Riparian vegetation along streams and rivers affects the aquatic community in numerous ways and often operates as a link for energy flux between forest and streams. The studies presented in this licentiate thesis focus on light and terrestrial invertebrates, two factors influenced by riparian zone structure, which potentially affect stream ecosystems and thus also brown trout (Salmo trutta). Paper I is a laboratory experiment where I study size dependent foraging behavior on surface-drifting terrestrial invertebrates and benthic invertebrates by brown trout. The results show a size-dependent difference in foraging ability with large trout being better able to use terrestrial surface prey than small trout. I argue that such ontogenetic foraging differences are due to both morphological constraints (eg. gape limitation) and size dependent behavioral differences related to predation risk. Paper II consists of a 5 month-long 2x2 factorial design field experiment where my objective was to examine the effects of terrestrial invertebrate input and solar radiation (PAR) on different trophic levels in a boreal headwater stream. More specifically, I followed the effects of increased light and decreased terrestrial invertebrate subsidies on periphyton, benthic macroinvertebrates and two size classes of the top fish predator, brown trout. The results showed that the reduction of terrestrial invertebrate input had size- and seasonal-dependent effects on trout, where large trout had lower growth rates than small trout, mainly in summer. Diet analyses of trout supported growth differences in that large trout in unmanipulated enclosures consumed relatively more terrestrial prey than large trout living in enclosures with reduced terrestrial inputs. A higher reliance on terrestrial prey subsidies by large trout compared to small may be explained by ontogenetic differences in foraging and habitat choice. Despite a 2.5-fold increase in PAR, light did not have an effect on chlorophyll a biomass, nor was there an effect on the density or composition of benthic macroinvertebrates. The lack of effects on primary production may be explained by very low nutrient levels in the stream.

Hydroelectric reservoirs account for 59% of the installed electricity generating capacity in Canada and 26% in Ontario. Reservoirs also provide irrigation capacity, drinking water, and recreational opportunities. Further, they continue to be built in northern Canada, neighbouring boreal countries, and around the world. Yet given their socio-economic importance, they are understudied with respect to greenhouse gas emissions, nutrient and mercury cycling, and aquatic metabolism. As one of many electricity generating options, hydroelectricity is viewed as well-tested because of its long history and diverse applications in mega-projects, run-of-the-river dams, and small, local applications. It is also considered renewable from a fuel stand-point because an adequate long-term supply of water is assumed. One of several significant criticisms of hydroelectric development is that reservoirs may be a significant source of greenhouse gases to the atmosphere relative to the amount of electricity produced due to flooding the landscape. As a result of the dearth of information on reservoir development and both greenhouse gases and aquatic metabolism, a pair of whole-ecosystem reservoir experiments were conducted staring in 1991. Three upland boreal forest reservoirs with differing amounts of pre-flood stored organic carbon were built in northwestern Ontario and flooded for five years. The rates of net greenhouse gas production in these reservoirs were determined by calculating mass budgets for carbon dioxide and methane. Additionally, rates of biological processes were determined by combining the mass budgets with measurements of the stable isotopes of carbon and oxygen. Assembling mass and isotope-mass budgets required three related projects on gas exchange, methane oxidation, and oxygen isotopes. To estimate the gas exchange coefficient for each of the upland reservoirs, a comparative-methods study was undertaken. Methane oxidation enrichment factors were determined in upland and wetland boreal reservoirs so that the importance of methane oxidation in these ecosystems could be assessed. In order to interpret the diel changes in both oxygen concentrations and their isotopic ratios, a dynamic model was developed. This model, PoRGy, was successfully applied to the upland boreal reservoirs as well as prairie rivers and ponds. Further, PoRGy was used to understand the interplay between the key parameters that control oxygen concentrations, to compare aquatic ecosystems, to make quantitative estimates of ecosystem metabolism, and to assess the vulnerability of aquatic ecosystems under various environmental stressors. Carbon isotope-mass budgets were used to conclude that community respiration rates declined quickly in the upland reservoirs and had declined by half over five years. This suggested that the most labile organic carbon is quickly consumed but decomposition continued for the five-year life of the project. Net primary production rates were similar for three years, with a small peak in the second or third year, before declining by half by the fifth year. Together, these results indicated that aquatic metabolism slowed over five years while the reservoirs remained a source of greenhouse gases to the atmosphere each year. Net methane production was greatest in the third year of flooding then decreasing