ALBERT

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution August 1984

Description: This thesis addresses several aspects of the problem of determining the effect of the low-frequency eddy variability on the mean circulation of the Western North Atlantic. A framework for this study is first established by scale analysis of the eddy and mean terms in the mean momentum, vorticity, and heat balances in three regions of the Western North Atlantic -- the northern recirculation, the southern recirculation, and the mid-ocean. The data from the last decade of field experiments suggest somewhat different conclusions from the earlier analysis of Harrison (1980). In the momentum balance we confirm that the eddy terms are negligible compared to the lowest order mean geostrophic balance. The eddy term may be an 0(1) term in the vorticity balance only in the northern recirculation region where the mean flow is anisotropic. In the mean heat balance, if the mean temperature advection is scaled using the thermal wind relation, then the eddy heat flux is negligible in the mid-ocean, but it may be important in the recirculation areas. For all the balances the eddy terms are comparable to or an order of magnitude larger than the mean advective terms. We conclude from the scale analysis that the eddy field is most likely to be important in the Gulf Stream recirculation region. These balances are subsequently examined in more detail using data from the Local Dynamics Experiment (LDE). Several inconsistencies are first shown in McWilliams' (1983) model for the mean dynamical balances in the LDE. The sampling uncertainties do not allow us to draw conclusions about the long-term dynamical balances. However, it is shown that if we assume that the linear vorticity balance holds between the surface and the thermocline for a finite record, then the vertical velocity induced by the eddy heat flux divergence is non-zero. The local effect of the mesoscale eddy field on the mean potential vorticity distribution of the Gulf Stream recirculation region is determined from the quasigeostrophic eddy potential vorticity flux. This flux is calculated by finite difference of current and temperature time series from the Local Dynamics Experiment. This long-term array of moorings is the only experimental data from which the complete eddy flux can be calculated. The total eddy flux is dominated by the term due to the time variation in the thickness of isopycnal layers. This thickness flux is an order of magnitude larger than the relative vorticity flux. The total flux is statistically significant and directed 217° T to the southwest with a magnitude of 1.57 x 10 -5 cm/2s. The direction of the eddy flux with respect to the mean large scale potential vorticity gradient from hydrographic data indicates that eddies in this region tend to reduce the mean potential vorticity gradient. The results are qualitatively consistent with numerical model results and with other data from the Gulf Stream recirculation region. We find that the strength of the eddy transfer in the enstrophy cascade is comparable to the source terms in the mean enstrophy balance. The Austauch coefficient for potential vorticity mixing is estimated to be 0(107cm2/sec). An order of magnitude estimate of the enstrophy dissipation due only to the internal wave field shows that other processes must be important in enstrophy dissipation. The measured eddy potential vorticity fluxes are compared to the linear stability model of Gill, Green, and Simmons (1974). An earlier study (Hogg, 1984) has shown agreement between the empirical orthogonal modes of the data and the predicted wavenumbers, growth rates, and phase speeds of the most unstable waves. However, we show substantial disagreement in a comparison of the higher moments the eddy heat and potential vorticity fluxes. Because the critical layer of the model is located near the surface, the model predicts that most of the eddy potential vorticity and eddy heat flux should occur within about 300 meters of the surface. The data show much greater deep eddy heat flux than predicted by the model. It is suggested that the unstable modes in the ocean have a longer vertical scale because of the reduction in the buoyancy frequency near the surface. The evidence for in situ instability is also examined in the decay region of the Gulf Stream from an array of current and temperature recorders. Although there is vertical phase propagation in the empirical orthogonal modes for some of the variables at some of the moorings, there is not much evidence for a strong ongoing process of wave generation.

Description: This research has been conducted under NSF contract numbers OCE 77-19403, ATM 79-21431, and OCE 82-00154.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution September 1996

Description: This thesis addresses the question of how a highly energetic eddy field could be generated in the interior of the ocean away from the swift boundary currents. The energy radiation due to the temporal growth of non-trapped (radiating) disturbances in such a boundary current is thought to be one of the main sources for the described variability. The problem of stability of an energetic current, such as the Gulf Stream, is formulated. The study then focuses on the ability of the current to support radiating instabilities capable of significant penetration into the far-field and their development with time. The conventional model of the Gulf Stream as a zonal current is extended to allow the jet axis to make an angle to a latitude circle. The linear stability of such a nonzonal flow, uniform in the along-jet direction on a beta-plane, is first studied. The stability computations are performed for piece-wise constant and continuous velocity profiles. New stability properties of nonzonal jets are discussed. In particular, the destabilizing effect of the meridional tilt of the jet axis is demonstrated. The radiating properties of nonzonal currents are found to be very different from those of zonal currents. In particular, purely zonal flows do not support radiating instabilities, whereas flows with a meridional component are capable of radiating long and slowly growing waves. The nonlinear terms are then included in the consideration and the effects of the nonlinear interactions on the radiating properties of the solution are studied in detail. For these purposes, the efficient numerical code for solving equation for the QG potential vorticity with open boundary conditions of Orlanski's type is constructed. The results show that even fast growing linear solutions, which are trapped during the linear stage of developement, can radiate energy in the nonlinear regime if the basic current is nonzonal. The radiation starts as soon as the initial fast exponential growth significantly slows. The initial trapping of those solutions is caused by their fast temporal growth. The new mechanism for radiation is related to the nonzonality of a current.

