A New Method for Modeling Free Surface Flows and Fluid-structure Interaction with Ocean Applications

The computational modeling of ocean waves and ocean-faring devices poses numerous challenges. Among these are the need to stably and accurately represent both the fluid-fluid interface between water and air as well as the fluid-structure interfaces arising between solid devices and one or more fluids. As techniques are developed to stably and accurately balance the interactions between fluid and structural solvers at these boundaries, a similarly pressing challenge is the development of algorithms that are massively scalable and capable of performing large-scale three-dimensional simulations on reasonable time scales. This dissertation introduces two separate methods for approaching this problem, with the first focusing on the development of sophisticated fluid-fluid interface representations and the second focusing primarily on scalability and extensibility to higher-order methods.

We begin by introducing the narrow-band gradient-augmented level set method (GALSM) for incompressible multiphase Navier-Stokes flow. This is the first use of the high-order GALSM for a fluid flow application, and its reliability and accuracy in modeling ocean environments is tested extensively. The method demonstrates numerous advantages over the traditional level set method, among these a heightened conservation of fluid volume and the representation of subgrid structures.

Next, we present a finite-volume algorithm for solving the incompressible Euler equations in two and three dimensions in the presence of a flow-driven free surface and a dynamic rigid body. In this development, the chief concerns are efficiency, scalability, and extensibility (to higher-order and truly conservative methods). These priorities informed a number of important choices: The air phase is substituted by a pressure boundary condition in order to greatly reduce the size of the computational domain, a cut-cell finite-volume approach is chosen in order to minimize fluid volume loss and open the door to higher-order methods, and adaptive mesh refinement (AMR) is employed to focus computational effort and make large-scale 3D simulations possible. This algorithm is shown to produce robust and accurate results that are well-suited for the study of ocean waves and the development of wave energy conversion (WEC) devices.

Cogestion des ressources naturelles : une approche structurale pour quantifier la contribution des réseaux d'acteurs à la résilience des systèmes socio-écologiques

