[1] We observed transient stratification and mixing events associated with nearshore internal bores in southern Monterey Bay using an array of instruments with high spatial and temporal resolution. The arrival of the bores is characterized by surging masses of dense (cold) water that tend to stratify the water column. The bore is followed by a gradual drop in the temperature throughout the water column over several hours (defined here as the bore period) until a sharp warm-front relaxation, followed by high frequency temperature fluctuations, returns the column back to nearly its original state (defined here as the mixing period). Mixing periods revealed increased temperature variance at high frequencies (w > N), as well as a greater percentage of events where dynamic instabilities may be present (Ri < 0.25), suggesting active mixing of the stratified water column. Turbulent dissipation rates in the stratified interior during the mixing period, estimated using the technique of isopycnal slope spectra, revealed mean values the same order of magnitude as near-bed bottom-generated turbulence. Observations indicate that local shear-produced turbulent kinetic energy by the warm front relaxations dominates mixing in the stratified interior. The non-canonical nature of these bore and relaxation events is also investigated with a numerical model, and the dynamics are shown to depend on the internal Iribarren number. Our results suggest that nearshore internal bores interacting with local bathymetry dramatically alter local dynamics and mixing in the nearshore with important ecological implications.

Microbes are known to affect ecosystems and communities as decomposers, pathogens, and mutualists. However, they also may function as classic consumers and competitors with animals if they chemically deter larger consumers from using rich food-falls such as carrion, fruits, and seeds that can represent critical windfalls to both microbes and animals. Microbes often use chemicals (i.e., antibiotics) to compete against other microbes. Thus using chemicals against larger competitors might be expected and could redirect significant energy subsidies from upper trophic levels to the detrital pathway. When we baited traps in a coastal marine ecosystem with fresh vs. microbe-laden fish carrion, fresh carrion attracted 2.6 times as many animals per trap as microbe-laden carrion. This resulted from fresh carrion being found more frequently and from attracting more animals when found. Microbe-laden carrion was four times more likely to be uncolonized by large consumers than was fresh carrion. In the lab, the most common animal found in our traps (the stone crab Menippe mercenaria) ate fresh carrion 2.4 times more frequently than microbe-laden carrion. Bacteria-removal experiments and feeding bioassays using organic extracts of microbe-laden carrion showed that bacteria produced noxious chemicals that deterred animal consumers. Thus bacteria compete with large animal scavengers by rendering carcasses chemically repugnant. Because food-fall resources such as carrion are major food subsidies in many ecosystems, chemically mediated competition between microbes and animals could be an important, common, but underappreciated interaction within many communities.

Long-term changes in nutrient supply and primary production reportedly foreshadow substantial declines in global marine fishery production. These declines combined with current overfishing, habitat degradation, and pollution paint a grim picture for the future of marine fisheries and ecosystems. However, current models forecasting such declines do not account for the effects of ocean fronts as biogeochemical hotspots. Here we apply a fundamental technique from fluid dynamics to an ecosystem model to show how fronts increase total ecosystem biomass, explain fishery production, cause regime shifts, and contribute significantly to global biogeochemical budgets by channeling nutrients through alternate trophic pathways. We then illustrate how ocean fronts affect fishery abundance and yield, using long-term records of anchovy-sardine regimes and salmon abundances in the California Current. These results elucidate the fundamental importance of biophysical coupling as a driver of bottom-up vs. top-down regulation and high productivity in marine ecosystems.fronts | aggregation | trophic interactions | Reynolds decomposition G lobally, marine primary production is considered to set the limits of fishery production (1), drive ecosystem functioning (2), and contribute substantially to biogeochemical cycles (3). Recent evidence of increased ocean temperatures (4, 5) and declines in global nutrient supply and primary production (6), combined with overfishing and other increasing human demands on the ocean (7-9), therefore raises significant concerns about fishery sustainability, ecosystem health, and maintaining global biogeochemical cycles (10). However, the degree of patchiness, instead of total biomass, may be the primary regulator of marine production and food web structure (11-16). Fronts in the ocean are boundaries between distinct water masses with sharp gradients in temperature or salinity (density) that can increase patchiness through flow convergence and, for density fronts, increase vertical mixing and nutrient supply (11,17). Due to flow convergence at fronts, the spatiotemporal overlap of prey and predators can be immense, leading to a cascade of impacts across multiple scales from local prey size structure to global biogeochemical fluxes (11-13). However, the effects of fronts as fishery productivity and biogeochemical cycling hotspots have not been included in models that assess fisheries production and ecosystem health (18) or addressed at scales (tens to hundreds of kilometers) relevant to climate change (19).Here we use an ecosystem model to explore why fronts appear to have a strong influence on marine fishery production and biogeochemical cycling. Existing ecosystem models currently account only for the mean concentration of predator and prey with relatively large grid cells (20). In a simple case of a single autotrophic prey (A) and a single heterotrophic predator (B) the governing equations are[1]These equations describe the change in biomass of predator and prey relative to nutrient supply (N), intrins...

