Climate change is predicted to be the most pronounced in high latitude ecosystems, however very little is known about their vulnerability to the projected warmer temperatures. In particular, natural organic matter (NOM) in the high latitude cryosphere which includes dissolved organic matter (DOM) and cryoconite organic matter (COM) from glaciers and soil organic matter (SOM) in permafrost, is highly susceptible to climate change which may lead to severe consequences on both local and global carbon biogeochemical cycles. Examination of DOM in glacier ice by a novel 1H nuclear magnetic resonance (NMR) water suppression pulse sequence at its natural abundance revealed and quantified the composition and the organic constituents in ice samples from Antarctica. 1H NMR spectra of samples from several glaciers were acquired and compared to the dominant fluorescent DOM fraction. This comprehensive approach showed that glacier ice DOM was mainly composed of small, labile biomolecules associated with microbes. Examination of the organic debris found on glacier surfaces (COM) from both Arctic and Antarctic glaciers were determined to be derived from microbes. Samples from Arctic glaciers were more chemically heterogeneous with small inputs of plant-derived material detected after targeted extractions. Therefore the COM carbon composition was determined to be dependent on the local glacier environment, suggesting a site specific contribution to the carbon cycle. Finally, the distribution of extracted branched glycerol dialkyl glycerol tetraether (GDGT)microbial membrane lipids and the deuterium incorporation of plant-wax n-alkane biomarkers extracted from dated permafrost SOM (paleosols) were independently applied for Canadian Arctic climate reconstruction during the last glacial maximum. Overall, the branched GDGT based temperature reconstructions from the Arctic paleosols reconstruct higher temperatures, likely when bacterial activity was optimal. The deuterium composition of the C29 n-alkane plant lipids appears to integrate an average annual signal. Further analysis by both non-selective NMR spectroscopic and targeted biomarker techniques on these paleosol samples revealed that the major vegetative sources from this paleoecosystem originated from woody and non-woody angiosperms. This thesis demonstrates several novel analytical characterization techniques, along with the major sources and composition of NOM in the cryosphere while demonstrating its use in paleoclimate applications.

The goal of this thesis was to characterize and quantify changes to Canadian Arctic organic matter (OM) induced by a physical disruption to the permafrost active layer by employing molecular-level techniques such as biomarker extraction and NMR to help elucidate its contribution to carbon turnover and global climate change. The initial biomarker characterization study determined that the extractable plant lipids were unaltered originating from the deposition of new vascular material or permafrost melt where a high alteration of lignin-derived OM was observed suggesting a long residence time in the ecosystem. Analysis of samples where there was a new and historical physical disruption to the permafrost landscape showed an initial increase in bacterial biomass biomarkers, and was corroborated with increased bacterial protein contributions and peptidoglycan signals in the NMR spectra. It is hypothesized that this increase in bacterial biomass resulted in a faster rate of degradation, possibly leading to OM priming.

The goal of this thesis was to characterize and quantify changes to Canadian Arctic organic matter (OM) induced by a physical disruption to the permafrost active layer by employing molecular-level techniques such as biomarker extraction and NMR to help elucidate its contribution to carbon turnover and global climate change. The initial biomarker characterization study determined that the extractable plant lipids were unaltered originating from the deposition of new vascular material or permafrost melt where a high alteration of lignin-derived OM was observed suggesting a long residence time in the ecosystem. Analysis of samples where there was a new and historical physical disruption to the permafrost landscape showed an initial increase in bacterial biomass biomarkers, and was corroborated with increased bacterial protein contributions and peptidoglycan signals in the NMR spectra. It is hypothesized that this increase in bacterial biomass resulted in a faster rate of degradation, possibly leading to OM priming.