Description: This work was supported by NSF Grant OCE 9301845.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution February 2013

Description: Studying oceanic eddies is important for understanding and predicting ocean circulation and climate variability. The central focus of this dissertation is the energy exchange between eddies and mean flow and banded structures in the low-frequency component of the eddy field. A combination of a realistic eddy-permitting ocean state estimate and simplified theoretical models is used to address the following specific questions. (1) What are the major spatial characteristics of eddy-mean flow interaction from an energy perspective? Is eddy-mean flow interaction a local process in most ocean regions? (2) The banded structures in the low-frequency eddy field are termed striations. How much oceanic variability is associated with striations? How does the time-mean circulation, for example a subtropical gyre or constant mean flow, influence the origin and characteristics of striations? How much do striations contribute to the energy budget and tracer mixing?

Description: This research was supported by the National Aeronautics and Space Administration contracts NNX09AI87G and NNX08AR33G.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution September 2018

Description: Many chemical constituents are removed from the ocean by attachment to settling particles, a process referred to as “scavenging.” Radioisotopes of thorium, a highly particle-reactive element, have been used extensively to study scavenging in the ocean. However, this process is complicated by the highly variable chemical composition and concentration of particles in oceanic waters. This thesis focuses on understanding the cycling of thorium as affected by particle concentration and particle composition in the North Atlantic. This objective is addressed using (i) the distributions 228,230,234Th, their radioactive parents, particle composition, and bulk particle concentration, as measured or estimated along the GEOTRACES North Atlantic Transect (GA03) and (ii) a model for the reversible exchange of thorium with particles. Model parameters are either estimated by inversion (chapter 2-4), or prescribed in order to simulate 230Th in a circulation model (chapter 5). The major findings of this thesis follow. In chapters 2 and 3, I find that the rate parameters of the reversible exchange model show systematic variations along GA03. In particular, 𝑘1, the apparent first-order rate "constant" of Th adsorption onto particles, generally presents maxima in the mesopelagic zone and minima below. A positive correlation between 𝑘1 and bulk particle concentration is found, consistent with the notion that the specific rate at which a metal in solution attaches to particles increases with the number of surface sites available for adsorption. In chapter 4, I show that Mn (oxyhydr)oxides and biogenic particles most strongly influence 𝑘1 west of the Mauritanian upwelling, but that biogenic particles dominate 𝑘1 in this region. In chapter 5, I find that dissolved 230Th data are best represented by a model that assumes enhanced values of 𝑘1 near the seafloor. Collectively, my findings suggest that spatial variations in Th radioisotope activities observed in the North Atlantic reflect at least partly variations in the rate at which Th is removed from the water column.

Description: This work was supported by the US National Science Foundation. Two US NSF grants have supported the research in this thesis (OCE-1232578 and OCE-155644).

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution February 1999

Description: This thesis addresses the parameterization of the heat and momentum transporting properties of eddy motions for use in three-dimensional, primitive equation, z-coordinate atmosphere and ocean models. Determining the transport characteristics of these eddies is fundamental to understanding their effect on the large-scale ocean circulation and global climate. The approach is to transform the primitive equations to yield the altered 'transformed Eulerian mean' (TEM) equations. The assumption is made that the eddy motions obey quasigeostrophic dynamics while the mean flow obeys the primitive equations. With this assumption, the TEM framework leads to the eddies appearing as one term, which acts as a body force in the momentum equations. This force manifests itself as a flux of potential vorticity (PV) - a quantity that incorporates both eddy momentum and heat transporting properties. Moreover, the dynamic velocities are those of the residual mean circulation, a much more relevant velocity for understanding heat and tracer transport. Closure for the eddy PV flux is achieved through a flux-gradient relationship, which directs the flux down the large scale PV gradient. For zonal flows, care is taken to ensure that the resulting force does not generate any net momentum, acting only to redistribute it. Neglect of relative vorticity fluxes in the PV flux yields the parameterization scheme of Gent and McWilliams. The approach is investigated by comparing a zonally-averaged parameterized model with a three dimensional eddy-resolving calculation of flow in a stress-driven channel. The stress at the upper surface is communicated down the water column to the bottom by eddy form drag. Moreover, lateral eddy momentum fluxes act to strengthen and sharpen the mean flow, transporting eastward momentum up its large scale gradient. Both the vertical momentum transfer and lateral, upgradient momentum transfer by eddies, are captured in the parameterized model. The advantages of this approach are demonstrated in two further zonal cases: 1) the spin-down of a baroclinic zone, and 2) the atmospheric jet stream. The time mean TEM approach and the eddy PV flux closure are explored in the context of an eddy-resolving closed basin flow which breaks the zonal symmetry. Decomposition of eddy PV fluxes into components associated with advective and dissipative effects suggest that the component associated with eddy flux divergence, and therefore forcing of the mean flow, is mainly directed down the large scale gradient and can be parameterized as before. Thus, the approach can be used to capture eddy transport properties for both zonal mean and time mean flows. The PV flux embodies both the eddy heat and momentum fluxes and so presents a more unified picture of their transferring properties. It therefore provides a powerful conceptual and practical framework for representing eddies in numerical models of the atmsophere and ocean.

