identify the dominant optically active constituents within aquatic environments. This information is crucial for understanding the optical properties of inland waters and selecting the best remote sensing algorithm for specific optical water types. The next research question was to develop a universal structure for retrieval of the inherent optical properties of several important aquatic systems around the world, which can be used as a corner stone for developing a globally applicable remote sensing algorithm. The third research topic of this dissertation is about removing the interference of chlorophyll-a with the absorption strength at 620 nm where phycocyanin exhibits its diagnostic absorption so that the estimation of phycocyanin concentration can be improved. Despite the novelty of the proposed remote sensing algorithms which are able to accommodate distinct water optical properties, there are abundant opportunities for improving the parameterization of the proposed models to retrieve inland water quality and optical properties when a global database of optical and water quality measurements is available. Considering the current advancement in spaceborne technology and the existence of a coordinate effort for global calibration and validation of remote sensing algorithms for monitoring inland waters, there is a high potential for operational assessment of harmful cyanobacterial blooms using the remote sensing algorithms proposed in this dissertation.

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