by about half by the fifth year. Methane ebullition also peaked in the third year and declined by two-thirds by the fifth year. Together, these results indicated that methanogenesis was greatest in the third year of flooding. The flux of methane to the atmosphere grew in importance relative to that of carbon dioxide over the five years of the experiment. Community respiration and primary production could not be estimated directly from the oxygen isotope-mass budgets since the oxygen respiration enrichment factor remains poorly constrained. Instead, three estimates were made, each based on a different assumption. In general, these estimates suggested that rates of community respiration and primary production decreased slightly for three years and most rapidly in the final two years. The oxygen isotope-mass budgets provided a new method for assessing and constraining community metabolism and greenhouse gas fluxes to the atmosphere. One of the major hypotheses of the whole-ecosystem reservoir experiments was that pre-flood organic carbon stores less tree boles were positively related to greenhouse gas fluxes. Within the three upland boreal forest reservoirs, this hypothesis did not hold true. Over five years, community respiration in the three reservoirs was within 5% of each other. When methane is included, to assess total greenhouse gas fluxes to the atmosphere, the reservoirs were within 1% of each other. Organic carbon stores were therefore poor short-term predictors of carbon lability and greenhouse gas fluxes. This research presented two methods for determining biological rates at the whole-ecosystem scale: one using carbon isotopes and one using oxygen isotopes. Temporal evolution of greenhouse gas cycling within the upland reservoirs was different than in the wetland reservoir and should inform how reservoir development is done vis-à-vis the amount of flooded land of each type versus electricity production. Medium-term estimates of greenhouse gas fluxes suggest that upland reservoirs do not have adequate pre-flood organic carbon stores to sustain elevated levels of decomposition the way wetlands do. The strong evidence of continued production of dissolved organic carbon in the upland reservoirs should concern operators of municipal drinking water reservoirs since elevated dissolved organic carbon can make disinfection difficult.

Hydroelectric reservoirs account for 59% of the installed electricity generating capacity in Canada and 26% in Ontario. Reservoirs also provide irrigation capacity, drinking water, and recreational opportunities. Further, they continue to be built in northern Canada, neighbouring boreal countries, and around the world. Yet given their socio-economic importance, they are understudied with respect to greenhouse gas emissions, nutrient and mercury cycling, and aquatic metabolism. As one of many electricity generating options, hydroelectricity is viewed as well-tested because of its long history and diverse applications in mega-projects, run-of-the-river dams, and small, local applications. It is also considered renewable from a fuel stand-point because an adequate long-term supply of water is assumed. One of several significant criticisms of hydroelectric development is that reservoirs may be a significant source of greenhouse gases to the atmosphere relative to the amount of electricity produced due to flooding the landscape. As a result of the dearth of information on reservoir development and both greenhouse gases and aquatic metabolism, a pair of whole-ecosystem reservoir experiments were conducted staring in 1991. Three upland boreal forest reservoirs with differing amounts of pre-flood stored organic carbon were built in northwestern Ontario and flooded for five years. The rates of net greenhouse gas production in these reservoirs were determined by calculating mass budgets for carbon dioxide and methane. Additionally, rates of biological processes were determined by combining the mass budgets with measurements of the stable isotopes of carbon and oxygen. Assembling mass and isotope-mass budgets required three related projects on gas exchange, methane oxidation, and oxygen isotopes. To estimate the gas exchange coefficient for each of the upland reservoirs, a comparative-methods study was undertaken. Methane oxidation enrichment factors were determined in upland and wetland boreal reservoirs so that the importance of methane oxidation in these ecosystems could be assessed. In order to interpret the diel changes in both oxygen concentrations and their isotopic ratios, a dynamic model was developed. This model, PoRGy, was successfully applied to the upland boreal reservoirs as well as prairie rivers and ponds. Further, PoRGy was used to understand the interplay between the key parameters that control oxygen concentrations, to compare aquatic ecosystems, to make quantitative estimates of ecosystem metabolism, and to assess the vulnerability of aquatic ecosystems under various environmental stressors. Carbon isotope-mass budgets were used to conclude that community respiration rates declined quickly in the upland reservoirs and had declined by half over five years. This suggested that the most labile organic carbon is quickly consumed but decomposition continued for the five-year life of the project. Net primary production rates were similar for three years, with a small peak in the second or third year, before declining by half by the fifth year. Together, these results indicated that aquatic metabolism