Alors que les activités anthropiques font basculer de nombreux écosystèmes vers des régimes fonctionnels différents, la résilience des systèmes socio-écologiques devient un problème pressant. Des acteurs locaux, impliqués dans une grande diversité de groupes — allant d’initiatives locales et indépendantes à de grandes institutions formelles — peuvent agir sur ces questions en collaborant au développement, à la promotion ou à l’implantation de pratiques plus en accord avec ce que l’environnement peut fournir. De ces collaborations répétées émergent des réseaux complexes, et il a été montré que la topologie de ces réseaux peut améliorer la résilience des systèmes socio-écologiques (SSÉ) auxquels ils participent. La topologie des réseaux d’acteurs favorisant la résilience de leur SSÉ est caractérisée par une combinaison de plusieurs facteurs : la structure doit être modulaire afin d’aider les différents groupes à développer et proposer des solutions à la fois plus innovantes (en réduisant l’homogénéisation du réseau), et plus proches de leurs intérêts propres ; elle doit être bien connectée et facilement synchronisable afin de faciliter les consensus, d’augmenter le capital social, ainsi que la capacité d’apprentissage ; enfin, elle doit être robuste, afin d’éviter que les deux premières caractéristiques ne souffrent du retrait volontaire ou de la mise à l’écart de certains acteurs. Ces caractéristiques, qui sont relativement intuitives à la fois conceptuellement et dans leur application mathématique, sont souvent employées séparément pour analyser les qualités structurales de réseaux d’acteurs empiriques. Cependant, certaines sont, par nature, incompatibles entre elles. Par exemple, le degré de modularité d’un réseau ne peut pas augmenter au même rythme que sa connectivité, et cette dernière ne peut pas être améliorée tout en améliorant sa robustesse. Cet obstacle rend difficile la création d’une mesure globale, car le niveau auquel le réseau des acteurs contribue à améliorer la résilience du SSÉ ne peut pas être la simple addition des caractéristiques citées, mais plutôt le résultat d’un compromis subtil entre celles-ci. Le travail présenté ici a pour objectifs (1), d’explorer les compromis entre ces caractéristiques ; (2) de proposer une mesure du degré auquel un réseau empirique d’acteurs contribue à la résilience de son SSÉ ; et (3) d’analyser un réseau empirique à la lumière, entre autres, de ces qualités structurales. Cette thèse s’articule autour d’une introduction et de quatre chapitres numérotés de 2 à 5. Le chapitre 2 est une revue de la littérature sur la résilience des SSÉ. Il identifie une série de caractéristiques structurales (ainsi que les mesures de réseaux qui leur correspondent) liées à l’amélioration de la résilience dans les SSÉ. Le chapitre 3 est une étude de cas sur la péninsule d’Eyre, une région rurale d’Australie-Méridionale où l’occupation du sol, ainsi que les changements climatiques, contribuent à l’érosion de la biodiversité. Pour cette étude de cas, des travaux de terrain ont été effectués en 2010 et 2011 durant lesquels une série d’entrevues a permis de créer une liste des acteurs de la cogestion de la biodiversité sur la péninsule. Les données collectées ont été utilisées pour le développement d’un questionnaire en ligne permettant de documenter les interactions entre ces acteurs. Ces deux étapes ont permis la reconstitution d’un réseau pondéré et dirigé de 129 acteurs individuels et 1180 relations. Le chapitre 4 décrit une méthodologie pour mesurer le degré auquel un réseau d’acteurs participe à la résilience du SSÉ dans lequel il est inclus. La méthode s’articule en deux étapes : premièrement, un algorithme d’optimisation (recuit simulé) est utilisé pour fabriquer un archétype semi-aléatoire correspondant à un compromis entre des niveaux élevés de modularité, de connectivité et de robustesse. Deuxièmement, un réseau empirique (comme celui de la péninsule d’Eyre) est comparé au réseau archétypique par le biais d’une mesure de distance structurelle. Plus la distance est courte, et plus le réseau empirique est proche de sa configuration optimale. La cinquième et dernier chapitre est une amélioration de l’algorithme de recuit simulé utilisé dans le chapitre 4. Comme il est d’usage pour ce genre d’algorithmes, le recuit simulé utilisé projetait les dimensions du problème multiobjectif dans une seule dimension (sous la forme d’une moyenne pondérée). Si cette technique donne de très bons résultats ponctuellement, elle n’autorise la production que d’une seule solution parmi la multitude de compromis possibles entre les différents objectifs. Afin de mieux explorer ces compromis, nous proposons un algorithme de recuit simulé multiobjectifs qui, plutôt que d’optimiser une seule solution, optimise une surface multidimensionnelle de solutions. Cette étude, qui se concentre sur la partie sociale des systèmes socio-écologiques, améliore notre compréhension des structures actorielles qui contribuent à la résilience des SSÉ. Elle montre que si certaines caractéristiques profitables à la résilience sont incompatibles (modularité et connectivité, ou — dans une moindre mesure — connectivité et robustesse), d’autres sont plus facilement conciliables (connectivité et synchronisabilité, ou — dans une moindre mesure — modularité et robustesse). Elle fournit également une méthode intuitive pour mesurer quantitativement des réseaux d’acteurs empiriques, et ouvre ainsi la voie vers, par exemple, des comparaisons d’études de cas, ou des suivis — dans le temps — de réseaux d’acteurs. De plus, cette thèse inclut une étude de cas qui fait la lumière sur l’importance de certains groupes institutionnels pour la coordination des collaborations et des échanges de connaissances entre des acteurs aux intérêts potentiellement divergents.

(Table 1) Diatom events for AND1-1B, CIROS-2, DVDP-10, and DVDP-11 cores including observed and placed depths

Late Neogene stratigraphy of southern Victoria Land Basin is revealed in coastal and offshore drill cores and a network of seismic data in McMurdo Sound, Antarctica. These data preserve a record of ice sheet response to global climate variability and progressive cooling through the past 5 million years. Application of a composite standard age model for diatom event stratigraphy to the McMurdo Sound drill cores provides an internally precise mechanism to correlate stratigraphic data and derive an event history for the basin. These marine records are indirectly compared to data obtained from geological outcrop in the Transantarctic Mountains to produce an integrated history of Antarctic Ice Sheet response to climate variability from the early Pliocene to Recent. Four distinct chronostratigraphic intervals reflect stages and steps in a transition from a relatively warm early Pliocene Antarctic coastal climate to modern cold polar conditions. Several of these stages and steps correlate with global events identified via geochemical proxy data recovered from deep ocean cores in mid to low latitudes. These correlations allow us to consider linkages between the high southern latitudes and tropical regions and establish a temporal framework to examine leads and lags in the climate system through the late Neogene and Quaternary. The relative influence of climate-tectonic feedbacks is discussed in light of glacial erosion and isostatic rebound that also influence the history along the Southern Victoria Land coastal margin.

