Functional genomic and molecular analyses of transcripts related to glycerol synthesis and trafficking in rainbow smelt (Osmerus mordax) using cold temperature-induced models of glycerol production

The rainbow smelt (Osmerus mordax) is an anadromous teleost that produces type II antifreeze protein (AFP) and accumulates modest urea and high glycerol levels in plasma and tissues as adaptive cryoprotectant mechanisms in sub-zero temperatures. It is known that glyceroneogenesis occurs in liver via a branch in glycolysis and gluconeogenesis and is activated by low temperature; however, the precise mechanisms of glycerol synthesis and trafficking in smelt remain to be elucidated. The objective of this thesis was to provide further insight using functional genomic techniques [e.g. suppression subtractive hybridization (SSH) cDNA library construction, microarray analyses] and molecular analyses [e.g. cloning, quantitative reverse transcription - polymerase chain reaction (QPCR)]. Novel molecular mechanisms related to glyceroneogenesis were deciphered by comparing the transcript expression profiles of glycerol (cold temperature) and non-glycerol (warm temperature) accumulating hepatocytes (Chapter 2) and livers from intact smelt (Chapter 3). Briefly, glycerol synthesis can be initiated from both amino acids and carbohydrate; however carbohydrate appears to be the preferred source when it is readily available. In glycerol accumulating hepatocytes, levels of the hepatic glucose transporter (GLUT2) plummeted and transcript levels of a suite of genes (PEPCK, MDH2, AAT2, GDH and AQP9) associated with the mobilization of amino acids to fuel glycerol synthesis were all transiently higher. In contrast, in glycerol accumulating livers from intact smelt, glycerol synthesis was primarily fuelled by glycogen degradation with higher PGM and PFK (glycolysis) transcript levels. Whether initiated from amino acids or carbohydrate, there were common metabolic underpinnings. Increased PDK2 (an inhibitor of PDH) transcript levels would direct pyruvate derived from amino acids and / or DHAP derived from G6P to glycerol as opposed to oxidation via the citric acid cycle. Robust LIPL (triglyceride catabolism) transcript levels would provide free fatty acids that could be oxidized to fuel ATP synthesis. Increased cGPDH (glyceroneogenesis) transcript levels were not required for increased glycerol production, suggesting that regulation is more likely by post-translational modification. Finally, levels of a transcript potentially encoding glycerol-3-phosphatase, an enzyme not yet characterized in any vertebrate species, were transiently higher. These comparisons also led to the novel discoveries that increased G6Pase (glucose synthesis) and increased GS (glutamine synthesis) transcript levels were part of the low temperature response in smelt. Glucose may provide increased colligative protection against freezing; whereas glutamine could serve to store nitrogen released from amino acid catabolism in a non-toxic form and / or be used to synthesize urea via purine synthesis-uricolysis. Novel key aspects of cryoprotectant osmolyte (glycerol and urea) trafficking were elucidated by cloning and characterizing three aquaglyceroporin (GLP)-encoding genes from smelt at the gene and cDNA levels in Chapter 4. GLPs are integral membrane proteins that facilitate passive movement of water, glycerol and urea across cellular membranes. The highlight was the discovery that AQP10ba transcript levels always increase in posterior kidney only at low temperature. This AQP10b gene paralogue may have evolved to aid in the reabsorption of urea from the proximal tubule. This research has contributed significantly to a general understanding of the cold adaptation response in smelt, and more specifically to the development of a working scenario for the mechanisms involved in glycerol synthesis and trafficking in this species.

Assessing the legacy of the pine point mine: post-industrial land cover and land use

While mining is a major component of the northern Canadian economy, including the contemporary mixed economy of Aboriginal communities, it often leaves legacies of environmental and economic transformation that persist after closure. The legacies of historical mines in northern Canada challenge industry claims of sustainability. This thesis addresses how industrial mineral development and closure continue to affect local environments and economies after abandonment. The abandoned Pine Point mine in the Northwest Territories provides a case study for explaining the ongoing relationships among land cover, land use, and the post-industrial landscape. Drawing from landscape ecology and micropolitical ecology, I adopt an interdisciplinary approach to examine environmental and socioeconomic changes in the wake of industrial development and closure at Pine Point. The results show that passive reclamation is not sufficient for restoring ecological function in a subarctic environment. Land use, however, persists as land users adapt to the post-industrial landscape despite grave concern about its environmental condition. If mining is to be considered sustainable, decommissioning and reclamation must explicitly account for long-term environmental transformation as well as ongoing post-industrial land use, particularly in Aboriginal contexts.