slowed over five years while the reservoirs remained a source of greenhouse gases to the atmosphere each year. Net methane production was greatest in the third year of flooding then decreasing by about half by the fifth year. Methane ebullition also peaked in the third year and declined by two-thirds by the fifth year. Together, these results indicated that methanogenesis was greatest in the third year of flooding. The flux of methane to the atmosphere grew in importance relative to that of carbon dioxide over the five years of the experiment. Community respiration and primary production could not be estimated directly from the oxygen isotope-mass budgets since the oxygen respiration enrichment factor remains poorly constrained. Instead, three estimates were made, each based on a different assumption. In general, these estimates suggested that rates of community respiration and primary production decreased slightly for three years and most rapidly in the final two years. The oxygen isotope-mass budgets provided a new method for assessing and constraining community metabolism and greenhouse gas fluxes to the atmosphere. One of the major hypotheses of the whole-ecosystem reservoir experiments was that pre-flood organic carbon stores less tree boles were positively related to greenhouse gas fluxes. Within the three upland boreal forest reservoirs, this hypothesis did not hold true. Over five years, community respiration in the three reservoirs was within 5% of each other. When methane is included, to assess total greenhouse gas fluxes to the atmosphere, the reservoirs were within 1% of each other. Organic carbon stores were therefore poor short-term predictors of carbon lability and greenhouse gas fluxes. This research presented two methods for determining biological rates at the whole-ecosystem scale: one using carbon isotopes and one using oxygen isotopes. Temporal evolution of greenhouse gas cycling within the upland reservoirs was different than in the wetland reservoir and should inform how reservoir development is done vis-à-vis the amount of flooded land of each type versus electricity production. Medium-term estimates of greenhouse gas fluxes suggest that upland reservoirs do not have adequate pre-flood organic carbon stores to sustain elevated levels of decomposition the way wetlands do. The strong evidence of continued production of dissolved organic carbon in the upland reservoirs should concern operators of municipal drinking water reservoirs since elevated dissolved organic carbon can make disinfection difficult.

Recent drought over West Africa (1970s-present) has been a global concern, and the ability to predict the frequency and severity of future droughts is important to mitigate the devastating socio-economic effects of drought. The Sahel region, situated at 10-20°N just south of the arid Sahara Desert and north of the forested Guinea Coast, is particularly vulnerable to drought periodicity because rainfall is already low at 400 mm yr-1. The ability to predict future climate variability depends on adequate knowledge of fluctuations in the past. In West Africa, meteorological records are too sparse and too short in duration to characterize the drought frequency. Consequently, climate reconstructions from lacustrine sediment records are increasingly recognized as an important source of information on past climate variability. Lake Bosomtwe, Ghana (6o30N and 1o25W) was formed over one million years ago by a meteorite impact crater in the Guinea Coast region, just south of the Sahel region. Lake Bosomtwe has a closed-drainage hydrology and lake levels are known to fluctuate with the net flux in rainfall inputs relative to evaporative outputs. In 2004, the International Continental Scientific Drilling Program recovered the complete sediment record for paleoclimatic reconstructions. However, very little has been studied of the limnological conditions that lead to the formation of laminated sediments in Lake Bosomtwe. This thesis has set out to understand the influence climate has on the physical, chemical and biological in-lake processes that generate sedimenting materials, which are preserved as laminated sediment layers. Two years of water column sampling of temperature, oxygen and nutrients at a central deep-water site (78 m water depth maximum) found that this quiescent crater lake is thermally stratified during much of the year, with anoxia persisting below 35 m water depth. During the short dry season of July and August, the monsoon rains that are associated with the intertropical convergence zone (ITCZ) are displaced northwards over the Sahel region (and away from lake Bosomtwe), and cool air temperatures and clear night skies lead to the disruption of the thermocline and circulation of dissolved nutrients nitrogen (N) and phosphorus (P) in Lake Bosomtwe. Phytoplankton primary productivity, as measured by particulate carbon and chlorophyll a concentrations, was found to increase markedly following the nutrient upwelling event in August. Sediment trap samplers deployed at 20 and 30 m water depth captured the pattern of organic matter deposition and a high flux of organic sediment was deposited shortly after the nutrient upwelling episode in August. The composition of these organic-rich sediments was distinguished by a marked depletion in δ13C and enrichment of δ15N, as compared to sediments deposited before and after this event. Spatial assessment of sediment cores identified that presently, visible laminations were preserved at and