Grain size distribution and sea level changes in Gåsfjärden fjord

We analysed long-term variations in grain-size distribution in sediments from Gåsfjärden, a fjord-like inlet on the south-west Baltic Sea, and explored potential drivers of the recorded changes in sediment grain-size data. Over the last 5.4 thousand years (ka), the relative sea level decreased 17 m in the study region, caused by isostatic land uplift. As a consequence, Gåsfjärden has been transformed from an open coastal setting into a semi-closed inlet surrounded on the east by numerous small islands. To quantitatively estimate the morphological changes in Gåsfjärden over the last 5.4 ka and to further link the changes to our grain-size data, a digital elevation model (DEM)-based openness index was calculated. In the period between 5.4 and 4.4 ka BP, the inlet was characterised by the largest openness index. During this interval, the highest sand contents (~0.4 %) and silt/clay ratios (~0. 3) in the sediment sequence were recorded, indicating relatively high bottom water energy. After 4.4 ka BP, the average sand content was halved to ~0.2 % and the silt/clay ratios showed a significant decreasing trend over the last 4 ka. These changes are found to be associated with the gradual embayment of Gåsfjärden as represented in the openness index. The silt/clay ratios exhibited a delayed and slower change compared with the sand contents, which further suggest that finer particles are less sensitive to changes in hydrodynamic energy. Our DEM-based coastal openness index has proved to be a useful tool for interpreting the sedimentary grain-size record.

(Table 1) Luminescence datings from Varchushka and Pyoza rivers, Russia

The Pyoza River area in the Arkhangelsk district exposes sedimentary sequences suitable for study of the interaction between consecutive Valdaian ice sheets in Northern Russia. Lithostratigraphic investigations combined with luminescence dating have revealed new evidence on the Late Pleistocene history of the area. Overlying glacigenic deposits of the Moscowian (Saalian) glaciation marine deposits previously confined to three separate transgression phases have all been connected to the Mikulinian (Eemian) interglacial. Early Valdaian (E. Weichselian) proglacial, lacustrine and fluvial deposits indicate glaciation to the east or north and consequently glacier damming and meltwater run-off in the Pyoza area around 90-110 ka BP. Interstadial conditions with forest-steppe tundra vegetation and lacustrine and fluvial deposition prevailed at the end of the Early Valdaian around 75-95 ka BP. A terrestrial-based glaciation from easterly uplands reached the Pyoza area at the Early to Middle Valdaian transition around 65-75 ka BP and deposited glaciofluvial strata and subglacial till (Yolkino Till). During deglaciation, laterally extensive glaciolacustrine sediments were deposited in ice-dammed lakes in the early Middle Valdaian around 55-75 ka BP. The Barents-Kara Sea ice sheet deposited the Viryuga Till on the lower Pyoza from northerly directions. The ice sheet formed the Pyoza marginal moraines, which can be correlated with the Markhida moraines further east, and proglacial lacustrine deposition persisted in the area during the first part of the Middle Valdaian. Glacio-isostatic uplift caused erosion followed by pedogenesis and the formation of a deflation horizon in the Middle Valdaian. Widely dispersed periglacial river plains were formed during the Late Valdaian around 10-20 ka BP. Thus, the evidence of a terrestrial-based ice sheet from easterly uplands in the Pyoza area suggests that local piedmont glaciers situated in highlands such as the Timan Ridge or the Urals could have developed into larger, regionally confined ice sheets. Two phases of ice damming and development of proglacial lakes occurred during the Early and Middle Valdaian. The region did not experience glaciation during the Late Valdaian.