SummaryPlankton are small organisms that dwell in oceans, seas and bodies of fresh water. In this review, we discuss life in the plankton, which involves a balance between the behavioral capabilities of the organism and the characteristics and movement of the water that surrounds it. In order to consider this balance, we discuss how plankton interact with their environment across a range of scales -from the smallest viruses and bacteria to larger phytoplankton and zooplankton. We find that the larger scale distributions of plankton, observed in coastal waters, along continental shelves and in ocean basins, are highly dependent upon the smaller scale interactions between the individual organism and its environment. Further, we discuss how larger scale organism distributions may affect the transport and/or retention of plankton in the ocean environment. The research reviewed here provides a mechanistic understanding of how organism behavior in response to the physical environment produces planktonic aggregations, which has a direct impact on the way marine ecosystems function.

[1] During the upwelling season in central California, northwesterly winds along the coast produce a strong upwelling jet that originates at Point Año Nuevo and flows southward across the mouth of Monterey Bay. A convergent front with a mean temperature change of 3.77 ± 0.29°C develops between the warm interior waters and the cold offshore upwelling jet. To examine the forcing mechanisms driving the location and movement of the upwelling shadow front and its effects on biological communities in northern Monterey Bay, oceanographic conditions were monitored using cross-shelf mooring arrays, drifters, and hydrographic surveys along a 20 km stretch of coast extending northwestward from Santa Cruz, California, during the upwelling season of 2007 (May-September). The alongshore location of the upwelling shadow front at the northern edge of the bay was driven by: regional wind forcing, through an alongshore pressure gradient; buoyancy forces due to the temperature change across the front; and local wind forcing (the diurnal sea breeze). The upwelling shadow front behaved as a surface-trapped buoyant current, which is superimposed on a poleward barotropic current, moving up and down the coast up to several kilometers each day. We surmise that the front is advected poleward by a preexisting northward barotropic current of 0.10 m s À1 that arises due to an alongshore pressure gradient caused by focused upwelling at Point Año Nuevo. The frontal circulation (onshore surface currents) breaks the typical two-dimensional wind-driven, cross-shelf circulation (offshore surface currents) and introduces another way for water, and the material it contains (e.g., pollutants, larvae), to go across the shelf toward shore.

Flow over complex terrain causes stress on the bottom leading to drag, turbulence, and formation of a boundary layer. But despite the importance of the hydrodynamic roughness scale z0 in predicting flows and mixing, little is known about its connection to complex terrain. To address this gap, we conducted extensive field observations of flows and finescale measurements of bathymetry using fluid-lensing techniques over a shallow coral reef on Ofu, American Samoa. We developed a validated centimeter-scale nonhydrostatic hydrodynamic model of the reef, and the results for drag compare well with the observations. The total drag is caused by pressure differences creating form drag and is only a function of relative depth and spatially averaged streamwise slope, consistent with scaling for k–δ-type roughness, where k is the roughness height and δ is the boundary layer thickness. We approximate the complex reef surface as a superposition of wavy bedforms and present a simple method for predicting z0 from the spatial root-mean-square of depth and streamwise slope of the bathymetric surface and a linear coefficient a1, similar to results from other studies on wavy bedforms. While the local velocity profiles vary widely, the horizontal average is consistent with a log-layer approximation. The model grid resolution required to accurately compute the form drag is O(10–50) times the dominant horizontal hydrodynamic scale, which is determined by a peak in the spectra of the streamwise slope. The approach taken in this study is likely applicable to other complex terrains and could be explored for other settings.

We show that ocean fronts set recruitment patterns among both community‐building invertebrates and commercially important fishes in nearshore intertidal and rocky reef habitats. Chlorophyll concentration and recruitment of several species of intertidal invertebrates (Balanus spp., Chthamalus spp., Mytilus spp.) and rockfishes (Sebastes spp.) are positively correlated with front probability along the coast of the California Current Large Marine Ecosystem. Abundances of recent settlers and adults for nearshore rockfish species are also positively correlated with front probability. The interaction of coastal topography and bathymetry sets spatial scales of fronts and consequently recruitment at approximately 50 km during active upwelling, compared to 200 km or greater during non‐upwelling periods. Such relationships between fronts and recruitment are likely to be consistent across other marine ecosystems—from coastal waters to the open ocean—and provide a critical link between adults and widely dispersing young. Ocean fronts, already known as features with high biodiversity and resilience in pelagic habitats, also set recruitment and connectivity patterns across multiple taxa for intertidal and rocky reef communities, thus linking biodiversity and resilience in coastal and benthic habitats as well.

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