Description: The work in this thesis was funded by grants from NSF, (OCE-9634331, OCE- 9503895), ONR (NOOOI4-95-1-0967), and by a fellowship from the Joint Program on the Science and Policy of Global Change at MIT.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution June 2017

Description: This thesis documents the origin, distribution, and fate of methane and several of its isotopic forms on Earth. Using observational, experimental, and theoretical approaches, I illustrate how the relative abundances of 12CH4, 13CH4, 12CH3D, and 13CH3D record the formation, transport, and breakdown of methane in selected settings. Chapter 2 reports precise determinations of 13CH3D, a “clumped” isotopologue of methane, in samples collected from various settings representing many of the major sources and reservoirs of methane on Earth. The results show that the information encoded by the abundance of 13CH3D enables differentiation of methane generated by microbial, thermogenic, and abiogenic processes. A strong correlation between clumped- and hydrogen-isotope signatures in microbial methane is identified and quantitatively linked to the availability of H2 and the reversibility of microbially-mediated methanogenesis in the environment. Determination of 13CH3D in combination with hydrogen-isotope ratios of methane and water provides a sensitive indicator of the extent of C–H bond equilibration, enables fingerprinting of methane-generating mechanisms, and in some cases, supplies direct constraints for locating the waters from which migrated gases were sourced. Chapter 3 applies this concept to constrain the origin of methane in hydrothermal fluids from sediment-poor vent fields hosted in mafic and ultramafic rocks on slow- and ultraslow-spreading mid-ocean ridges. The data support a hypogene model whereby methane forms abiotically within plutonic rocks of the oceanic crust at temperatures above ca. 300 C during respeciation of magmatic volatiles, and is subsequently extracted during active, convective hydrothermal circulation. Chapter 4 presents the results of culture experiments in which methane is oxidized in the presence of O2 by the bacterium Methylococcus capsulatus strain Bath. The results show that the clumped isotopologue abundances of partially-oxidized methane can be predicted from knowledge of 13C/12C and D/H isotope fractionation factors alone.

Description: The research activities documented in this thesis were made possible by grants to my advisor from the U.S. National Science Foundation (NSF award EAR-1250394), the National Aeronautics and Space Administration (NASA) Astrobiology Institute (NAI, University of Colorado, Boulder, CAN 7 under Cooperative Agreement NNA15BB02A), the Department of Energy (DOE, Small Business Innovation Research program, contract DE-SC0004575), the Alfred P. Sloan Foundation via the Deep Carbon Observatory, and a Shell Graduate Fellowship through the MIT Energy Initiative. I completed the bulk of the work in this thesis while being supported by a National Defense Science and Engineering Graduate (NDSEG) Fellowship awarded through the Office of Naval Research of the U.S. Department of Defense. The StanleyW.Watson Fellowship Fund provided support during my first summer term at WHOI.The Charles M. Vest Presidential Fellowship at MIT supported me in the first year of my Ph.D. studies. I received additional support that year through NSF award EAR-1159318 (to S. Ono and T. Bosak) and theWalter & Adel Hohenstein Graduate Fellowship of Phi Kappa Phi. The MIT Earth Resources Laboratory and PAOC Houghton Fund funded my attendance at several conferences.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution August 2000

Description: The plausibility of local baroclinic instability as a generation mechanism for midocean mesoscale eddies is examined with a two-layer, quasi-geostrophic (QG) model forced by an imposed, horizontally homogeneous, vertically sheared mean flow and dissipated through bottom Ekman friction, Explanations are sought for two observed features of mid-ocean eddies: 1) substantial energy is retained in the baroclinic mode and in the associated deformation radius (Rd) scale, and 2) the ratio of eddy to mean kinetic energy is much larger than one, The tendency of QG to cascade energy into the barotropic mode and into scales larger than Rd can be counteracted when stratification is surface-trapped, for then the baroclinic mode is weakly damped, and hence enhanced, Numerical experiments are performed with both surface-trapped and uniform stratification to quantify this, Experiments with equal Ekman frictions in the two layers are also performed for purposes of contrast, Interpretation is aided with an inequality derived from the energy and enstrophy equations, The inequality forbids the simultaneous retention of substantial energy in the baroclinic mode and in scales near Rd when Ekman friction is symmetric, but points towards surface-trapped stratification and bottomtrapped friction as an environment in which both of these can be achieved, The dissertation also contains a systematic study of geostrophic turbulence forced by nonzonal flows, Narrow zonal jets emerge when shear-induced mean potential vorticity (PV) gradients are small compared to the planetary gradient (β), and energy is a strong function of the angle shear presents to the east-west direction, When shear-induced PV gradients are comparable to β, and the mean shear has a westward component, fields of monopolar vortices form and persist, Energy is asymmetric between fields of cyclones and anticyclones, Such asymmetry was commonly thought not to occur in QG, but is shown here to be introduced by the nonzonal basic state, In both jet and vortex regimes, eddy energy can be much larger than mean kinetic energy, contrary to the expectation that β stabilizes weak shear flows,