below 35 m water depth, but, not at shallower depths. Water depth was also positively correlated with the organic matter content in sediment records and could be used to reconstruct pre-historic lake levels down core. The relationship between lake level and organic content in sediments predicted that water levels were likely 22 m lower than present levels during the period ~1425-1610 CE, which corresponds with a climatic periods known as the Little Ice Age (LIA). The spatial sediment trends also revealed that inorganic sedimentation rates had increased since the onset of recent land clearance and road construction in the catchment, particularly to the north, near the town of Abono. For this reason, two cores from the central deep-water region of Lake Bosomtwe were analysed for organic and carbonate content, δ13C and δ15N, nutrients (C, N, P), magnetic susceptibility, greyscale imagery of the x-radiograph and micro-X-ray analysis of elemental constituents. Paleoenvironmental reconstructions during the past 550 years found that climate-driven lake level change was a prominent factor contributing to the organic content of sediments. High inorganic content, iron concentrations and depleted δ13C distinguished a low stand during the LIA (~1425-1610) when pelagic sediments were likely exposed to periodic oxygenation. High concentrations of organic matter, calcium (Ca) and strontium (Sr), enrichment of δ13C and low C:N ratios were indicative of wet years that likely increased lake levels and the depth of water column mixing. However, sediments with high organic content, depleted δ13C signatures and reduced Ca and Sr concentrations were suggestive of drought years that restricted the depth of seasonal water column mixing and nutrient circulation and did not necessarily result in pronounced lake-level change. During the past century, δ13C of bulk matter was positively correlated with the rainfall anomalies (r2 = 0.45, P < 0.002), indicating that droughts can result in reduced primary productivity, which may ultimately lower fishery yields. The communities living within the crater are dependent on subsistence fishing and farming, and predicting the drought frequency and magnitude in this region is essential to protecting both the ecosystem and the human population. Long-range climate forecasts for West Africa predict greater drought and increasing air temperature. However, with a detailed long-term paleoclimatic reconstruction from Lake Bosomtwe sediment records, potentially the accuracy of these predictions can be improved and better equip policy makers to enact a viable action plan in the best interests of the people.

This study explored the effects of seasonal variability on the geochemistry of sinking pthesiss and on the nitrogen cycle of the Cariaco Basin. Pthesis fluxes were measured at the base of the euphotic zone (the depth of 1% of photosynthetically active radiation - PAR) with drifting sediment traps during months of upwelling and non-upwelling regimes from March 2007 to November 2009. Flux estimates were analyzed in the context of seasonal variations in sea surface temperature, primary productivity, and chlorophyll a concentrations using data generated by the CARIACO Time-series Program as well as satellite data. Additionally, nine years (1996-2000 and 2004-2007) of nutrients, phytoplankton taxonomy and δ15N of sinking pthesis data within the twilight zone (225 m) from the CARIACO Time-series Program were examined. Results showed that the flux of organic matter responded to changes in surface chlorophyll a but not to primary production. Sinking organic matter decreased by an order of magnitude from the base of the euphotic zone to the oxic-anoxic interface; most of the organic matter produced in surface waters was remineralized before leaving the upper 50-100 m. Lithogenic material often represented a large fraction of the flux. Isotopic analyses showed that 13C/12C ratios of sinking organic carbon were enriched (~-19‰) during the upwelling period and depleted during relaxation (~-23‰). This reflects seasonal changes in inorganic carbon utilization by phytoplankton and suggests that the δ13C of organic carbon in Cariaco sediments can be used as a proxy for carbon fixation by primary producers. The δ15N of the settling flux was influenced by the strength of the upwelling and the presence of the nitrogen fixer Trichodesmium thiebautii in the basin in different seasons; the 15N/14N ratio of sinking nitrogen reflects both imported and local nitrogen fixation signals. This result argues against previous interpretations of the δ15N from the basin's sedimentary record, which suggested that the nitrogen isotopic composition of flux is influenced by denitrification at the oxic-anoxic interface. Dissolved gas samples from the Cariaco eastern and western sub-basins from September 2008 (non-upwelling) and March 2009 (upwelling) were studied to assess the production of biogenic nitrogen gas through mass spectrometric N2/Ar ratiometry. Excess nitrogen gas indicated that upwelling affects the intensity of denitrification at the oxic-anoxic interface. In four of the six stations the concentration of biogenic nitrogen gas at the oxic-anoxic interface was 2.7-6.1 µM N higher during the upwelling period than during the relaxation season (p< 0.001), implying that denitrification in the basin was stimulated by the vertical flux of organic matter and/or the ventilation of the oxic-anoxic interface by oxygenated and nutrient-rich intermediate Caribbean waters.