Climate change is predicted to be the most pronounced in high latitude ecosystems, however very little is known about their vulnerability to the projected warmer temperatures. In particular, natural organic matter (NOM) in the high latitude cryosphere which includes dissolved organic matter (DOM) and cryoconite organic matter (COM) from glaciers and soil organic matter (SOM) in permafrost, is highly susceptible to climate change which may lead to severe consequences on both local and global carbon biogeochemical cycles. Examination of DOM in glacier ice by a novel 1H nuclear magnetic resonance (NMR) water suppression pulse sequence at its natural abundance revealed and quantified the composition and the organic constituents in ice samples from Antarctica. 1H NMR spectra of samples from several glaciers were acquired and compared to the dominant fluorescent DOM fraction. This comprehensive approach showed that glacier ice DOM was mainly composed of small, labile biomolecules associated with microbes. Examination of the organic debris found on glacier surfaces (COM) from both Arctic and Antarctic glaciers were determined to be derived from microbes. Samples from Arctic glaciers were more chemically heterogeneous with small inputs of plant-derived material detected after targeted extractions. Therefore the COM carbon composition was determined to be dependent on the local glacier environment, suggesting a site specific contribution to the carbon cycle. Finally, the distribution of extracted branched glycerol dialkyl glycerol tetraether (GDGT)microbial membrane lipids and the deuterium incorporation of plant-wax n-alkane biomarkers extracted from dated permafrost SOM (paleosols) were independently applied for Canadian Arctic climate reconstruction during the last glacial maximum. Overall, the branched GDGT based temperature reconstructions from the Arctic paleosols reconstruct higher temperatures, likely when bacterial activity was optimal. The deuterium composition of the C29 n-alkane plant lipids appears to integrate an average annual signal. Further analysis by both non-selective NMR spectroscopic and targeted biomarker techniques on these paleosol samples revealed that the major vegetative sources from this paleoecosystem originated from woody and non-woody angiosperms. This thesis demonstrates several novel analytical characterization techniques, along with the major sources and composition of NOM in the cryosphere while demonstrating its use in paleoclimate applications.

L’explosion de la nanotechnologie a permis l’intégration d’une multitude de nanoparticules dans des produits de consommation. Les nanoparticules d’argent (nAg) sont les plus utilisées à ces fins, selon les derniers recensements disponibles. La plupart des études toxicologiques, à ce jour, ont fait état de l’implication très évidente de l’ion Ag+ dans la toxicité aigüe des nAg; cependant, quelques études ont mis en évidence des effets toxicologiques dus aux nAg. Il y a un certain consensus à propos d’un risque de contamination des eaux douces via leur rejet par les effluents des réseaux d’aqueducs. Puisque les concentrations en Ag+ sont généralement très faibles dans les eaux douces (de l’ordre du pg L-1), de par la formation de complexes non-labiles avec des thiols (organiques et inorganiques) et des sulfures, la toxicité inhérente aux nAg pourrait ne pas être négligeable- comparativement aux tests en laboratoires. Cette étude s’intéressait donc aux mécanismes de bioaccumulation d’argent par l’algue verte C. reinhardtii suite à l’exposition à des nAg de 5 nm (enrobage d’acide polyacrylique). La bioaccumulation d’argent pour l’exposition à Ag+ servait de point de comparaison; également, les abondances de l’ARNm de l’isocitrate lyase 1 (ICL1) et de l’ARNm de Copper Transporter 2 (CTR2) étaient mesurées comme témoins biologiques de la bioaccumulation de Ag+. Les expériences ont été menées en présence d’un tampon organique (NaHEPES, 2 x 10-2 M; Ca2+, 5x 10-5 M) à pH de 7,00. Pour des expositions à temps fixe de 2 heures, la bioaccumulation d’argent pour nAg était supérieure à ce qui était prédit par sa concentration initiale en Ag+; cependant, il n’y avait pas de différence d’abondance des ARNm de ICL1 et de CTR2 entre nAg et Ag+. D’un autre côté, pour une exposition à temps variables, la bioaccumulation d’argent pour nAg était supérieure à ce qui était prédit par sa concentration initiale en Ag+ et une augmentation de l’abondance de l’ARNm de ICL1 était notée pour nAg. Cependant, il n’y avait aucune différence significative au niveau de l’abondance de l’ARNm de CTR2 entre nAg et une solution équivalente en Ag+. L’ajout d’un fort ligand organique (L-Cystéine; log K= 11,5) à une solution de nAg en diminuait radicalement la bioaccumulation d’argent par rapport à nAg-sans ajout de ligand. Par contre, l’abondance des ARNm de ICL1 et de CTR2 étaient stimulées significativement par rapport à une solution contrôle non-exposée à nAg, ni à Ag+. Les résultats suggéraient fortement que les nAg généraient des ions Ag+ au contact de C. reinhardtii. / The recent developments in nanotechnology have given rise to a new and increasing economical market where nanoparticles are at the forefront. Recent inventories of the nanoparticles-containing products have shown that silver nanoparticle- containing products are the most frequently used consumer nanomaterial. Due to the fear of a large scale contamination-and even pollution- of the aquatic environment from silver nanoparticles (nAg), studies have been conducted to assess their toxicities, which, in many cases, have been found to be mediated by the concomitant presence of Ag+. Notably, few studies have found evidence of toxicity due to the nAg, per se. Since numerous non-labile complexes are formed with Ag+ in freshwaters- especially with thiols and sulfides-, nAg toxicity might be more relevant in comparison to laboratory tests where the Ag+ tends to dominate toxicity studies. Therefore, this study investigated the mechanisms underlying silver bioaccumulation by the green alga, C. reinhardtii upon exposure to solutions of nAg (nominal size of 5 nm; poly-acrylate coating). Silver bioaccumulation upon exposures to the free ion alone served for comparison. In parallel, the abundance of two mRNAs- ICL1 and CTR2- were used to better understand the mechanisms underlying the bioaccumulation of Ag+ (and potentially nAg). The experiments were conducted in pH buffered solutions (NaHEPES, 2 x 10-2 M; Ca2+, 5x 10-5 M) at pH 7.00. For 2-hour exposures, the silver bioaccumulation for solutions of nAg exceeded what was expected from their Ag+ content only; however, no differences were noticed in the abundance of the expression of ICL1 and CTR2. For variable time exposures, the silver bioaccumulation for solutions of nAg exceeded what was expected from their Ag+ content only. Moreover, the expression of ICL1 was significantly higher for nAg than what was expected based upon an exposure to Ag+ only. When exposed to nAg, expression levels of CTR2 could be predicted from levels based solely on the Ag+ concentrations. The addition of a large excess of L-Cysteine, which is a very strong silver ligand (log K =11.5), to a nAg solution largely decreased silver bioaccumulation, however, bioaccumulation remained significant and the expression of both ICL1 and CTR2 were significantly higher than that of the control solutions (without Ag+). The results strongly suggest that nAg generated Ag+ ions when in contact with C. reinhardtii and that the nAg released to freshwaters might exert its toxicity through organism-contact-dependant release of Ag+.

