Aretxabaleta Alfredo L.

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Aretxabaleta

First Name

Alfredo L.

ORCID

0000-0002-9914-8018

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Spatiotemporal variability of light attenuation and net ecosystem metabolism in a back-barrier estuary

(European Geosciences Union, 2020-05-14) Ganju, Neil K. ; Testa, Jeremy M. ; Suttles, Steven E. ; Aretxabaleta, Alfredo L.

Quantifying system-wide biogeochemical dynamics and ecosystem metabolism in estuaries is often attempted using a long-term continuous record at a single site or short-term records at multiple sites due to sampling limitations that preclude long-term monitoring. However, differences in the dominant primary producer at a given location (e.g., phytoplankton versus benthic producers) control diel variations in dissolved oxygen and associated ecosystem metabolism, and they may confound metabolic estimates that do not account for this variability. We hypothesize that even in shallow, well-mixed estuaries there is strong spatiotemporal variability in ecosystem metabolism due to benthic and water-column properties, as well as ensuing feedbacks to sediment resuspension, light attenuation, and primary production. We tested this hypothesis by measuring hydrodynamic properties, biogeochemical variables (fluorescent dissolved organic matter – fDOM, turbidity, chlorophyll a fluorescence, dissolved oxygen), and photosynthetically active radiation (PAR) over 1 year at 15 min intervals at paired channel (unvegetated) and shoal (vegetated by eelgrass) sites in Chincoteague Bay, Maryland–Virginia, USA, a shallow back-barrier estuary. Light attenuation (KdPAR) at all sites was dominated by turbidity from suspended sediment, with lower contributions from fDOM and chlorophyll a. However, there was significant seasonal variability in the resuspension–shear stress relationship on the vegetated shoals, but not in adjacent unvegetated channels. This indicated that KdPAR on the shoals was mediated by submerged aquatic vegetation (SAV) and possibly microphytobenthos presence in the summer, which reduced resuspension and therefore KdPAR. We also found that gross primary production (Pg) and KdPAR were significantly negatively correlated on the shoals and uncorrelated in the channels, indicating that Pg over the vegetated shoals is controlled by a feedback loop between benthic stabilization by SAV and/or microphytobenthos, sediment resuspension, and light availability. Metabolic estimates indicated substantial differences in net ecosystem metabolism between vegetated and unvegetated sites, with the former tending towards net autotrophy in the summer. Ongoing trends of SAV loss in this and other back-barrier estuaries suggest that these systems may also shift towards net heterotrophy, reducing their effectiveness as long-term carbon sinks. With regards to temporal variability, we found that varying sampling frequency between 15 min and 1 d resulted in comparable mean values of biogeochemical variables, but extreme values were missed by daily sampling. In fact, daily resampling minimized the variability between sites and falsely suggested spatial homogeneity in biogeochemistry, emphasizing the need for high-frequency sampling. This study confirms that properly quantifying ecosystem metabolism and associated biogeochemical variability requires characterization of the diverse estuarine environments, even in well-mixed systems, and demonstrates the deficiencies introduced by infrequent sampling to the interpretation of spatial variability.
Observations and a linear model of water level in an interconnected inlet-bay system

(John Wiley & Sons, 2017-04-04) Aretxabaleta, Alfredo L. ; Ganju, Neil K. ; Butman, Bradford ; Signell, Richard P.

A system of barrier islands and back-barrier bays occurs along southern Long Island, New York, and in many coastal areas worldwide. Characterizing the bay physical response to water level fluctuations is needed to understand flooding during extreme events and evaluate their relation to geomorphological changes. Offshore sea level is one of the main drivers of water level fluctuations in semienclosed back-barrier bays. We analyzed observed water levels (October 2007 to November 2015) and developed analytical models to better understand bay water level along southern Long Island. An increase (∼0.02 m change in 0.17 m amplitude) in the dominant M2 tidal amplitude (containing the largest fraction of the variability) was observed in Great South Bay during mid-2014. The observed changes in both tidal amplitude and bay water level transfer from offshore were related to the dredging of nearby inlets and possibly the changing size of a breach across Fire Island caused by Hurricane Sandy (after December 2012). The bay response was independent of the magnitude of the fluctuations (e.g., storms) at a specific frequency. An analytical model that incorporates bay and inlet dimensions reproduced the observed transfer function in Great South Bay and surrounding areas. The model predicts the transfer function in Moriches and Shinnecock bays where long-term observations were not available. The model is a simplified tool to investigate changes in bay water level and enables the evaluation of future conditions and alternative geomorphological settings.
A nonlinear relationship between marsh size and sediment trapping capacity compromises salt marshes' stability