Phytoplankton dynamics and chemical characteristics of the euphotic zone were measured from 1998-2000 (an El Niño/La Niña cycle) at the 5 major stations along Line P. Near-shelf and offshore stations exhibited low seasonality in chlorophyll and moderate seasonality in particulate organic carbon (POC) production. During the 1998 El Niño, June was characterized by low chlorophyll and POC productivity due to nitrate depletion. In contrast, during the 1999 La Niña, and in 2000, higher POC productivity and nitrate occurred in June. During 1999, chlorophyll and POC productivity were similar to 1998 in late summer. Near-shelf biomass was highest in June and lowest in Feb. for the near-shelf stations. High nitrate, low chlorophyll (HNLC) stations had the highest chlorophyll in Feb. followed by June. The coccolithophore assemblage was usually numerically dominated by Emiliania huxleyi, particularly in June. Along the transect, coccolithophore abundance was much higher in June during the 1998 El Niño than in the 1999 La Niña, with Aug./Sept. abundance of both years being very low. Higher abundances were measured along the transect in June and the late summer of 2000 with sporadic ‘blooms’ of >1000 cells ml⁻¹ at some stations. Particulate inorganic carbon (PIC) production was high along the transect during June 1998, and low during both winters, June 1999 and during late summers of 1998 and 1999. There was an increase in diatom biomass and >20 µm POC production during the 1998 El Niño, specifically in the farthest offshore HNLC stations, yet diatoms were rarely found to dominate total phytoplankton biomass or production. However, there were some sporadic examples of anomalously high diatom biomass (carbon and abundance) as well as >20 µm POC production, specifically at P12 in Aug./Sept 2000. The same major diatom species were found throughout Line P (near-shelf, P16, and HNLC). Integrated silica production measured by ³²Si ranged from 0.2 to 4.7 mmol Si m⁻² d⁻¹ between 1999-2000. Silicic acid and nitrate were never limiting at all stations in Feb. and generally increased in concentration along Line P during all seasons.