Perfluoroalkyl carboxylates (PFCAs) and perfluoroalkane sulfonates (PFSAs)are anthropogenic fluorinated surfactants that have been detected in almost every environmental compartment studied, yet their production and applications are far outweighed by those of other higher molecular weight fluorinated surfactants used in commerce. These fluorinated surfactants are widely incorporated in commercial products, yet their post-application fate has not been extensively studied. This thesis examines various biological and environmental processes involved in the fate of these surfactants upon consumer disposal. Specific focus was directed towards the environmental chemistry of polyfluoroalkyl phosphate esters (PAPs), perfluoroalkyl phosphonates (PFPAs), and perfluoroalkyl phosphinates (PFPiAs), and their potential roles as sources of perfluoroalkyl acids (PFAAs) in the environment. PAPs are established biological precursors of PFCAs, while PFPAs and PFPiAs are newly discovered PFAAs in the environment. Incubation with wastewater treatment plant (WWTP) microbes demonstrated the ability of PAPs to yield both fluorotelomer alcohols (FTOHs), which are established precursors of PFCAs, and the corresponding PFCAs themselves. WWTP biosolids-applied soil-plant microcosms revealed that PAPs can significantly accumulate in plants along with their degradation metabolites. This has implications for potential wildlife and human exposure through the consumption of plants grown and/or livestock raised on farmlands that have been amended with contaminated biosolids. A number of compound-and environmental-specific factors were observed to significantly influence the partitioning of PFPAs and PFPiAs between aqueous media and soil, as well as, aquatic biota during sorption and bioaccumulation experiments respectively. In both processes, PFPAs were primarily observed in the aqueous phase, while PFPiAs predominated in soil and biological tissues, consistent with the few environmental observations of these chemicals made to date. Detection of the PAP diesters (diPAPs), PFPiAs, and fluorotelomer sulfonates (FTSAs),all of which are used commercially, in human sera is evidence of human exposure to commercial fluorinated products, but the pathways by which this exposure occurs remain widely debated. Overall, this work presents novel findings on the environmental fate of commercial fluorinated surfactants and each of the process studied shows a clear link between the use of commercial products and the fluorochemical burden currently observed in the environment.