Paragenesis, geochemistry and metallogeny of the Dublin Gulch intrusion-related Au deposit, Yukon Territory, Canada

This study concerns the Dublin Gulch intrusion-related gold system, Yukon Territory, Canada. Located 85 km, north northwest of the town of Mayo, YT, the property hosts a 3.3 M oz Au deposit associated with a mid-Cretaceous pluton. A detailed, 8 stage, hydrothermal paragenesis has been constructed for the deposit. At least two discrete fluids are responsible for sulfide mineralization at Dublin Gulch. The latter of the two hydrothermal fluids is responsible for the majority of Au endowment on the property. Geochemical signatures of mineralization support this finding, displaying distinct populations of arsenopyrite compositions and sulfur isotopes for each fluid. Lead isotopes from sulfosalts associated with the second fluid suggest hydrothermal scavenging from country rocks. Geochronology and petrogenetic studies show that a short lived intrusive event c. 93-94 Ma took place at Dublin Gulch and that the main Au mineralising fluid may be linked to a yet unseen intrusion at depth.

Anomaly detection from time-changing environmental sensor data streams

This thesis stems from the project with real-time environmental monitoring company EMSAT Corporation. They were looking for methods to automatically ag spikes and other anomalies in their environmental sensor data streams. The problem presents several challenges: near real-time anomaly detection, absence of labeled data and time-changing data streams. Here, we address this problem using both a statistical parametric approach as well as a non-parametric approach like Kernel Density Estimation (KDE). The main contribution of this thesis is extending the KDE to work more effectively for evolving data streams, particularly in presence of concept drift. To address that, we have developed a framework for integrating Adaptive Windowing (ADWIN) change detection algorithm with KDE. We have tested this approach on several real world data sets and received positive feedback from our industry collaborator. Some results appearing in this thesis have been presented at ECML PKDD 2015 Doctoral Consortium.

Sociophonetic deception: the elements of vocal disguise

The focus of my research is vocal disguise within forensic linguistics. Specifically, I answer the question of what individuals are most likely to do with their voice when they do not want to be recognized by a listener. I also focus on whether specific sociolinguistic characteristics – gender and place of origin – have an effect on the disguise choices that individuals make. My research has found that participants show a preference for altering pitch and/or duration across conditions, as well as taking on a foreign accent. Gender and origin were found to be significant for respect to differences in duration, and significance was also found between origin and pitch. These results suggest that disguise might contain elements of style shifting, and that a speaker's choice is more systematic than random.

Parental attitudes of inclusion

The purpose of this qualitative study was to develop an understanding of parents’ attitudes towards inclusion. This investigation focused on parental perspectives of inclusion based on their child’s receipt of educational services. Perceived implications of inclusion were relative to each participant; therefore, results could not be considered generalizable. This study employed purposive sampling in acquiring participants. Eligibility for this study included being the parent/guardian of a child who received special education services in school. Semi-structured interviews were used to collect data, allowing participants to tell their story about their experiences with inclusion. Parents in this study were eager to share their attitudes towards inclusion, speaking candidly about their children’s successes attributed to inclusion as well as issues experienced. Parents identified a number of outcomes of inclusion, namely, social interaction, self-esteem, instructional support, and normalcy.

Cooperative routing for collision minimization in wireless sensor networks

Cooperative communication has gained much interest due to its ability to exploit the broadcasting nature of the wireless medium to mitigate multipath fading. There has been considerable amount of research on how cooperative transmission can improve the performance of the network by focusing on the physical layer issues. During the past few years, the researchers have started to take into consideration cooperative transmission in routing and there has been a growing interest in designing and evaluating cooperative routing protocols. Most of the existing cooperative routing algorithms are designed to reduce the energy consumption; however, packet collision minimization using cooperative routing has not been addressed yet. This dissertation presents an optimization framework to minimize collision probability using cooperative routing in wireless sensor networks. More specifically, we develop a mathematical model and formulate the problem as a large-scale Mixed Integer Non-Linear Programming problem. We also propose a solution based on the branch and bound algorithm augmented with reducing the search space (branch and bound space reduction). The proposed strategy builds up the optimal routes from each source to the sink node by providing the best set of hops in each route, the best set of relays, and the optimal power allocation for the cooperative transmission links. To reduce the computational complexity, we propose two near optimal cooperative routing algorithms. In the first near optimal algorithm, we solve the problem by decoupling the optimal power allocation scheme from optimal route selection. Therefore, the problem is formulated by an Integer Non-Linear Programming, which is solved using a branch and bound space reduced method. In the second near optimal algorithm, the cooperative routing problem is solved by decoupling the transmission power and the relay node se- lection from the route selection. After solving the routing problems, the power allocation is applied in the selected route. Simulation results show the algorithms can significantly reduce the collision probability compared with existing cooperative routing schemes.