(Geological Society of America, 2020-10-01) Donatelli, Carmine ; Zhang, Xiaohe ; Ganju, Neil K. ; Aretxabaleta, Alfredo L. ; Fagherazzi, Sergio ; Leonardi, Nicoletta

Global assessments predict the impact of sea-level rise on salt marshes with present-day levels of sediment supply from rivers and the coastal ocean. However, these assessments do not consider that variations in marsh extent and the related reconfiguration of intertidal area affect local sediment dynamics, ultimately controlling the fate of the marshes themselves. We conducted a meta-analysis of six bays along the United States East Coast to show that a reduction in the current salt marsh area decreases the sediment availability in estuarine systems through changes in regional-scale hydrodynamics. This positive feedback between marsh disappearance and the ability of coastal bays to retain sediments reduces the trapping capacity of the whole tidal system and jeopardizes the survival of the remaining marshes. We show that on marsh platforms, the sediment deposition per unit area decreases exponentially with marsh loss. Marsh erosion enlarges tidal prism values and enhances the tendency toward ebb dominance, thus decreasing the overall sediment availability of the system. Our findings highlight that marsh deterioration reduces the sediment stock in back-barrier basins and therefore compromises the resilience of salt marshes.
Near-bottom circulation and dispersion of sediment containing Alexandrium fundyense cysts in the Gulf of Maine during 2010–2011

(Elsevier, 2013-12-13) Aretxabaleta, Alfredo L. ; Butman, Bradford ; Signell, Richard P. ; Dalyander, P. Soupy ; Sherwood, Christopher R. ; Sheremet, Vitalii A. ; McGillicuddy, Dennis J.

The life cycle of Alexandrium fundyense in the Gulf of Maine includes a dormant cyst stage that spends the winter predominantly in the bottom sediment. Wave-current bottom stress caused by storms and tides induces resuspension of cyst-containing sediment during winter and spring. Resuspended sediment could be transported by water flow to different locations in the Gulf and the redistribution of sediment containing A. fundyense cysts could alter the spatial and temporal manifestation of its spring bloom. The present study evaluates model near-bottom flow during storms, when sediment resuspension and redistribution are most likely to occur, between October and May when A. fundyense cells are predominantly in cyst form. Simulated water column sediment (mud) concentrations from representative locations of the Gulf are used to initialize particle tracking simulations for the period October 2010–May 2011. Particles are tracked in full three-dimensional model solutions including a sinking velocity characteristic of cyst and aggregated mud settling (0.1 mm s−1). Although most of the material was redeposited near the source areas, small percentages of total resuspended sediment from some locations in the western (~4%) and eastern (2%) Maine shelf and the Bay of Fundy (1%) traveled distances longer than 100 km before resettling. The redistribution changed seasonally and was sensitive to the prescribed sinking rate. Estimates of the amount of cysts redistributed with the sediment were small compared to the inventory of cysts in the upper few centimeters of sediment but could potentially have more relevance immediately after deposition.
Expectation-maximization analysis of spatial time series

(Copernicus Publications on behalf of the European Geosciences Union and the American Geophysical Union, 2007-02-01) Smith, Keston W. ; Aretxabaleta, Alfredo L.

Expectation maximization (EM) is used to estimate the parameters of a Gaussian Mixture Model for spatial time series data. The method is presented as an alternative and complement to Empirical Orthogonal Function (EOF) analysis. The resulting weights, associating time points with component distributions, are used to distinguish physical regimes. The method is applied to equatorial Pacific sea surface temperature data from the TAO/TRITON mooring time series. Effectively, the EM algorithm partitions the time series into El Nino, La Nina and normal conditions. The EM method leads to a clearer interpretation of the variability associated with each regime than the basic EOF analysis.
Spatial distribution of water level impacting back-barrier bays

(European Geosciences Union, 2019-08-20) Aretxabaleta, Alfredo L. ; Ganju, Neil K. ; Defne, Zafer ; Signell, Richard P.