Perfluoroalkyl carboxylates (PFCAs) and perfluoroalkane sulfonates (PFSAs)are anthropogenic fluorinated surfactants that have been detected in almost every environmental compartment studied, yet their production and applications are far outweighed by those of other higher molecular weight fluorinated surfactants used in commerce. These fluorinated surfactants are widely incorporated in commercial products, yet their post-application fate has not been extensively studied. This thesis examines various biological and environmental processes involved in the fate of these surfactants upon consumer disposal. Specific focus was directed towards the environmental chemistry of polyfluoroalkyl phosphate esters (PAPs), perfluoroalkyl phosphonates (PFPAs), and perfluoroalkyl phosphinates (PFPiAs), and their potential roles as sources of perfluoroalkyl acids (PFAAs) in the environment. PAPs are established biological precursors of PFCAs, while PFPAs and PFPiAs are newly discovered PFAAs in the environment. Incubation with wastewater treatment plant (WWTP) microbes demonstrated the ability of PAPs to yield both fluorotelomer alcohols (FTOHs), which are established precursors of PFCAs, and the corresponding PFCAs themselves. WWTP biosolids-applied soil-plant microcosms revealed that PAPs can significantly accumulate in plants along with their degradation metabolites. This has implications for potential wildlife and human exposure through the consumption of plants grown and/or livestock raised on farmlands that have been amended with contaminated biosolids. A number of compound-and environmental-specific factors were observed to significantly influence the partitioning of PFPAs and PFPiAs between aqueous media and soil, as well as, aquatic biota during sorption and bioaccumulation experiments respectively. In both processes, PFPAs were primarily observed in the aqueous phase, while PFPiAs predominated in soil and biological tissues, consistent with the few environmental observations of these chemicals made to date. Detection of the PAP diesters (diPAPs), PFPiAs, and fluorotelomer sulfonates (FTSAs),all of which are used commercially, in human sera is evidence of human exposure to commercial fluorinated products, but the pathways by which this exposure occurs remain widely debated. Overall, this work presents novel findings on the environmental fate of commercial fluorinated surfactants and each of the process studied shows a clear link between the use of commercial products and the fluorochemical burden currently observed in the environment.

The use of microfluidic tools to develop two novel approaches to surface-based oligonucleotide hybridization assays has been explored. In one of these approaches, immobilized oligonucleotide probes on a glass surface of a microfluidic channel were able to quantitatively hybridize with oligonucleotide targets that were electrokinetically injected into the channel. Quantitative oligonucleotide analysis was achieved in seconds, with nM detection limits and a dynamic range of 3 orders of magnitude. Hybridization was detected by the use of fluorescently labeled target. The fluorescence intensity profile evolved as a gradient that could be related to concentration, and was a function of many factors including hybridization reaction rate, convective delivery speed, target concentration and target diffusion coefficient. It was possible to acquire kinetic information from the static fluorescence intensity profile to distinguish target concentration, and the length and base-pair mismatches of target sequences. Numerical simulations were conducted for the system, and fit well with the experimental data. In a second approach, a solid-phase nucleic acid assay was developed using immobilized Quantum Dot (QD) bioprobes. Hybridization was used to immobilize QDs that had been coated with oligonucleotides having two different sequences. The hybridization of one oligonucleotide sequence conjugated to a QD (a linker sequence) with a complementary sequence that was covalently attached to a glass substrate of a microfluidic channel was shown to be an immobilization strategy that offered flexibility in assay design, with intrinsic potential for quantitative replacement of the sensing chemistry by control of stringency. A second oligonucleotide sequence conjugated to the immobilized QDs provided for the selective detection of target nucleic acids. The microfluidic environment offered the ability to manipulate flow conditions for control of stringency and increasing the speed of analytical signal by introduction of convective delivery of target sequences to the immobilized QDs. This work introduces a stable and adaptable immobilization strategy that facilitates solid-phase QD-bioprobe assays in microfluidic platforms.