Scope & nature of young sudden cardiac death in Newfoundland & Labrador

Introduction: Sudden cardiac death (SCD) in young people (ages 2-40) is a tragedy for families and communities alike. It has multiple causes, one of which is an underlying genetic arrhythmogenic cardiomyopathy. A study from Ontario (ON) using a 2008 cohort assessed the incidence of SCD in persons aged 2-40 years to be 2.64/100,000 person-years. We hypothesized that Newfoundland & Labrador (NL) may have a higher incidence of early SCD in ages 2-40 due to possible underlying genetic causes given the historical genetic isolation of the population and the founder mutations already identified (ex. PKP2, RYR2, TMEM43). Methods: We ascertained cases of sudden death from the comprehensive Medical Examiners’ provincial database for the years 2008 and 1997; 2008 as a direct comparison to ON, and 1997 as it represented a time when the implantable cardioverter-defibrillator was not available in NL. Each case of sudden death was individually analyzed to determine likelihood of SCD. Results: There were 119 cases in 2008 and 157 cases in 1997. The incidence of SCD for ages 2-40 in 2008 was 7.32/100,000 persons. This was significantly higher than the incidence in Ontario. The incidence of SCD was not significantly higher in 1997 than 2008. Coronary artery disease was a major cause of death in all cohorts, similar to Ontario (non-significant difference). Conclusion: In general, there was a trend of more arrhythmogenic deaths in the young and more structural cardiac deaths as age increased. This reflects the cause of SCD in the young is often genetic in nature, while older deaths are often due to coronary artery disease, a disease heavily influenced by environment. To conclude, SCD in NL occurs at a higher incidence than ON, further research is needed on the topic.

The development and preliminary testing of an instrument to measure the perceived economic burden of a subtype of arrhythmogenic right ventricular cardiomyopathy (ARVC) on patients and families in Newfoundland

The goal of this thesis was to develop, construct, and validate the Perceived Economic Burden scale to quantitatively measure the burden associated with a subtype Arrhythmogenic Right Ventricular Cardiomyopathy (ARVC) in families from the island of Newfoundland. An original 76 item self-administered survey was designed using content from existing literature as well as themes from qualitative research conducted by our team and distributed to individuals of families known to be at risk for the disease. A response rate of 37.2% (n = 64) was achieved between December 2013 and May 2014. Tests for data quality, Likert scale assumptions and scale reliability were conducted and provided preliminary evidence of the psychometric properties of the final constructed perceived economic burden of ARVC scale comprising 62 items in five sections. Findings indicated that being an affected male was a significant predictor of increased perceived economic burden in the majority of economic burden measures. Affected males also reported an increased likelihood of going on disability and difficulty obtaining insurance. Affected females also had an increased perceived financial burden. Preliminary results suggest that a perceived economic burden exists within the ARVC population in Newfoundland.

Meating the social: sharing atiku-euiash in Sheshatshiu, Labrador

This work examines atiku-euiash (caribou meat) sharing practices in Sheshatshiu, Newfoundland and Labrador, and aims to elucidate an overarching question: how do sharing practices participate in the co-constitution of the Innu ‘social’? The ‘social’ is understood in this work as a descriptor that refers to the emergent properties of the Innu collective. The thesis is that sharing practices participate in the co-constitution of the Innu social and enact its boundaries. Inside these boundaries, atiku-euiash is more than simply a food resource: by realizing Innu values of generosity, respect and autonomy, sharing implicates the associations of human, animal, and animal masters that constitute the Innu world. Sharing is connected with the enskilment of the younger generations by their el-ders, and thus with the reproduction of Innu values through time. The ways of sharing are relevant because changes in such practices affect the constitution of the Innu social. Giv-en Euro-Canadian colonization, the Innu are in a fraught social space in which sharing is interrupted by colonization practices and values. Understanding sharing is necessary to develop policies that do not interrupt the reproduction of the Innu world This work uses several research methods: participant observation, sharing surveys, and interviews. It also uses network analysis as sharing practices leave traces of giving and receiving actions and these traces can be represented as a network of givers, receivers and circulating caribou meat. There are two main ways in which caribou is hunted and shared: household-based hunts and community-based hunts. The household-based hunts are organized by the hunters themselves, who are able and willing to hunt. Community-based hunts are completely organized and funded by the SIFN or the Innu Nation. In or-der to understand the differences in the distribution of the two hunt types, the categories of centrality and clustering are used to show how the flow of atiku-eiuash and its associ-ated realization of values and enskilment correlate with different degrees of centralization inside the sharing clusters.