Water level in semi-enclosed bays, landward of barrier islands, is mainly driven by offshore sea level fluctuations that are modulated by bay geometry and bathymetry, causing spatial variability in the ensuing response (transfer). Local wind setup can have a complementary role that depends on wind speed, fetch, and relative orientation of the wind direction and the bay. Bay area and inlet geometry and bathymetry primarily regulate the magnitude of the transfer between open ocean and bay. Tides and short-period offshore oscillations are more damped in the bays than longer-lasting offshore fluctuations, such as a storm surge and sea level rise. We compare observed and modeled water levels at stations in a mid-Atlantic bay (Barnegat Bay) with offshore water level proxies. Observed water levels in Barnegat Bay are compared and combined with model results from the Coupled Ocean–Atmosphere–Wave–Sediment Transport (COAWST) modeling system to evaluate the spatial structure of the water level transfer. Analytical models based on the dimensional characteristics of the bay are used to combine the observed data and the numerical model results in a physically consistent approach. Model water level transfers match observed values at locations inside the bay in the storm frequency band (transfers ranging from 50 %–100 %) and tidal frequencies (10 %–55 %). The contribution of frequency-dependent local setup caused by wind acting along the bay is also considered. The wind setup effect can be comparable in magnitude to the offshore transfer forcing during intense storms. The approach provides transfer estimates for locations inside the bay where observations were not available, resulting in a complete spatial characterization. An extension of the methodology that takes advantage of the ADCIRC tidal database for the east coast of the United States allows for the expansion of the approach to other bay systems. Detailed spatial estimates of water level transfer can inform decisions on inlet management and contribute to the assessment of current and future flooding hazard in back-barrier bays and along mainland shorelines.
Tidal and groundwater fluxes to a shallow, microtidal estuary : constraining inputs through field observations and hydrodynamic modeling

(Springer, 2012-05-30) Ganju, Neil K. ; Hayn, Melanie ; Chen, Shih-Nan ; Howarth, Robert W. ; Dickhudt, Patrick J. ; Aretxabaleta, Alfredo L. ; Marino, Roxanne

Increased nutrient loading to estuaries has led to eutrophication, degraded water quality, and ecological transformations. Quantifying nutrient loads in systems with significant groundwater input can be difficult due to the challenge of measuring groundwater fluxes. We quantified tidal and freshwater fluxes over an 8-week period at the entrance of West Falmouth Harbor, Massachusetts, a eutrophic, groundwater-fed estuary. Fluxes were estimated from velocity and salinity measurements and a total exchange flow (TEF) methodology. Intermittent cross-sectional measurements of velocity and salinity were used to convert point measurements to cross-sectionally averaged values over the entire deployment (index relationships). The estimated mean freshwater flux (0.19 m3/s) for the 8-week period was mainly due to groundwater input (0.21 m3/s) with contributions from precipitation to the estuary surface (0.026 m3/s) and removal by evaporation (0.048 m3/s). Spring–neap variations in freshwater export that appeared in shorter-term averages were mostly artifacts of the index relationships. Hydrodynamic modeling with steady groundwater input demonstrated that while the TEF methodology resolves the freshwater flux signal, calibration of the index– salinity relationships during spring tide conditions only was responsible for most of the spring–neap signal. The mean freshwater flux over the entire period estimated from the combination of the index-velocity, index–salinity, and TEF calculations were consistent with the model, suggesting that this methodology is a reliable way of estimating freshwater fluxes in the estuary over timescales greater than the spring– neap cycle. Combining this type of field campaign with hydrodynamic modeling provides guidance for estimating both magnitude of groundwater input and estuarine storage of freshwater and sets the stage for robust estimation of the nutrient load in groundwater.
Model simulations of the Bay of Fundy Gyre : 1. Climatological results

(American Geophysical Union, 2008-10-29) Aretxabaleta, Alfredo L. ; McGillicuddy, Dennis J. ; Smith, Keston W. ; Lynch, Daniel R.