Description: My first three years here were funded by an Office of Naval Research/National Defense Science and Engineering Graduate Fellowship administered by Jeff Jarocz at the American Society for Engineering Education. During the last three years, most of my support has come the National Science Foundation via grant OCE-9617848, with some additional support coming from the Office of Naval Research via grant N00014-95-1-0824.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution May 1998

Description: Planktonic protozoan grazers have the potential to significantly affect the chemistry of particle-associated trace metals. This is due both to the importance of protists as consumers of bacterial-sized particles, and to the unique low-pH, enzyme-rich microenvironment of the grazer food vacuole. This thesis examines the role of protozoan grazers in the marine geochemistry of strongly hydrolyzed, particle-reactive trace metals, in particular Th and Fe. A series of tracer experiments was carried out in model systems in order to determine the effect of grazer-mediated transformations on the chemical speciation and partitioning of radioisotopes C9Fe, 234Th, 51Cr) associated with prey cells. Results indicate that protozoan grazers are equally able to mobilize intracellular and extracellular trace metals. In some cases, protozoan regeneration of trace metals appears to lead to the formation of metal-organic complexes. Protozoan grazing may generate colloidal material that can scavenge trace metals and, via aggregation, lead to an increase in the metal/organic carbon ratio of aggregated particles. Model system experiments were also conducted in order to determine the effect of grazers on mineral phases, specifically colloidal iron oxide (ferrihydrite). Several independent techniques were employed, including size fractionation ors9Fe-labeled colloids, competitive ligand exchange, and iron-limited diatoms as "probes" for bioavailable Fe. Experimental evidence strongly suggests that protozoan grazing can affect the surface chemistry and increase the dissolution rate of iron oxide phases through phagotrophic ingestion. In further work on protozoan-mediated dissolution of colloidal Fe oxides, a novel tracer technique was developed based on the synthesis of colloidal ferrihydrite impregnated with 133Ba as an inert tracer. This technique was shown to be a sensitive, quantitative indicator for the extent of ferrihydrite dissolution/alteration by a variety of mechanisms, including photochemical reduction and ligand-mediated dissolution. In field experiments using this technique, grazing by naturally occuring protistan assemblages was shown to significantly enhance the dissolution rate of colloidal ferrihydrite over that in non-grazing controls. Laboratory and field results indicate that, when integrated temporally over the entire euphotic zone, protozoan grazing may equal or exceed photoreduction as a pathway for the dissolution of iron oxides.

Description: This work was financially supported by a Department of Defense ONR-NDSEG Graduate Fellowship, Office ofNaval Research AASERT Award (N00014-94-1-0711), and the National Science Foundation EGB Program (OCE-9523910).

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution September 2016

Description: Eddies in the ocean move westwards. Those shed by western boundary currents must then interact with continental shelf-slope topography at the western boundary. The presence of other eddies and mean lows complicates this simple picture, yet satellite images show that mesoscale eddies translating near the shelfbreak routinely affect the continental shelves of the Mid-Atlantic Bight, the Gulf of Mexico etc. The consequent cross-shelfbreak transports are currently of unknown importance to shelf budgets of heat, salt and volume. Thus motivated, this thesis uses idealized continuously stratified numerical experiments to explore eddy-slope interactions under four questions: 1. Can the continental slope prevent an eddy from reaching the shelfbreak? 2. What is the structure of the eddy-driven offshore low? 3. How is the continental shelf affected by an eddy at the shelfbreak? 4. Given surface observations, can one estimate the volume of water transported across the shelfbreak? The experiments show that the efficiency of Rossby wave radiation from the eddy controls whether it can cross isobaths: by radiating energy the eddy becomes shallow enough to move into shallower water. For wide continental slopes, relative to an eddy diameter, a slope can prevent an anticyclone from reaching the shelfbreak by shutting down such radiation. For narrow continental slopes, the interaction repeatedly produces dipoles, whose cyclonic halves contain shelf-slope water stacked over eddy water. The formation of such cyclones is explained. Then, the structure of shelf lows forced by the eddy are studied: their vertical structures are rationalized and scalings derived for their cross-isobath scales; for example, the extent to which the eddy influences the shelf. A recipe for estimating cross-isobath transports based on eddy surface properties is put forward. Finally, the findings are tested against observations in the Middle Atlantic Bight of the northeastern United States.

Description: I acknowledge high-performance computing support from Yellowstone (ark:/85065/d7wd3xhc) provided by NCAR’s Computational and Information Systems Laboratory, sponsored by the National Science Foundation. The research presented here was funded by National Science Foundation grants OCE-1059632 and OCE-1433953. Funding support from the Academic Programs Oice, WHOI is also gratefully acknowledged.