Recent drought over West Africa (1970s-present) has been a global concern, and the ability to predict the frequency and severity of future droughts is important to mitigate the devastating socio-economic effects of drought. The Sahel region, situated at 10-20°N just south of the arid Sahara Desert and north of the forested Guinea Coast, is particularly vulnerable to drought periodicity because rainfall is already low at 400 mm yr-1. The ability to predict future climate variability depends on adequate knowledge of fluctuations in the past. In West Africa, meteorological records are too sparse and too short in duration to characterize the drought frequency. Consequently, climate reconstructions from lacustrine sediment records are increasingly recognized as an important source of information on past climate variability. Lake Bosomtwe, Ghana (6o30N and 1o25W) was formed over one million years ago by a meteorite impact crater in the Guinea Coast region, just south of the Sahel region. Lake Bosomtwe has a closed-drainage hydrology and lake levels are known to fluctuate with the net flux in rainfall inputs relative to evaporative outputs. In 2004, the International Continental Scientific Drilling Program recovered the complete sediment record for paleoclimatic reconstructions. However, very little has been studied of the limnological conditions that lead to the formation of laminated sediments in Lake Bosomtwe. This thesis has set out to understand the influence climate has on the physical, chemical and biological in-lake processes that generate sedimenting materials, which are preserved as laminated sediment layers. Two years of water column sampling of temperature, oxygen and nutrients at a central deep-water site (78 m water depth maximum) found that this quiescent crater lake is thermally stratified during much of the year, with anoxia persisting below 35 m water depth. During the short dry season of July and August, the monsoon rains that are associated with the intertropical convergence zone (ITCZ) are displaced northwards over the Sahel region (and away from lake Bosomtwe), and cool air temperatures and clear night skies lead to the disruption of the thermocline and circulation of dissolved nutrients nitrogen (N) and phosphorus (P) in Lake Bosomtwe. Phytoplankton primary productivity, as measured by particulate carbon and chlorophyll a concentrations, was found to increase markedly following the nutrient upwelling event in August. Sediment trap samplers deployed at 20 and 30 m water depth captured the pattern of organic matter deposition and a high flux of organic sediment was deposited shortly after the nutrient upwelling episode in August. The composition of these organic-rich sediments was distinguished by a marked depletion in δ13C and enrichment of δ15N, as compared to sediments deposited before and after this event. Spatial assessment of sediment cores identified that presently, visible laminations were preserved at and below 35 m water depth, but, not at shallower depths. Water depth was also positively correlated with the organic matter content in sediment records and could be used to reconstruct pre-historic lake levels down core. The relationship between lake level and organic content in sediments predicted that water levels were likely 22 m lower than present levels during the period ~1425-1610 CE, which corresponds with a climatic periods known as the Little Ice Age (LIA). The spatial sediment trends also revealed that inorganic sedimentation rates had increased since the onset of recent land clearance and road construction in the catchment, particularly to the north, near the town of Abono. For this reason, two cores from the central deep-water region of Lake Bosomtwe were analysed for organic and carbonate content, δ13C and δ15N, nutrients (C, N, P), magnetic susceptibility, greyscale imagery of the x-radiograph and micro-X-ray analysis of elemental constituents. Paleoenvironmental reconstructions during the past 550 years found that climate-driven lake level change was a prominent factor contributing to the organic content of sediments. High inorganic content, iron concentrations and depleted δ13C distinguished a low stand during the LIA (~1425-1610) when pelagic sediments were likely exposed to periodic oxygenation. High concentrations of organic matter, calcium (Ca) and strontium (Sr), enrichment of δ13C and low C:N ratios were indicative of wet years that likely increased lake levels and the depth of water column mixing. However, sediments with high organic content, depleted δ13C signatures and reduced Ca and Sr concentrations were suggestive of drought years that restricted the depth of seasonal water column mixing and nutrient circulation and did not necessarily result in pronounced lake-level change. During the past century, δ13C of bulk matter was positively correlated with the rainfall anomalies (r2 = 0.45, P < 0.002), indicating that droughts can result in reduced primary productivity, which may ultimately lower fishery yields. The communities living within the crater are dependent on subsistence fishing and farming, and predicting the drought frequency and magnitude in this region is essential to protecting both the ecosystem and the human population. Long-range climate forecasts for West Africa predict greater drought and increasing air temperature. However, with a detailed long-term paleoclimatic reconstruction from Lake Bosomtwe sediment records, potentially the accuracy of these predictions can be improved and better equip policy makers to enact a viable action plan in the best interests of the people.