Sociophonetic history of Newfoundland English in Happy Valley-Goose Bay, Labrador

In this paper, I report on the variety of English spoken in the relatively new community of Happy Valley-Goose Bay, Labrador. The efects of dialect contact and the process of dialect levelling (Trudgill 1986; Britain 1997, Kerswill and Williams 2000; Kerswill 2002) are observed by examining the development of several vowels in the Happy Valley- Goose Bay vowel system. In this community the migrant generation showed evidence of mixing. The frst generation showed the most evidence of levelling along with the emergence of new distinctions. The second generation showed some evidence of levelling, the emergence of new distinctions, and in some cases a return to patterns present in the migrant generation. These results indicate that diferent vowels within a dialect can move through the stages of dialect contact at diferent rates due to the multitude of infuences on the process of dialect contact.

Building connections: political participation, social capital and the built environment in St. John's, Newfoundland

How does where we live affect how we live? Do characteristics of the built environment affect the civic and social lives of the people living there? This study examines these questions at the neighbourhood scale in the Canadian city of St. John's, Newfoundland. To do so, it combines data from a survey measuring respondents' social capital (defined as a combination of social participation, social trust, and civic participation) and a "built environment audit" that records the built characteristics of each respondent's neighbourhood. The study finds a significant, positive relationship between the walkability of a neighbourhood and the social capital of the people living there. This relationship is driven primarily by the effect of the built environment on voluntary participation and relationships with neighbours. The study also tests several methods of measuring walkability, and finds that an objective measure based on street geometry is the best predictor of social capital.

The effect of economic inequality on voter turnout in Canadian federal elections, 1979-2011

Since the 1990s, voter turnout in Canadian federal elections has decreased considerably. During the same period, economic inequality significantly increased. Although there is much theoretical work, there have been few empirical studies examining the effect of economic inequality on voter turnout. Using data collected from both national and international sources, I conducted an aggregate level, time series analysis of national turnout and economic inequality for Canadian federal elections between 1979 and 2011. Moreover, this thesis tests Schattschneider's (1960) hypothesis, which argues that increasing rates of voter abstention are a result of economic inequality magnifying differences in relative power between affluent and non-affluent citizens. The findings indicate that economic inequality has a strong negative effect on voter turnout.

Identifying the major spilled oil constituents and fate in harsh offshore environments

The behaviour and fate of spilled oil in harsh marine environments, such as the North Atlantic and the Arctic Ocean are complex due to environmental factors and the composition of the crude. In order to develop appropriate oil spill prevention and management methods, we must first understand how the oil behaves in these harsh environmental conditions. This study focuses on determining the fate of oil in harsh marine environments by first identifying target compounds in the oil that can be used to determine the fate of a spill. This thesis presents the partitioning behaviour of six polycyclic aromatic hydrocarbons (PAHs), which represent different groups, and phenols in cold conditions. The smallest PAH, naphthalene, dominated in terms of concentration in water accommodated fraction (WAF) of oil, while the larger ringed PAHs presented at lower concentrations. The smallest oil-water partition coefficient was recorded by phenol which partitioned into the seawater more quickly than PAHs. The partitioning of larger PAHs was slower and they indicated high partition coefficients. The oil partitioning increased slightly as temperature increased from 4ᴼC to 15ᴼC. The oil loading (0.1 g/L to 10 g/L) also contributed in deciding the concentrations in water. The use of chemical dispersants is a common response to spills. This study identified that chemical dispersants can change the fate of an oil spill by increasing the availability of oil in seawater. The concentration of larger PAHs such as pyrene and chrysene increased significantly with the application of dispersants. The information obtained are used in developing a molecular imprinted polymer (MIP) sensor to identify oil spills in the North Atlantic Ocean.

Provocative feature deletion: a syntactic model of agreement alternations in noun incorporation contexts

The relationship between noun incorporation (NI) and the agreement alternations that occur in such contexts (NI Transitivity Alternations) remains inadequately understood. Three interpretations of these alternations (Baker, Aranovich & Golluscio 2005; Mithun 1984; Rosen 1989) are shown to be undermined by foundational or mechanical issues. I propose a syntactic model, adopting Branigan's (2011) interpretation of NI as the result of “provocative” feature valuation, which triggers generation of a copy of the object that subsequently merges inside the verb. Provocation triggers a reflexive Refine operation that deletes duplicate features from chains, making them interpretable for Transfer. NI Transitivity Alternations result from variant deletion preferences exhibited during Refine. I argue that the NI contexts discussed (Generic NI, Partial NI and Double Object NI) result from different restrictions on phonetic and semantic identity in chain formation. This provides us with a consistent definition of NI Transitivity Alternations across contexts, as well as a new typology that distinguishes NI contexts, rather than incorporating languages.