The characteristics of a persistent gyre in the mouth of the Bay of Fundy are studied using model simulations. A set of climatological runs are conducted to evaluate the relative importance of the different forcing mechanisms affecting the gyre. The main mechanisms are tidal rectification and density-driven circulation. Stronger circulation of the gyre occurs during the later part of the stratified season (July–August and September–October). The density-driven flow around the gyre is set up by weak tidal mixing in the deep basin in the central Bay of Fundy and strong tidal mixing on the shallow flanks around Grand Manan Island and western Nova Scotia. Spring river discharge has an important influence on near-surface circulation but only a small effect when averaged over the entire water column. Retention of particles in the gyre is controlled by the residual tidal circulation, increased frontal retention during stratified periods, wind stress, and interactions with the adjacent circulation of the Gulf of Maine. Residence times longer than 30 days are predicted for particles released in the proximity of the gyre.
A geospatially resolved wetland vulnerability index: synthesis of physical drivers

(Public Library of Science, 2020-01-30) Defne, Zafer ; Aretxabaleta, Alfredo L. ; Ganju, Neil K. ; Kalra, Tarandeep S. ; Jones, Daniel K. ; Smith, Kathryn E. L.

Assessing wetland vulnerability to chronic and episodic physical drivers is fundamental for establishing restoration priorities. We synthesized multiple data sets from E.B. Forsythe National Wildlife Refuge, New Jersey, to establish a wetland vulnerability metric that integrates a range of physical processes, anthropogenic impact and physical/biophysical features. The geospatial data are based on aerial imagery, remote sensing, regulatory information, and hydrodynamic modeling; and include elevation, tidal range, unvegetated to vegetated marsh ratio (UVVR), shoreline erosion, potential exposure to contaminants, residence time, marsh condition change, change in salinity, salinity exposure and sediment concentration. First, we delineated the wetland complex into individual marsh units based on surface contours, and then defined a wetland vulnerability index that combined contributions from all parameters. We applied principal component and cluster analyses to explore the interrelations between the data layers, and separate regions that exhibited common characteristics. Our analysis shows that the spatial variation of vulnerability in this domain cannot be explained satisfactorily by a smaller subset of the variables. The most influential factor on the vulnerability index was the combined effect of elevation, tide range, residence time, and UVVR. Tide range and residence time had the highest correlation, and similar bay-wide spatial variation. Some variables (e.g., shoreline erosion) had no significant correlation with the rest of the variables. The aggregated index based on the complete dataset allows us to assess the overall state of a given marsh unit and quickly locate the most vulnerable units in a larger marsh complex. The application of geospatially complete datasets and consideration of chronic and episodic physical drivers represents an advance over traditional point-based methods for wetland assessment.
Physical response of a back-barrier estuary to a post-tropical cyclone

(John Wiley & Sons, 2017-07-27) Beudin, Alexis ; Ganju, Neil K. ; Defne, Zafer ; Aretxabaleta, Alfredo L.

This paper presents a modeling investigation of the hydrodynamic and sediment transport response of Chincoteague Bay (VA/MD, USA) to Hurricane Sandy using the Coupled Ocean-Atmosphere-Wave-Sediment-Transport (COAWST) modeling system. Several simulation scenarios with different combinations of remote and local forces were conducted to identify the dominant physical processes. While 80% of the water level increase in the bay was due to coastal sea level at the peak of the storm, a rich spatial and temporal variability in water surface slope was induced by local winds and waves. Local wind increased vertical mixing, horizontal exchanges, and flushing through the inlets. Remote waves (swell) enhanced southward flow through wave setup gradients between the inlets, and increased locally generated wave heights. Locally generated waves had a negligible effect on water level but reduced the residual flow up to 70% due to enhanced apparent roughness and breaking-induced forces. Locally generated waves dominated bed shear stress and sediment resuspension in the bay. Sediment transport patterns mirrored the interior coastline shape and generated deposition on inundated areas. The bay served as a source of fine sediment to the inner shelf, and the ocean-facing barrier island accumulated sand from landward-directed overwash. Despite the intensity of the storm forcing, the bathymetric changes in the bay were on the order of centimeters. This work demonstrates the spectrum of responses to storm forcing, and highlights the importance of local and remote processes on back-barrier estuarine function.
Formation of fine sediment deposit from a flash flood river in the Mediterranean Sea