Description: Submitted in partial fulfillment of the requirements for the degree of Master of Science at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution August 2000

Description: With Lagrangian and hydrographic data taken in the deep Brazil Basin, we identify several submesoscale coherent vortices (SCVs). These features contrast with SCV paradigms in that float data indicate approximately equal populations of cyclonic and anticyclonic vortices, and hydrographic data suggest that roughly half exhibit the convex lens shape generally associated with SCVs, while half are instead shaped like a concave lens, with isopycnal surfaces pinched together. There is some evidence that the vortex cores may be enriched in warm, salty North Atlantic Deep Water, suggesting formation in the north or northwest regions of the basin. Data is available from 153 floats which were ballasted for 2500 and 4000 db pressures. They tracked 34 eddies, which are believed to be roughly 30 km in diameter, and rotate with apparent periods of about 30 days. Many floats experienced formation or entrainment events, and destruction or detrainment events, near seamounts.

Description: This work was supported by the National Science Foundation, grants OCE 99-11148 and OCE 94-15509.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and Woods Hole Oceanographic Institution February 1994

Description: In this work we study motion of a baroclinic upper-ocean eddy over a large-scale topography which simulates a continental slope. We use a quasigeostrophic f-plane approximation with continuous stratification. To study this problem we develop a new numerical technique which we call "semi-lagrangian contour dynamics". This technique resembles the traditional 2-D contour dynamics method but differs significantly from it in the numerical algorithm. In addition to "Lagrangian" moving contours it includes an underlying "Eulerian" regular grid to which vorticity or density fields are interpolated. To study topographic interactions in a continuously stratified model we use density contours at the bottom in a similar manner as vorticity contours are used in the standard contour dynamics. For the case of a localized upper-ocean vortex moving over a sloping bottom the problem becomes computationally 2-dimensional (we need to follow only bottom density contours and the position of the vortex itself) although the physical domain is still 3-dimensional. Results of the numerical model lndicate importance of baroclinic effects in the vortex-topography interaction. After the initial surge of topographic Rossby waves a vortex moves almost steadily due to the interaction with a bottom density anomaly which is created and supported by a vortex itself. This anomaly is equivalent to a region of opposite-signed vorticity with a total circulation exactly compensating that of a vortex. This results in a vertically aligned dipolar structure with the total barotropic component equal to zero. Analytical considerations explaining this effect are presented and formulated in a more general statement which resembles but does not coincide with the "zero angular momentum theorem" of Flierl, Stern and Whitehead, 1983. In such steady translation the centroid of a bottom density anomaly is displaced horizon tally from the center of an upper-ocean vortex so the whole system moves due to this misalignment, which is known as a "he tonic mechanism". Cyclonic vortices go generally upslope, and anticyclones - in a downslope direction. The along-slope component of their motion depends upon the strength of a vortex, curvature of the bottom slope and background flows. When surrounded by a bowl-shaped topography anticyclonic vortices tend to stay near the deepest center of a basin, even resisting ambient flows which advect them outward. Application of this results to various oceanic examples (particularly to the "Shikmona eddy" in the Eastern Meditenanian) is discussed. Our results show that the behavior of a vortex over a sloping bottom differs significantly from its motion on the planetary beta-plane (but with a flat bottom). To explain this difference we introduce the concept of a "wave-breaking regime" relevant for the case of a planetary beta-effect, and a "wave-gliding regime" which characterizes the interaction of an eddy with a topographic slope.

Description: This work was supported by the NSF grant #OCE 90-12821.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution September 2018

Description: Highly migratory marine fishes support valuable commercial fisheries worldwide. Yet, many target species have proven difficult to study due to long-distance migrations and regular deep diving. Despite the dominance of oceanographic features, such as fronts and eddies, in the open ocean, the biophysical interactions occurring at the oceanic (sub)mesoscale (〈 100 km) remain poorly understood. This leads to a paucity of knowledge on oceanographic associations of pelagic fishes and hinders management efforts. With ever-improving oceanographic datasets and modeling outputs, we can leverage these tools both to derive better estimates of animal movements and to quantify fish-environment interactions. In this thesis, I developed analytical tools to characterize the biophysical interactions influencing animal behavior and species’ ecology in the open ocean. A novel, observation-based likelihood framework was combined with a Bayesian state-space model to improve geolocation estimates for archival-tagged fishes using oceanographic profile data. Using this approach, I constructed track estimates for a large basking shark tag dataset using a high-resolution oceanographic model and discovered a wide range of movement strategies. I also applied this modeling approach to track archival-tagged swordfish, which revealed affinity for thermal front and eddy habitats throughout the North Atlantic that was further corroborated by synthesizing these results with a fisheries-dependent conventional tag dataset. An additive modeling approach applied to longline catch-per-unit effort data further highlighted the biophysical interactions that characterize variability in swordfish catch. In the final chapter, I designed a synergistic analysis of high-resolution, 3D shark movements and satellite observations to quantify the influence of mesoscale oceanography on blue shark movements and behavior. This work demonstrated the importance of eddies in structuring the pelagic ocean by influencing the movements of an apex predator and governing the connectivity between deep scattering layer communities and deep-diving, epipelagic predators. Together, these studies demonstrate the breadth and depth of information that can be garnered through the integration of traditional animal tagging and oceanographic research with cutting-edge analytical approaches and high-resolution oceanographic model and remote sensing datasets, the product of which provides a transformative view of the biophysical interactions occurring in and governing the structure of the pelagic ocean.