Lakes are increasingly being recognized as an important component of the global carbon cycle, yet anthropogenic activities that alter their community structure may change the way they transport and process carbon. This research focuses on the relationship between carbon cycling and community structure of primary producers in small, shallow lakes, which are the most abundant lake type in the world, and furthermore subject to intense terrestrial-aquatic coupling due to their high perimeter:area ratio. Shifts between macrophyte and phytoplankton dominance are widespread and common in shallow lakes, with potentially large consequences to regional carbon cycling. I thus compared a lake with clear-water conditions and a submerged macrophyte community to a turbid, phytoplankton-dominated lake, describing differences in the availability, processing, and export of organic and inorganic carbon. I furthermore examined the effects of increasing terrestrial carbon inputs on internal carbon cycling processes. Pelagic diel (24-hour) oxygen curves and independent fluorometric approaches of individual primary producers together indicated that the presence of a submerged macrophyte community facilitated higher annual rates of gross primary production than could be supported in a phytoplankton-dominated lake at similar nutrient concentrations. A simple model constructed from the empirical data suggested that this difference between regime types could be common in moderately eutrophic lakes with mean depths under three to four meters, where benthic primary production is a potentially major contributor to the whole-lake primary production. It thus appears likely that a regime shift from macrophyte to phytoplankton dominance in shallow lakes would typically decrease the quantity of autochthonous organic carbon available to lake food webs. Sediment core analyses indicated that a regime shift from macrophyte to phytoplankton dominance was associated with a four-fold increase in carbon burial rates, signalling a major change in lake carbon cycling dynamics. Carbon mass balances suggested that increasing carbon burial rates were not due to an increase in primary production or allochthonous loading, but instead were due to a higher carbon burial efficiency (carbon burial / carbon deposition). This, in turn, was associated with diminished benthic mineralization rates and an increase in calcite precipitation, together resulting in lower surface carbon dioxide emissions. Finally, a period of unusually high precipitation led to rising water levels, resulting in a feedback loop linking increasing concentrations of dissolved organic carbon (DOC) to severely anoxic conditions in the phytoplankton-dominated system. High water levels and DOC concentrations diminished benthic primary production (via shading) and boosted pelagic respiration rates, diminishing the hypolimnetic oxygen supply. The resulting anoxia created redox conditions which led to a major release of nutrients, DOC, and iron from the sediments. This further transformed the lake metabolism, providing a prolonged summertime anoxia below a water depth of 1 m, and leading to the near-complete loss of fish and macroinvertebrates. Pelagic pH levels also decreased significantly, increasing surface carbon dioxide emissions by an order of magnitude compared to previous years. Altogether, this thesis adds an important body of knowledge to our understanding of the significance of the benthic zone to carbon cycling in shallow lakes. The contribution of the benthic zone towards whole-lake primary production was quantified, and was identified as an important but vulnerable site for primary production. Benthic mineralization rates were furthermore found to influence carbon burial and surface emission rates, and benthic primary productivity played an important role in determining hypolimnetic oxygen availability, thus controlling the internal sediment loading of nutrients and carbon. This thesis also uniquely demonstrates that the ecological community structure (i.e. stable regime) of a eutrophic, shallow lake can significantly influence carbon availability and processing. By changing carbon cycling pathways, regime shifts in shallow lakes may significantly alter the role of these ecosystems with respect to the global carbon cycle. / Seen werden zunehmend als wichtige Komponente im globalen Kohlenstoffkreislauf anerkannt. Natürliche Veränderungen und anthropogene Aktivitäten beeinflussen die Struktur der Artengemeinschaft von Seen, was Auswirkungen auf den Transport und Umsatz von Kohlenstoff hat. Diese Arbeit konzentriert sich auf die Beziehung zwischen Kohlenstoffkreislauf und der Gemeinschaftsstruktur der Primärproduzenten in kleinen Flachseen. Diese sind der weltweit häufigste Seentyp und weisen durch ihren im Vergleich zur Fläche großen Umfang eine intensive