Date of Award


Publication Type

Doctoral Thesis

Degree Name



Great Lakes Institute for Environmental Research

First Advisor

Christopher Weisener

Second Advisor

Ian Droppo


Athabasca Oil Sands, Biogeochemistry, Environment, Geochemistry, Metatranscritpomics, Microbial Ecology




Understanding the biogeochemical processes governed by the complex metabolic pathways of microbial communities is paramount in understanding overall ecosystem services. Their ability to adapt to the world’s harshest environments allows them to thrive in otherwise hostile environments. The Athabasca Oil Sands of Northern Alberta, Canada, constitutes one of the largest oil sands deposits in the world. This uniquely hydrocarbon-rich environment is a diverse and complex ecosystem governed by strong anthropogenic (i.e. industrial mine sites) and natural environmental gradients (i.e. substantial bitumen outcroppings). The economically significant oil sands deposit produces millions of barrels of bitumen daily, with waste materials (i.e. sands, clays, residual bitumen etc.) pumped into large settling basins called tailings ponds. The Government of Alberta requires oil sands operators to return their mine sites to a reclaimed landscape after mining has completed, thus leaving an enormous task of determining appropriate reclamation procedures, target end-points and water quality targets. However, what remains unknown is an understanding of the baseline biogeochemical fingerprint of the natural McMurray Formation (MF) – the geological strata constituting the mineable bitumen ore. Additionally, there has yet to be any studies focusing on the microbial function in the MF, a vital research gap that would provide insight into how the indigenous microbial communities deal with this ubiquitous, natural hydrocarbon presence. The research comprising the chapters of this dissertation, are the first to reveal the active, in-situ metabolism of the bacterial communities within the MF. Novel metatranscriptomics approaches from in-situ samples are used to characterize the microbial metabolic processes governing these ecosystems, to better understand what may constitute viable ecosystem reclamation end-points. Functional characterizations are compared to hydrocarbon signatures and redox state of the various study sites. Results indicate a unique microbial consortium with both energy and xenobiotic metabolic pathways tailored to the complex hydrocarbon substrate of the MF. Further, the sensitivity of this metatranscriptomics approach was tested and validated as a means of tracking hydrocarbon exposure down a river continuum. Clusters of closely related co-expressing genes revealed patterns of expression indicative of exposure to the hydrocarbons of the MF, providing interesting methodologies to track pollution exposure in a hydrodynamic context. Finally, a field-scale mesocosm study was used to track the biogeochemical evolution of tailings following a novel detoxification treatment and further compare back to the natural reference sites also studied. Treatments caused the reduction of toxic organics and the promotion of microbial taxa adept at metabolizing complex organics. These cumulative insights into the natural and anthropogenically impacted ecosystems of the Athabasca Oil Sands region provides much needed characterizations of reference/baseline environments from which to guide best management practices and gauge reclamation success.