Firn line elevation of the Dickson Land peninsula

The Dickson Land peninsula is located in central West-Spitsbergen between the NNE branches of Isfjorden. The climatic firn line lying at 500 m causes plateau glaciers with outlet tongues which are characteristic of S-Dickson Land. The distribution of valley glaciers and the variations of the orographic firn line depend on wind direction. In comparing the firn lines established by the methods of LICHTENECKER (1938) and VISSER (1938), to the values calculated by the method of v. HÖFER (1879), differences of up to l07 m are found. These differences may depend on the inclination and distance relationships of the glaciers above and below the real firn lines. During the latest glacial advance, Dickson Land was located on the peripheries of two local glaciation centers. At that time an inland glaciation of West-Spitsbergen did not exist . The formation of a subglacial channel system dates back to the maximum extent of the late glacial phase before 17500 B.P, (+2000/-1375 years). A correlation of postglacial stadia and 14C dated marine terraces (FEYLING-HANSSEN & OLSSON, 1960; FEYLING-HANSSEN, 1965) is possible. Considering isostatic movement and the difference between calculated and real firn lines, a postglacial stadium at about 10400 B. P. can be reconstructed with a firn line lying 265 m above former sea level. On average, the absolute depression below the recent firn line amounted to 246 m. Stagnation at 9650 B.P. coincided with a firn line at 315 m above former sea level and a depression of 173 m. Around 1890 A.D., glacial fluctuations corresponded to a firn line at 415 m (depression: 64 m). To some extent the morphology of the main valleys appears to depend on structure and petrography. Therefore their value as indicators of former glaciations is questionable. The periglacial forms are shown on a large-scale map. At the time of the "Holocene warm interval", between 7000 and 2000 B.P. (FEYLING-HANSSEN, 1955a, 1965), an increase of periglacial activity seems likely. This can be explained by a simultaneous increase in the depth of the active layer in both soil and bedrock.

Cultural Politics of Resilience in Kingston, Jamaica

Recently, resilience has become a catchall solution for some of the world’s most pressing ecological, economic and social problems. This dissertation analyzes the cultural politics of resilience in Kingston, Jamaica by examining them through their purported universal principles of adaptation and flexibility. On the one hand, mainstream development regimes conceptualize resilience as a necessary and positive attribute of economies, societies and cultures if we are to survive any number of disasters or disturbances. Therefore, in Jamaican cultural and development policy resilience is championed as both a means and an end of development. On the other hand, critics of resilience see the new rollout of resilience projects as deepening neoliberalism, capitalism and new forms of governmentality because resilience projects provide the terrain for new forms of securitization and surveillance practices. These scholars argue that resilience often forecloses the possibilities to resist that which threatens us. However, rather than dismissing resilience as solely a sign of domination and governmentality, this dissertation argues that resilience must be understood as much more ambiguous and complex, rather than within binaries such as subversion vs. neoliberal and resistance vs. resilience. Overly simplistic dualities of this nature have been the dominant approach in the scholarship thus far. This dissertation provides a close analysis of resilience in both multilateral and Jamaican government policy documents, while exploring the historical and contemporary production of resilience in the lives of marginalized populations. Through three sites within Kingston, Jamaica—namely dancehall and street dances, WMW-Jamaica and the activist platform SO((U))L HQ—this dissertation demonstrates that “resilience” is best understood as an ambiguous site of power negotiations, social reproduction and survival in Jamaica today. It is often precisely this ambiguous power of ordinary resilience that is capitalized on and exploited to the detriment of vulnerable groups. At once demonstrating creative negotiation and reproduction of colonial capitalist social relations within the realms of NGO, activist work and cultural production, this dissertation demonstrates the complexity of resilience. Ultimately, this dissertation draws attention to the importance of studying spaces of cultural production in order to understand the power and limits of contemporary policy discourses and political economy. 