(John Wiley & Sons, 2014-09-09) Grifoll, Manel ; Gracia, Vicenc ; Aretxabaleta, Alfredo L. ; Guillen, Jorge ; Espino, Manuel ; Warner, John C.

We identify the mechanisms controlling fine deposits on the inner-shelf in front of the Besòs River, in the northwestern Mediterranean Sea. This river is characterized by a flash flood regime discharging large amounts of water (more than 20 times the mean water discharge) and sediment in very short periods lasting from hours to few days. Numerical model output was compared with bottom sediment observations and used to characterize the multiple spatial and temporal scales involved in offshore sediment deposit formation. A high-resolution (50 m grid size) coupled hydrodynamic-wave-sediment transport model was applied to the initial stages of the sediment dispersal after a storm-related flood event. After the flood, sediment accumulation was predominantly confined to an area near the coastline as a result of preferential deposition during the final stage of the storm. Subsequent reworking occurred due to wave-induced bottom shear stress that resuspended fine materials, with seaward flow exporting them toward the midshelf. Wave characteristics, sediment availability, and shelf circulation determined the transport after the reworking and the final sediment deposition location. One year simulations of the regional area revealed a prevalent southwestward average flow with increased intensity downstream. The circulation pattern was consistent with the observed fine deposit depocenter being shifted southward from the river mouth. At the southern edge, bathymetry controlled the fine deposition by inducing near-bottom flow convergence enhancing bottom shear stress. According to the short-term and long-term analyses, a seasonal pattern in the fine deposit formation is expected.
Model initialization in a tidally energetic regime : a dynamically adjusted objective analysis

( 2011-01-24) Aretxabaleta, Alfredo L. ; Smith, Keston W. ; McGillicuddy, Dennis J. ; Ballabrera-Poy, Joaquim

A simple improvement to objective analysis of hydrographic data is proposed to eliminate spatial aliasing e ects in tidally energetic regions. The proposed method consists of the evaluation of anomalies from observations with respect to circulation model elds. The procedure is run iteratively to achieve convergence. The method is applied in the Bay of Fundy and compared with traditional objective analysis procedures and dynamically adjusted climatological elds. The hydrographic skill (di erence between observed and model temperature and salinity) of the dynamically adjusted objective analysis is signi cantly improved by reducing bias and correcting the vertical structure. Representation of the observed velocities is also improved. The resulting ow is consistent with the known circulation in the Bay.
Model simulations of the Bay of Fundy Gyre : 2. Hindcasts for 2005–2007 reveal interannual variability in retentiveness

(American Geophysical Union, 2009-09-03) Aretxabaleta, Alfredo L. ; McGillicuddy, Dennis J. ; Smith, Keston W. ; Manning, James P. ; Lynch, Daniel R.

A persistent gyre at the mouth of the Bay of Fundy results from a combination of tidal rectification and buoyancy forcing. Here we assess recent interannual variability in the strength of the gyre using data assimilative model simulations. Realistic hindcast representations of the gyre are considered during cruises in 2005, 2006, and 2007. Assimilation of shipboard and moored acoustic Doppler current profiler velocities is used to improve the skill of the simulations, as quantified by comparison with nonassimilated drifter trajectories. Our hindcasts suggest a weakening of the gyre system during May 2005. Retention of simulated passive particles in the gyre during that period was highly reduced. A recovery of the dense water pool in the deep part of the basin by June 2006 resulted in a return to particle retention characteristics similar to climatology. Retention estimates reached a maximum during May 2007 (subsurface) and June–July 2007 (near surface). Interannual variability in the strength of the gyre was primarily modulated by the stratification of the dense water pool inside the Grand Manan Basin. These changes in stratification were associated with mixing conditions the preceding fall–winter and/or advectively driven modification of water mass properties.
Shoaling wave shape estimates from field observations and derived bedload sediment rates