Description: Supported by the NASA Earth and Space Science Fellowship, the MIT John S. Hennessy Fellowship, the MIT Martin Family Society of Fellows for Sustainability Fellowship, the WHOI Ocean Venture, Grassle, and James Stratton Fellowships and the WHOI Academic Programs Office. This research and its dissemination was supported by funds from National Geographic, Amazon Web Services, the Explorers Club, Rolex, Sigma Xi, the MIT Center for International Studies, WHOI Access to the Sea and Coastal Ocean Institute Funds, MIT Graduate Student Council, MIT Student Assistance Fund, WHOI Biology Department, American Fisheries Society, WHOI Academic Programs Office

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution March 1992

Description: Rotating baroclinic and barotropic boundary currents flowing around a corner in the laboratory were studied in order to discover the circumstances under which eddies were produced at the corner. Such flows are reminiscent of oceanic coastal flows around capes. When the baroclinic currents, which consisted of surface flows bounded by a density front, encountered a sharp corner, immediately downstream of the corner an anticyclone grew in the surface layer for an angle of greater than 40 degrees. Varying the initial condition of the flow or the depth of the lower layer did not noticeably affect the gyre's properties except for its growth speed, which was greater when the lower layer was shallower. The barotropic currents were pumped along a sloping bottom, and also formed anticyclonic gyres which quickly attained an approximately steady state. For a given topography, the size of the gyre was proportional to the inertial radius u/f. Volume flux calculations based on the surface velocity revealed vertical shear which increased with gyre size. Hydraulic models were also applied to flow around gently curving topography to determine the critical separation curvature as a function of upstream parameters.

Description: This work was supported by the National Science Foundation grant OCE 89-15408.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution April 1992

Description: A pair of simple models representing the interaction of a continuously stratified f-plane quasigeostrophic lens with a uniform external shear flow is examined. The study is motivated by the desire to understand the processes that affect Mediterranean Salt Lenses and other mesoscale lenses in the ocean. The first model represents the eddy as a pair of quasigeostrophic 'point potential vortices' in uniform external shear, where the two point vortices are imagined to represent the top and bottom of a baroclinic eddy. While highly idealized, the model succeeds in qualitatively reproducing many aspects of the behavior of more complex models. In the second model the eddy is represented by an isolated three dimensional patch characterized by quasigeostrophic potential vorticity linear in z, in a background flow with constant potential vorticity. The boundary of the lens may be deformed by interactions with a uniform background shear. A family of linearized analytical solutions representing such a vortex is discussed in Chapter 3. These solutions represent lens-like eddies with trapped fluid cores, which may propagate through the surrounding water when there is external vertical shear. The analysis predicts the possible forms of the boundary deformation in a specified external flow, and the precession rate of normal mode boundary perturbations in the absence of external flow. The translation speed of the lens with respect to the surrounding fluid is found to be a simple function of the external vertical shear and the core baroclinicity. A numerical algorithm which is a generalization of the contour dynamics technique to stratified quasigeostrophic flow is used to extend the linear results into the nonlinear regime. This numerical analysis allows a determination of the range of environmental conditions (e.g., the maximum shear and/ or core baroclinicity) in which coherent vortex solutions can be found, and allows the stability of the steadily translating solutions to be examined directly. It is found that the solutions are stable if neither the external shear nor the core baroclinicity is too large, and that the breakdown of the unstable solutions is characterized by the loss of an extrusion of core fluid to the surrounding waters. The translation speeds of the large amplitude numerical solutions are found to have the same functional dependence on the external vertical shear and the core baroclinicity that was found in the linear analysis, and it is demonstrated that the solutions translate at a rate which is equal to the background flow speed at the center of potential vorticity of the lens. As a test of the model results, new data from a recent SOFAR float experiment are presented and compared with the model predictions. The data show that the cores of two different Mediterranean Salt Lenses are tilted, presumably as a result of interactions with external flows. Both the sense of the tilt and its relation to the translation of the lens are in qualitative agreement with the model solutions.

Description: I am happy to acknowledge the support of the Office of Naval Research (grant N00014-89-J-1182) and the National Science Foundation (grants OCE 8916446 and OCE 87-00601).

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution September 1992

Description: This study concerns the barotropic interactions between a mesoscale eddy and a straight monotonic bottom topography. Through simple to relatively complicated modeling effort, some of the fundamental properties of the interaction are investigated. In chapter two, the fundamental aspects of the interaction are examined using a simple contour dynamics model. With the simplest model configuration of an ideal vortex and a step topography, the basic dynamical features of the observed oceanic eddy-topography interaction are qualitatively reproduced. The results consist of eddy-induced cross-topography exchange, formation of topographic eddies, eddy propagation and generation of topographic waves. In chapter three, a more complicated primitive equation model is used to investigate a mesoscale eddy interacting with an exponential continental shelf/slope topography on both f and β-planes. The f-plane model recasts the important features of chapter two. The roles of the eddy size and strength and the geometry of topography are studied. It is seen that the multiple anticyclonic eddy-slope interactions strongly affect the total cross-slope volume transport and the evolution of both the original anticyclone and the topographic eddy. Since a cyclone is trapped at the slope and eventually moves on to the slope, it is most effective in causing perturbation on the shelf and slope. The responses on the shelf and slope are mainly wavelike with dispersion relation obeying that of the free shelf-trapped wave modes. On the β-plane, the problem of an eddy colliding onto a continental shelf/slope from a distance with straight or oblique incident angles is investigated. It is found that the straight eddy incident is more effective in achieving large onslope eddy penetration distance than the oblique eddy incident. The formation of a dipole-like eddy pair consisting of the original anticyclone and the topographic cyclone acts to suppress the eddy decay due to long Rossby wave radiation. A weak along-slope current near the edge of the slope is found, which is part of a outer slope circulation cell originated from the Rossby wave wake trailing the propagating eddy. Model-observation comparisons in_chapter four show favorable qualitative agreement of the model results with some of the observed events in the eastern U.S. continental margins and in the Gulf of Mexico. The model results give dynamical interpretations to some observed features of the oceanic eddy-topography interactions and provide enlightening insight into the problem.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy in Oceanography and Applied Ocean Science and Engineering at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution June 2019.