Do we need to rethink our waterways? Values of ageing waterways in current and future society

In the past canals were developed, and some rivers were heavily altered, driven by the need for good transportation infrastructure. Major investments were made in navigation locks, weirs and artificial embankments, and many of these assets are now reaching the end of their technical lifetime. Since then the concept of integrated water resource management (IWRM) emerged as a concept to manage and develop water-bodies in general. Two pressing problems arise from these developments: (1) major reinvestment is needed in order to maintain the transportation function of these waterways, and (2), it is not clear how the implementation of the concept of IWRM can be brought into harmony with such reinvestment. This paper aims to illustrate the problems in capital-intensive parts of waterway systems, and argues for exploring value-driven solutions that rely on the inclusion of multiple values, thus solving both funding problems and stakeholder conflicts. The focus on value in cooperative strategies is key to defining viable implementation strategies for waterway projects.

Education and Self-Cultivation: Foundational Changes for Existential Flourishing

The strained relationship between pedagogy and self-cultivation is often overlooked in favour of more pressing and profitable concerns within educational institutions. However, the end of education is not a well-paying job. It is often thought that education will produce a certain type of learned individual. Students are entered into educational institutions from a very young age and spend most of their youth within them, subsequently forming a part of themselves, their self-identify and agency, through these institutions. A significant amount of trust is placed in the hands of educators not only to impart information about various subject matters but to teach students how to think. This, however, is a difficult task which cannot be completely accomplished; thinking is a skill which an educator can promote but only the individual can cultivate. If self-cultivation is not the end of pedagogical practice and education, there is something deeply contradictory between the theoretical and practical values and aims of educational institutions.This thesis will address the problems caused by the neglect of self-cultivation within the pedagogical practices of contemporary educational institutions. I argue that self-cultivation, existential learning and flourishing should be the focus of these institutions. Educational institutions can make alternative efforts not only to improve the learning environment for these students but to prepare them to cope with existential questions. By acknowledging and focusing on the significance of self-cultivation, educational institutions can and should make efforts not only to teach useful, marketable skills and information but to also nurture the agency and mental well-being of the student him- or herself. My hope is that this thesis will be the first step towards answering a larger concern: How can educational institutions alleviate the struggles of students, particularly the seemingly growing number who are suffering from depression, by appealing to notions of self-cultivation?

Introductory Editorial: Evolutionary Genomics

This supplement is intended to focus on evolutionary genomics. Evolutionary Bioinformatics aims to provide researchers working in this complex, quickly developing field with online, open access to highly relevant scholarly articles by leading international researchers. In a field where the literature is ever-expanding, researchers increasingly need access to up-to-date, high quality scholarly articles on areas of specific contemporary interest. This supplement aims to address this by presenting high-quality articles that allow readers to distinguish the signal from the noise. The editor in chief hopes that through this effort, practitioners and researchers will be aided in finding answers to some of the most complex and pressing issues of our time.

All in the Family? Parental Roles in the Epidemic of Childhood Obesity

Childhood obesity is a serious global health challenge. Families and consumption are at the nexus of the problem, as childhood weight issues depend significantly on family-related influences (genetic predispositions, physical activities, and household food consumption practices). This article focuses on how a family socializes a child toward or away from obesity. It advances a family consumer socialization framework to characterize key elements and processes. Biological predispositions, parent/family inputs, elements of child development, parent-child interactions, and intergenerational transfer are all major contributors to weight status and life course potentials. Time is also a crucial component, here represented in two forms -- linear and cyclical. Drawing on extensive research from other disciplines and related consumer research, five “Foundational Properties” are distilled, representing fundamental tenets underpinning the family’s role in this problem. Each property is then used to chart promising opportunities for consumer researchers and others interested in advancing knowledge on this pressing concern.

Environmental carbonate chemistry selects for phenotype of recently isolated strains of Emiliania huxleyi