aquatisch-terrestrische Kopplung auf. In Flachseen treten oft Regimewechsel zwischen Makrophyten- und Phytoplankton-Dominanz auf. Diese können potenziell große Konsequenzen für den regionalen Kohlenstoffkreislauf haben. In dieser Dissertation vergleiche ich einen Klarwassersee mit submersen Makrophyten und einen trüben, Phytoplankton-dominierten See hinsichtlich Verfügbarkeit, Umsatz und Export von organischem und anorganischem Kohlenstoff. Des Weiteren habe ich den Effekt der erhöhten Zufuhr von terrestrischem Kohlenstoff auf den internen Kohlenstoffumsatz untersucht. Sowohl die Tagesgänge der pelagischen Sauerstoff-Konzentrationen als auch Fluoreszenz-basierte Messungen der Primärproduktion bewiesen, dass die Präsenz von submersen Makrophyten eine höhere jährliche Brutto-Primärproduktion im Vergleich zu einem Phytoplankton-dominierten See mit ähnlichen Nährstoffkonzentrationen ermöglicht. Ein einfaches, auf den empirischen Daten basierendes Model zeigt, dass diese Unterschiede in der Brutto-Primärproduktion typisch sind für moderat eutrophe Seen mit einer mittleren Tiefe von unter 3 bis vier Metern. In diesen Seen leistet die benthische Primärproduktion den Hauptbeitrag zur Primärproduktion des ganzen Sees. Daraus wird ersichtlich, dass Regimewechsel von Makrophyten- zur Phytoplankton-Dominanz in Flachseen die Verfügbarkeit von autochthonem organischem Kohlenstoff für das Nahrungsnetz reduzieren. Paläolimnologische Analysen in Sedimentkernen beider Seen wiesen darauf hin, dass der Verlust der Makrophyten mit einer vierfachen Zunahme der Kohlenstoff-Speicherraten einhergeht, und somit zu einer großen Veränderung der Dynamik des Kohlenstoffkreislaufs im See führt. Unsere Kohlenstoff-Massenbilanzen zeigen, dass die Erhöhung der Kohlenstoff-Speicherung im Sediment nicht durch die Erhöhung der Primärproduktion oder durch externe Quellen, sondern durch erhöhte der Effizienz der Speicherung begründet war. Dies geht mit einer reduzierten benthischen Mineralisierungsrate und einer erhöhten Calcitfällung einher und führt zu reduzierten Kohlendioxid-Emissionen. Eine Periode ungewöhnlich hoher Niederschläge mit erhöhten Wasserständen führte im Phytoplankton-dominierten See zu zu einem starken Anstieg der Konzentrationen an gelöstem organischem Kohlenstoff (DOC) und zu anoxischen Bedingungen. Es wurde postuliert, dass zwischen diesen Prozessen eine positive Rückkopplung besteht. Die hohen Wasserstände und DOC-Konzentrationen reduzierten die Lichtversorgung und damit die Primärproduktion im Benthal und erhöhten die pelagischen Respirationsraten. Dadurch verringerte sich die Sauerstoffverfügbarkeit im Hypolimnion. Die dadurch erzeugten Redox-Verhältnisse führten zu einer Freisetzung großer Mengen an Nährstoffen, DOC und Eisen aus dem Sediment. Die während des gesamten Sommers andauernden anoxischen Verhältnisse in Wassertiefen unter 1 m führten zu einem fast vollständigen Verlust von Fischen und Makroinvertebraten. Zusätzlich wurde der pH-Wert im Pelagial signifikant erniedrigt und die Kohlenstoffdioxid-Emissionen im Vergleich zu früheren Jahren verzehnfacht. Insgesamt trägt diese Dissertation wesentliche Aspekte zum besseren Verständnis der Bedeutung des Benthals für den Kohlenstoffkreislauf in Flachseen bei. Der Anteil der benthischen Zone an der Primärproduktion in kleinen Flachseen wurde in Relation zur Gesamtproduktion des Systems quantifiziert. Letztlich zeigt diese Arbeit, dass die Gemeinschaftsstruktur der Primärproduzenten eines eutrophen Flachsees die Verfügbarkeit und den Umsatz von Kohlenstoff signifikant beeinflusst. Regimewechsel in Flachseen können durch Änderungen im internen Kohlenstoffkreislauf deren Rolle im globalen Kohlenstoffkreislauf verändern.

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Biofilms are significant contributors to primary production, nutrient cycling, bio-stabilization and the food web of wetland ecosystems. Photoautotrophic biomass (PB) and primary production (PP) were determined for biofilms exposed to various treatments and materials in wetlands near Fort McMurray. Biofilm additions and oil sands process-affected materials were expected to increase the microbial colonization rates on treated substrates and subsequently PB and PP of biofilms over time as compared to controls and unaffected materials. Biofilms survived the transfers and colonized new substrates immediately. Oil sands process affected materials were found to increase PB and PP throughout the first year. A strong decreasing trend for both PB and PP in treatment microcosms occurred in year two, eventually coalescing with control conditions at a lower equilibrium. Transferred biofilms and treatment materials, therefore, increased overall wetland productivity during the initial stages of wetland development when growing conditions are most limiting. / Land Reclamation and Remediation