Description: Submesoscale currents, with horizontal length scales of 1-20 km, are an important element of upper ocean dynamics. These currents play a crucial role in the horizontal and vertical redistribution of tracers, the cascade of tracer variance to smaller scales, and in linking the mesoscale circulation with the dissipative scales. This thesis investigates submesoscale flows and their properties using Lagrangian trajectories of observed and modeled drifters. We analyze statistics of observed drifter pairs to characterize turbulent dispersion at submeso-scales. Contrary to theoretical expectations, we find that nonlocal velocity gradients associated with mesoscale eddies dominate the separation of drifters even at the kilometer scale. At submeso-scales, we observe energetic motions, such as near-inertial oscillations, that contribute to the energy spectrum but are inefficient at dispersion. Using trajectories in a model of submesoscale turbulence, we find that, if drifters have a vertical separation, vertical shear dominates the dispersion and conceals horizontal dispersion regimes from drifter observations. Particularly in submesoscale flows, vertical shear is orders of magnitude larger than horizontal gradients in velocity. Since conventional drifters in the ocean are not affected by vertical shear, it is likely that drifter-derived diffusivity underestimates the diffusivity that a tracer would experience. Lastly, we test and apply cluster-based methods, using three or more drifters, to estimate the velocity gradient tensor. Since velocity gradients become large at submesoscales, the divergence, strain, and vorticity control the evolution and deformation of clusters of drifters. Observing the velocity gradients using drifters, enables us to further constrain the governing dynamics and decipher submesoscale motions from inertia-gravity waves. These insights provide a Lagrangian perspective on submesoscale flows that illuminates scales that are challenging to observe from other platforms. We reveal observational and theoretical challenges that need to be overcome in future investigations.

Description: My doctoral studies in the WHOI/MIT Joint Program were funded by the National Science Foundation (OCE-I434788) and the Office of Naval Research (N00014-13-1-0451, Grant N00014-16-1-2470).

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution February 2017

Description: Salt marshes are physically, chemically, and biologically dynamic environments found globally at temperate latitudes. Tidal creeks and marshtop ponds may expand at the expense of productive grass-covered marsh platform. It is therefore important to understand the present magnitude and drivers of production and respiration in these submerged environments in order to evaluate the future role of salt marshes as a carbon sink. This thesis describes new methods to apply the triple oxygen isotope tracer of photosynthetic production in a salt marsh. Additionally, noble gases are applied to constrain air-water exchange processes which affect metabolism tracers. These stable, natural abundance tracers complement traditional techniques for measuring metabolism. In particular, they highlight the potential importance of daytime oxygen sinks besides aerobic respiration, such as rising bubbles. In tidal creeks, increasing nutrients may increase both production and respiration, without any apparent change in the net metabolism. In ponds, daytime production and respiration are also tightly coupled, but there is high background respiration regardless of changes in daytime production. Both tidal creeks and ponds have higher respiration rates and lower production rates than the marsh platform, suggesting that expansion of these submerged environments could limit the ability of salt marshes to sequester carbon.

Description: Financial support for my doctoral research was provided by the United States Department of Defense through the National Defense Science and Engineering Graduate Fellowship Program, the National Science Foundation under grant OCE-1233678, and the Woods Hole Oceanographic Institution (WHOI) under grants from the WHOI Coastal Ocean Institute, Ocean and Climate Change Institute, and Ocean Life Institute. WHOI Academic Programs Office also provided funding support for research, through the Ocean Ventures Fund, and for my stipend, as graduate research assistantships including an assistantship from the United States Geological Survey administered by WHOI.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution November 1990