Coccolithophorid algae, particularly Emiliania huxleyi, are prolific biomineralisers that, under many conditions, dominate communities of marine eukaryotic plankton. Their ability to photosynthesise and form calcified scales (coccoliths) has placed them in a unique position in the global carbon cycle. Contrasting reports have been made with regards to the response of E. huxleyi to ocean acidification. Therefore, there is a pressing need to further determine the fate of this key organism in a rising CO2 world. In this paper, we investigate the phenotype of newly isolated, genetically diverse, strains of E. huxleyi from UK Ocean Acidification Research Programme (UKOA) cruises around the British Isles, the Arctic, and the Southern Ocean. We find a continuum of diversity amongst the physiological and photosynthetic parameters of different strains of E. huxleyi morphotype A under uniform, ambient conditions imposed in the laboratory. This physiology is best explained by adaptation to carbonate chemistry in the former habitat rather than being prescribed by genetic fingerprints such as the coccolithophore morphology motif (CMM). To a first order, the photosynthetic capacity of each strain is a function of both aqueous CO2 availability, and calcification rate, suggestive of a link between carbon concentrating ability and calcification. The calcification rate of each strain is related linearly to the natural environmental [CO32−] at the site of isolation, but a few exceptional strains display low calcification rates at the highest [CO32−] when calcification is limited by low CO2 availability and/or a lack of a carbon concentrating mechanism. We present O2-electrode measurements alongside coccolith oxygen isotopic composition and the uronic acid content (UAC) of the coccolith associated polysaccharide (CAP), that act as indirect tools to show the differing carbon concentrating ability of the strains. The environmental selection revealed amongst our recently isolated strain collection points to the future outcompetition of the slow growing morphotypes B/C and R (which also lack a carbon concentrating mechanism) by more rapidly photosynthesising, and lightly calcified strains of morphotype A but with their rate of calcification highly dependent on the surface ocean saturation state. The mechanism of E. huxleyi response to carbonate chemistry in the modern ocean appears to be selection from a continuum of phenotype.

Environmental carbonate chemistry selects for phenotype of recently isolated strains of Emiliania huxleyi

Coccolithophorid algae, particularly Emiliania huxleyi, are prolific biomineralisers that, under many conditions, dominate communities of marine eukaryotic plankton. Their ability to photosynthesise and form calcified scales (coccoliths) has placed them in a unique position in the global carbon cycle. Contrasting reports have been made with regards to the response of E. huxleyi to ocean acidification. Therefore, there is a pressing need to further determine the fate of this key organism in a rising CO2 world. In this paper, we investigate the phenotype of newly isolated, genetically diverse, strains of E. huxleyi from UK Ocean Acidification Research Programme (UKOA) cruises around the British Isles, the Arctic, and the Southern Ocean. We find a continuum of diversity amongst the physiological and photosynthetic parameters of different strains of E. huxleyi morphotype A under uniform, ambient conditions imposed in the laboratory. This physiology is best explained by adaptation to carbonate chemistry in the former habitat rather than being prescribed by genetic fingerprints such as the coccolithophore morphology motif (CMM). To a first order, the photosynthetic capacity of each strain is a function of both aqueous CO2 availability, and calcification rate, suggestive of a link between carbon concentrating ability and calcification. The calcification rate of each strain is related linearly to the natural environmental [CO32−] at the site of isolation, but a few exceptional strains display low calcification rates at the highest [CO32−] when calcification is limited by low CO2 availability and/or a lack of a carbon concentrating mechanism. We present O2-electrode measurements alongside coccolith oxygen isotopic composition and the uronic acid content (UAC) of the coccolith associated polysaccharide (CAP), that act as indirect tools to show the differing carbon concentrating ability of the strains. The environmental selection revealed amongst our recently isolated strain collection points to the future outcompetition of the slow growing morphotypes B/C and R (which also lack a carbon concentrating mechanism) by more rapidly photosynthesising, and lightly calcified strains of morphotype A but with their rate of calcification highly dependent on the surface ocean saturation state. The mechanism of E. huxleyi response to carbonate chemistry in the modern ocean appears to be selection from a continuum of phenotype.

GIS technologies and spatial organization patterns among hunter-gatherers: an archaeological case study from Southern Patagonia (southern South America)

This paper discusses some aspects of hunter-gatherer spatial organization in southern South Patagonia, in later times to 10,000 cal yr BP. Various methods of spatial analysis, elaborated with a Geographic Information System (GIS) were applied to the distributional pattern of archaeological sites with radiocarbon dates. The shift in the distributional pattern of chronological information was assessed in conjunction with other lines of evidence within a biogeographic framework. Accordingly, the varying degrees of occupation and integration of coastal and interior spaces in human spatial organization are explained in association with the adaptive strategies hunter-gatherers have used over time. Both are part of the same human response to changes in risk and uncertainty variability in the region in terms of resource availability and environmental dynamics.