(MDPI, 2022-02-08) Kalra, Tarandeep S. ; Suttles, Steven E. ; Sherwood, Christopher R. ; Warner, John C. ; Aretxabaleta, Alfredo L. ; Leavitt, Gibson R.

he shoaling transformation from generally linear deep-water waves to asymmetric shallow-water waves modifies wave shapes and causes near-bed orbital velocities to become asymmetrical, contributing to net sediment transport. In this work, we used two methods to estimate the asymmetric wave shape from data at three sites. The first method converted wave measurements made at the surface to idealized near-bottom wave-orbital velocities using a set of empirical equations: the “parameterized” waveforms. The second method involved direct measurements of velocities and pressure made near the seabed: the “direct” waveforms. Estimates from the two methods were well correlated at all three sites (Pearson’s correlation coefficient greater than 0.85). Both methods were used to drive bedload-transport calculations that accounted for asymmetric waves, and the results were compared with a traditional excess-stress formulation and field estimates of bedload transport derived from ripple migration rates based on sonar imagery. The cumulative bedload transport from the parameterized waveform was 25% greater than the direct waveform, mainly because the parameterized waveform did not account for negative skewness. Calculated transport rates were comparable to rates estimated from ripple migration except during the largest event, when calculated rates were as much as 100 times greater, which occurred during high period waves.
Physical and biogeochemical controls on light attenuation in a eutrophic, back-barrier estuary

(Copernicus Publications on behalf of the European Geosciences Union, 2014-12-17) Ganju, Neil K. ; Miselis, Jennifer L. ; Aretxabaleta, Alfredo L.

Light attenuation is a critical parameter governing the ecological function of shallow estuaries. In these systems primary production is often dominated by benthic macroalgae and seagrass; thus light penetration to the bed is of primary importance. We quantified light attenuation in three seagrass meadows in Barnegat Bay, New Jersey, a shallow eutrophic back-barrier estuary; two of the sites were located within designated Ecologically Sensitive Areas (ESAs). We sequentially deployed instrumentation measuring photosynthetically active radiation, chlorophyll a (chl a) fluorescence, dissolved organic matter fluorescence (fDOM; a proxy for colored dissolved organic matter (CDOM) absorbance), turbidity, pressure, and water velocity at 10 min intervals over 3-week periods at each site. At the southernmost site, where sediment availability was highest, light attenuation was highest and dominated by turbidity and to a lesser extent chl a and CDOM. At the central site, chl a dominated followed by turbidity and CDOM, and at the northernmost site turbidity and CDOM contributed equally to light attenuation. At a given site, the temporal variability of light attenuation exceeded the difference in median light attenuation between the three sites. Vessel wakes, anecdotally implicated in increasing sediment resuspension, did not contribute to local resuspension within the seagrass beds, though frequent vessel wakes were observed in the channels. With regards to light attenuation and water clarity, physical and biogeochemical variables appear to outweigh any regulation of boat traffic within the ESAs.
Investigating the importance of sediment resuspension in Alexandrium fundyense cyst population dynamics in the Gulf of Maine

(Elsevier, 2013-11-05) Butman, Bradford ; Aretxabaleta, Alfredo L. ; Dickhudt, Patrick J. ; Dalyander, P. Soupy ; Sherwood, Christopher R. ; Anderson, Donald M. ; Keafer, Bruce A. ; Signell, Richard P.