Description: One and two layer models are used to study flow over axisymmetric isolated topography. Inviscid or nearly inviscid flow in which non-linear effects have order one importance is considered, and both the effects of β and finite topography are included. A one-layer quasi-geostrophic model is used to find the shape of Taylor columns on both the f-plane and the β-plane in the inviscid limit of the frictional problem. In this limit, the boundary of the Taylor column is a streamline, and the velocity in both directions vanishes on the boundary. The fluid within the Taylor column is stagnant, corresponding to the solution that Ingersoll (1969) found for flow over a right circular cylinder on the f-plane. In this case, the Taylor column is circular. An iterative boundary integral technique is used to find the solutions for flow over a cone on the f-plane. In this case the Taylor column has a tear drop shape. Solutions are also found for flow on the β-plane over a cylinder, and the Taylor column is approximately elliptical for westward flow with the major axis in the x direction, while it is slightly elongated in the y direction for eastward flow. The stagnation point of the Taylor column is located on the edge of the topography for all the solutions found. It was not possible to find solutions for smooth topographic shapes. Steady solutions for flow over a right circular cylinder of finite height are studied when the quasi-geostrophic approximation no longer applies. The solution consists of two parts, one which is similar to the quasi-geostrophic solution and is driven by the potential vorticity anomaly over the topography and the other which is similar to the solution of potential flow around an cylinder and is driven by the matching conditions on the edge of the topography. When the effect of β is large, the transport over the topography is enhanced as the streamlines follow lines of constant background potential vorticity. For eastward flow, the Rossby wave drag can be much larger than predicted from quasi-geostrophic theory. A two-layer model over finite topography using the quasi-geostrophic approximation is developed. The topography is a right circular cylinder which goes all of the way through the lower layer and an order Rossby number amount into the upper layer, so that the quasi-geostrophic approximation can be applied consistently. This geometry allows description of flow in which an isopycnal intersects the topography. The model is valid for a different regime than existing models of steady flow over finite topography in a continuously stratified fluid in which the bottom boundary is an isopycnal surface. The solutions contain the two components that are found in the the barotropic model of flow over finite topography. The model breaks down when the interface goes above the topography which occurs more easily when the stratification is weak. Closed streamlines occur more readily over the topography when the stratification is weak, whereas in traditional quasi-geostrophic theory they occur more readily when the stratification is strong. Near the topography, the interface is depressed to the right and raised to the left (looking downstream). A hierarchy of time-dependent models is used to examine the initial value problem of flow initiation over topography on the f-plane. A modified contour dynamics method is developed that extends the range of problems to which contour dynamics can be applied. The method allows boundary and matching conditions to be applied on a circular boundary. A one-layer quasi-geostrophic model is used to show that more fluid that originates over the topography remains there when the flow is turned on slowly than when it is turned on quickly. Flow over finite topography in a one-layer model shows a variety of different behaviors depending on the topographic height. When the topography has moderate height, two cyclonic eddies are created; when the topography fills up most of the water column, the fluid oscillates on and off the topography as it moves around the topography in a clockwise direction, and none of the fluid is shed downstream. Two quasi-geostrophic stratified models are considered, one in which the topography is small, and the other in which it is finite. In the small topography model, an eddy is shed which is cyclonic, warm-core, and bottom-trapped. In contrast, the shed eddy is cyclonic, cold-core, and surfaceintensified in the finite depth model using the geometry described above.

Description: This study was supported by the Office of Naval Research Program N00014- 90-J-1839.

Description: Submitted in partial fulfillment of the requirements for the degree of Doctor of Philosophy at the Massachusetts Institute of Technology and the Woods Hole Oceanographic Institution September 1999

Description: Climate simulation with numerical oceanic models requires a proper parameterization scheme in order to represent the effects of unresolved mesoscale eddies. Even though a munber of schemes have been proposed and some have led to improvements in the simulation of the bulk climatological properties, the success of the parameterizations in representing the mesoscale eddies has not been investigated in detail. This thesis examines the role of eddies in a 105-years long basin scale eddy resolving simulation with the MIT General Circulation Model (GCM) forced by idealized wind stress and relaxation to prescribed meridional temperature; this thesis also evaluates the Fickian diffusive, the diabatic Green-Stone (GS) and the quasi-adiabatic Gent-McWilliams (GM) parameterizations in a diagnostic study and a series of coarse resolution experiments with the same model in the same configuration. The mesoscale eddies in the reference experiment provide a significant contribution to the thermal balance in limited areas of the domain associated with the upper 1000M of the boundary regions. Specifically designed diagnostic tests of the schemes show that the horizontal and vertical components of the parameterized flux are not simultaneously downgradient to the eddy heat flux. The transfer vectors are more closely aligned with the isopycnal surfaces for deeper layers, thus demonstrating the adiabatic nature of the eddy heat flux for deeper layers. The magnitude of the coefficients is estimated to be consistent with traditionally used values. However, the transfer of heat associated with timedependent motions is identified as a complicated process that cannot be fully explained with any of the local parameterization schemes considered. The eddy parameterization schemes are implemented in the coarse resolution configuration with the same model. A series of experiments exploring the schemes' parameter space demonstrate that Fickian diffusion has the least skill in the climatological simulations because it overestimates the temperature of the deep ocean and underestimates the total heat transport. The GS and GM schemes perform better in the simulation of the bulk climatological properties of the reference solution, although the GM scheme in particular produces an ocean that is consistently colder than the reference state. Comparison of the eddy heat flux divergence with the parameterized divergences for typical parameter values demonstrates that the success of the schemes in the climatological simulation is not related to the representation of the eddy heat flux but to the representation of the overall internal mixing processes.

Description: The financial support for this research was provided by ONR grant number NOOOl4- 98-1-0881, Alliance for Global Sustainability and American Automobile Manufactures Association.