À cause de leurs propriétés antibactériennes, les nanoparticules d’argent sont couramment utilisées dans un grand nombre de produits tels les tissus, les savons et les produits médicaux. Dans cette industrie en pleine croissance, ces nanoparticules sont produites en grandes quantités et s’accumuleront éventuellement dans l’environnement. Pour comprendre le destin, le transport et la biodisponibilité des nanomatériaux, il est essentiel de comprendre leurs propriétés physicochimiques. Entre autres, il est particulièrement important de quantifier la dissolution des nanoparticules à l’aide de mesures de spéciation chimique. En effet, l’objectif de cette recherche est de déterminer la spéciation chimique des nanoparticules d’argent dans différents sols. Pour y parvenir, différentes concentrations de nanoparticules d’argent ont été incorporées dans un sol et après un certain laps de temps, la forme ionique a été mesurée à l’aide d’une électrode sélective d’argent tandis que l’argent total est mesuré par absorption atomique ou par ICP-MS. L’analyse de la spéciation dans trois sols différents révèle que les caractéristiques des sols influencent grandement la spéciation chimique, plus particulièrement la quantité de matière organique ainsi que le pH du sol. Ainsi, la tendance des résultats semble indiquer que plus un sol est acide, il y aura plus d’ions argent libres tandis que la matière organique adsorbe fortement les ions argent les rendant ainsi moins disponibles en solution. L’observation de la spéciation chimique à long terme indique aussi que les nanoparticules tendent à éventuellement se dissocier et ainsi émettre un plus grand nombre d’ions dans l’environnement. Ces résultats ont des implications importantes dans la détermination des risques environnementaux des nanoparticules métalliques. / Because of their antibacterial properties, silver nanoparticles are widely used in common items such as textiles, soaps and medical products. This practice has shown a drastic expansion during the last years thus leading to potential contamination of the environment by nanoparticles. To understand fate, transport and bioavailabity of nanoparticles, it is important to understand their physicochemical properties. More specifically, it is essential to quantify the dissolution of nanoparticles with chemical speciation measurements. The aim of this study is to quantify the speciation of silver nanoparticles in different soils. Different concentrations of silver nanoparticles have been injected in soil and after a specific time, the ionic form was measured with a silver specific electrode while total silver was quantified by atomic absorption or ICP-MS. Chemical speciation measurements in three different soils indicate that a soil’s properties has a large influence on the fate of silver nanoparticles, especially it’s pH and organic matter content. Results show that if a soil is acidic, it will lead to the release of more free silver ions while organic matter tends to adsorb ions making them less available. Over a six month period, nanoparticles seem to fix rapidly to soil solids but also seem to dissociate or oxidise over the months, leading to a greater amount of potentially bioavailable ions. These results have important implications to the determination of environmental risks of metal nanoparticles.

Doctor of Philosophy / Department of Chemistry / Jun Li / Developing new and rapid methods for pathogen detection with enhanced sensitivity and temporal resolution is critical for protecting general public health and implementing the food and water safety standards. In this research vertically aligned carbon nanofiber nanoelectrode arrays (VACNF NEAs) have been explored as a sample manipulation tool and coupled with fluorescence, surface enhanced Raman scattering (SERS) and impedance techniques for pathogen detection and identification. The key objective for employing a nanoelectrode array is that the nano-Dielectrophoresis (nano-DEP) at the tip of a carbon nanofiber (CNF) acts as a potential trap to capture pathogens. A microfluidic device was fabricated where nanofibers (~ 100 nm in diameter) were placed at the bottom of a fluidic channel to serve as a ‘point array’ while an indium tin oxide coated glass slide acted as a macroscale counter electrode. The electric field gradient was highly enhanced at the tips of the CNFs when an AC voltage was applied. The first study focused on the capture of the viral particles (Bacteriophage T4r) by employing a frequency of 10.0 kHz, a flow velocity of 0.73 mm/sec, and a voltage of 10.0 Vpp. A Lithenburg type of phenomenon was observed, that were drastically different from the isolated spots of bacteria captured on VACNF tips in previous study. At the lowest employed virus concentration (1 × 10[superscript]4 pfu/mL), a capture efficiency of 60% was observed with a fluorescence microscope. The motivation of the second study was to incorporate the SERS detection for specific pathogen identification. Gold-coated iron-oxide nanoovals labeled with Raman Tags (QSY 21), and antibodies that specifically bound with E.coli cells were utilized. The optimum capture was observed at a frequency of 100.0 kHz, a flow velocity of 0.40 mm/sec, and a voltage of 10.0 Vpp. The detection limit was ~210 CFU/mL for a portable Raman system with a capture time of 50 seconds. In the final study, a real-time impedance method was employed to detect Vaccinia virus (human virus) in the nano-DEP device at 1.0 kHz and 8.0 Vpp giving a detection limit of 2.51 × 10[superscript]3 pfu/mL.