Cysts of Alexandrium fundyense, a dinoflagellate that causes toxic algal blooms in the Gulf of Maine, spend the winter as dormant cells in the upper layer of bottom sediment or the bottom nepheloid layer and germinate in spring to initiate new blooms. Erosion measurements were made on sediment cores collected at seven stations in the Gulf of Maine in the autumn of 2011 to explore if resuspension (by waves and currents) could change the distribution of over-wintering cysts from patterns observed in the previous autumn; or if resuspension could contribute cysts to the water column during spring when cysts are viable. The mass of sediment eroded from the core surface at 0.4 Pa ranged from 0.05 kg m−2 near Grand Manan Island, to 0.35 kg m−2 in northern Wilkinson Basin. The depth of sediment eroded ranged from about 0.05 mm at a station with sandy sediment at 70 m water depth on the western Maine shelf, to about 1.2 mm in clayey–silt sediment at 250 m water depth in northern Wilkinson Basin. The sediment erodibility measurements were used in a sediment-transport model forced with modeled waves and currents for the period October 1, 2010 to May 31, 2011 to predict resuspension and bed erosion. The simulated spatial distribution and variation of bottom shear stress was controlled by the strength of the semi-diurnal tidal currents, which decrease from east to west along the Maine coast, and oscillatory wave-induced currents, which are strongest in shallow water. Simulations showed occasional sediment resuspension along the central and western Maine coast associated with storms, steady resuspension on the eastern Maine shelf and in the Bay of Fundy associated with tidal currents, no resuspension in northern Wilkinson Basin, and very small resuspension in western Jordan Basin. The sediment response in the model depended primarily on the profile of sediment erodibility, strength and time history of bottom stress, consolidation time scale, and the current in the water column. Based on analysis of wave data from offshore buoys from 1996 to 2012, the number of wave events inducing a bottom shear stress large enough to resuspend sediment at 80 m ranged from 0 to 2 in spring (April and May) and 0 to 10 in winter (October through March). Wave-induced resuspension is unlikely in water greater than about 100 m deep. The observations and model results suggest that a millimeter or so of sediment and associated cysts may be mobilized in both winter and spring, and that the frequency of resuspension will vary interannually. Depending on cyst concentration in the sediment and the vertical distribution in the water column, these events could result in a concentration in the water column of at least 104 cysts m−3. In some years, resuspension events could episodically introduce cysts into the water column in spring, where germination is likely to be facilitated at the time of bloom formation. An assessment of the quantitative effects of cyst resuspension on bloom dynamics in any particular year requires more detailed investigation.
Cold event in the South Atlantic Bight during summer of 2003 : model simulations and implications

(American Geophysical Union, 2007-05-11) Aretxabaleta, Alfredo L. ; Blanton, Brian O. ; Seim, Harvey E. ; Werner, Francisco E. ; Nelson, James R. ; Chassignet, Eric P.

A set of model simulations are used to determine the principal forcing mechanisms that resulted in anomalously cold water in the South Atlantic Bight (SAB) in the summer of 2003. Updated mass field and elevation boundary conditions from basin-scale Hybrid Coordinate Ocean Model (HYCOM) simulations are compared to climatological forcing to provide offshore and upstream influences in a one-way nesting sense. Model skill is evaluated by comparing model results with observations of velocity, water level, and surface and bottom temperature. Inclusion of realistic atmospheric forcing, river discharge, and improved model dynamics produced good skill on the inner shelf and midshelf. The intrusion of cold water onto the shelf occurred predominantly along the shelf-break associated with onshore flow in the southern part of the domain north of Cape Canaveral (29° to 31.5°). The atmospheric forcing (anomalously strong and persistent upwelling-favorable winds) was the principal mechanism driving the cold event. Elevated river discharge increased the level of stratification across the inner shelf and midshelf and contributed to additional input of cold water into the shelf. The resulting pool of anomalously cold water constituted more than 50% of the water on the shelf in late July and early August. The excess nutrient flux onto the shelf associated with the upwelling was approximated using published nitrate-temperature proxies, suggesting increased primary production during the summer over most of the SAB shelf.
Along-shelf current variability on the Catalan inner-shelf (NW Mediterranean)

(American Geophysical Union, 2012-09-22) Grifoll, Manel ; Aretxabaleta, Alfredo L. ; Espino, Manuel ; Warner, John C.

We examine the circulation over the inner-shelf of the Catalan Sea using observations of currents obtained from three Acoustic Doppler Current Profilers (two at 24 m and one at 50 m) during March–April 2011. The along-shelf current fluctuations during that period are mainly controlled by local wind stress on short time scales and by remote pressure gradients on synoptic time scales. Different forcing mechanisms are involved in the along-shelf momentum balance. During storm conditions, wind stress, sea level gradients and the nonlinear terms dominate the balance. During weak wind conditions, the momentum balance is controlled by the pressure gradient, while during periods of moderate wind in the presence of considerable stratification, the balance is established between the Coriolis and wind stress terms. Vertical variations of velocity are affected by the strong observed density gradient. The increased vertical shear is accompanied by the development of stratified conditions due to local heating when the wind is not able to counteract (and break) stratification. The occasional influence of the Besòs River plume is observed in time scales of hours to days in a limited area in near the city of Barcelona. The area affected by the plume depends on the vertical extent of the fresher layer, the fast river discharge peak, and the relaxation of cross-shore velocities after northeast storm events. This contribution provides a first interpretation of the inner-shelf dynamics in the Catalan Sea.
Modeling marsh dynamics using a 3-D coupled wave-flow-sediment model

(Frontiers Media, 2021-11-02) Kalra, Tarandeep S. ; Ganju, Neil K. ; Aretxabaleta, Alfredo L. ; Carr, Joel A. ; Defne, Zafer ; Moriarty, Julia M.

Salt marshes are dynamic biogeomorphic systems that respond to external physical factors, including tides, sediment transport, and waves, as well as internal processes such as autochthonous soil formation. Predicting the fate of marshes requires a modeling framework that accounts for these processes in a coupled fashion. In this study, we implement two new marsh dynamic processes in the 3-D COAWST (coupled-ocean-atmosphere-wave sediment transport) model. The processes added are the erosion of the marsh edge scarp caused by lateral wave thrust from surface waves and vertical accretion driven by biomass production on the marsh platform. The sediment released from the marsh during edge erosion causes a change in bathymetry, thereby modifying the wave-energy reaching the marsh edge. Marsh vertical accretion due to biomass production is considered for a single vegetation species and is determined by the hydroperiod parameters (tidal datums) and the elevation of the marsh cells. Tidal datums are stored at user-defined intervals as a hindcast (on the order of days) and used to update the vertical growth formulation. Idealized domains are utilized to verify the lateral wave thrust formulation and show the dynamics of lateral wave erosion leading to horizontal retreat of marsh edge. The simulations of Reedy and Dinner Creeks within the Barnegat Bay estuary system demonstrate the model capability to account for both lateral wave erosion and vertical accretion due to biomass production in a realistic marsh complex. The simulations show that vertical accretion is dominated by organic deposition in the marsh interior, whereas deposition of mineral estuarine sediments occurs predominantly along the channel edges. The ability of the model to capture the fate of the sediment can be extended to model to simulate the impacts of future storms and relative sea-level rise (RSLR) scenarios on salt-marsh ecomorphodynamics.
Cohesive and mixed sediment in the Regional Ocean Modeling System (ROMS v3.6) implemented in the Coupled Ocean–Atmosphere–Wave–Sediment Transport Modeling System (COAWST r1234)

(Copernicus Publications on behalf of the European Geosciences Union, 2018-05-14) Sherwood, Christopher R. ; Aretxabaleta, Alfredo L. ; Harris, Courtney K. ; Rinehimer, J. Paul ; Verney, Romaric ; Ferré, Bénédicte

We describe and demonstrate algorithms for treating cohesive and mixed sediment that have been added to the Regional Ocean Modeling System (ROMS version 3.6), as implemented in the Coupled Ocean–Atmosphere–Wave–Sediment Transport Modeling System (COAWST Subversion repository revision 1234). These include the following: floc dynamics (aggregation and disaggregation in the water column); changes in floc characteristics in the seabed; erosion and deposition of cohesive and mixed (combination of cohesive and non-cohesive) sediment; and biodiffusive mixing of bed sediment. These routines supplement existing non-cohesive sediment modules, thereby increasing our ability to model fine-grained and mixed-sediment environments. Additionally, we describe changes to the sediment bed layering scheme that improve the fidelity of the modeled stratigraphic record. Finally, we provide examples of these modules implemented in idealized test cases and a realistic application.

Aretxabaleta Alfredo L.

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