The AquaDEB project (phase I): Analysing the physiological flexibility of aquatic species and connecting physiological diversity to ecological and evolutionary processes by using Dynamic Energy Budgets

The European Research Project AquaDEB (2007–2011, http://www.ifremer.fr/aquadeb/) is joining skills and expertise of some French and Dutch research institutes and universities to analyse the physiological flexibility of aquatic organisms and to link it to ecological and evolutionary processes within a common theoretical framework for quantitative bioenergetics [Kooijman, S.A.L.M., 2000. Dynamic energy and mass budgets in biological systems. Cambridge University Press, Cambridge]. The main scientific objectives in AquaDEB are i) to study and compare the sensitivity of aquatic species (mainly molluscs and fish) to environmental variability of natural or human origin, and ii) to evaluate the related consequences at different biological levels (individual, population, ecosystem) and temporal scales (life cycle, population dynamics, evolution). At mid-term life, the AquaDEB collaboration has already yielded interesting results by quantifying bio-energetic processes of various aquatic species (e.g. molluscs, fish, crustaceans, algae) with a single mathematical framework. It has also allowed to federate scientists with different backgrounds, e.g. mathematics, microbiology, ecology, chemistry, and working in different fields, e.g. aquaculture, fisheries, ecology, agronomy, ecotoxicology, climate change. For the two coming years, the focus of the AquaDEB collaboration will be in priority: (i) to compare energetic and physiological strategies among species through the DEB parameter values and to identify the factors responsible for any differences in bioenergetics and physiology; and to compare dynamic (DEB) versus static (SEB) energy models to study the physiological performance of aquatic species; (ii) to consider different scenarios of environmental disruption (excess of nutrients, diffuse or massive pollution, exploitation by man, climate change) to forecast effects on growth, reproduction and survival of key species; (iii) to scale up the models for a few species from the individual level up to the level of evolutionary processes.     

Application of a vanishing, quasi-sigma, vertical coordinate for simulation of high-speed, deep currents over the Sigsbee Escarpment in the Gulf of Mexico

Recent observations over the Sigsbee Escarpment in the Gulf of Mexico have revealed extremely energetic deep currents (near 1 m s⁻¹), which are trapped along the escarpment. Both scientific interest and engineering needs demand dynamical understanding of these extreme events, and can benefit from a numerical model designed to complement observational and theoretical investigations in this region of complicated topography. The primary objective of this study is to develop a modeling methodology capable of simulating these physical processes and apply the model to the Sigsbee Escarpment region. The very steep slope of the Sigsbee Escarpment (0.05–0.1) limits the application of ocean models with traditional terrain-following (sigma) vertical coordinates, which may represent the very complicated topography in the region adequately, can result in large truncation errors during calculation of the horizontal pressure gradient. A new vertical coordinate system, termed a vanishing quasi-sigma coordinate, is implemented in the Navy Coastal Ocean Model for application to the Sigsbee Escarpment region. Vertical coordinate surfaces for this grid have noticeably gentler slopes than a traditional sigma grid, while still following the terrain near the ocean bottom. The new vertical grid is tested with a suite of numerical experiments and compared to a classical sigma-layer model. The numerical error is substantially reduced in the model with the new vertical grid. A one-year, realistic, numerical simulation is performed to simulate strong, deep currents over the Escarpment using a very-high-resolution nested modeling approach. The model results are analyzed to demonstrate that the deep-ocean currents in the simulation replicate the prominent dynamical features of the observed intense currents in the region.     

Biodiversity patterns of free-living marine nematodes in a tropical bay: Cienfuegos, Caribbean Sea

Spatial and temporal biodiversity patterns of free-living marine nematodes were studied in Cienfuegos Bay, a tropical semi-enclosed basin in the Caribbean Sea. Taxonomic (to species level) and functional (biological trait) approaches were applied for describing the assemblage structure and relating it to abiotic environment based on a sampling scheme in six subtidal stations and three months. Biological trait approach added relevant information to species pattern regarding relationships between diversity patterns and the abiotic environment. The most common morphotypes were deposit feeding nematodes, with colonising abilities of 2–3 (in a scale from 1 to 5), tail conical cylindrical or filiforme and body slender; and their abundance were correlated with depth, organic matter and silt/clay fraction. In spite of a high turnover of species, functional diversity of assemblages did not change notably in space and time. A result probably due to sampling of the habitat pool of species and to low heterogeneity of the studied muddy bottoms. Chemical pollution (organic enrichment and heavy metals) and hydrodynamic regime possibly drove the biodiversity patterns. Spatial distribution of assemblages support the existence of two well differentiated basins inside the bay, the northern basin more polluted than the southern one. The low hydrodynamic regime would determine a poor dispersion of nematodes resulting in high spatial variance in the assemblage structure; and also the associated hypoxic conditions and pollutants in sediments can explain the dominance of tolerant nematode species such as Daptonema oxycerca, Sabatieria pulchra, Terschellingia gourbaultae, and Terschellingia longicaudata. A comparison of spatial–temporal patterns of biodiversity between Cienfuegos Bay and other semi-enclosed bays in temperate regions suggests several similarities: nematode assemblages are strongly influenced by anthropogenic disturbance, temporal trends are weak or overridden by spatial ones, and few cosmopolitan genera/species tolerant to pollution and hypoxic conditions are dominant.     

Tortonian-Pleistocenic oceanic features in the Southern Tyrrhenian Sea: magnetic inverse model of the Selli-Vavilov region

We show the magnetic model of the Selli-Vavilov region. The Selli Line is known as the northwestern edge of the southern Tyrrhenian Basin. The tectonic evolution of the Tyrrhenian Basin is dominated by a Tortonian-Quaternary extension through the eastward movement of the Apennine subduction system. This migration has generated a diffuse stretching of the continental crust with the emplacement of new oceanic material. This latter occurred in several localized zones where the eastward retreating of the Ionian subduction system produced a strong depletion of the crust with formation of basins and correlated spreading. Nowadays the presence of oceanic crust is confirmed through direct drilling investigation but a complete mapping of the oceanic crustal distribution is still lacking. The Selli-Vavilov region shows a differentiated crustal setting where seamount structures, the oceanic basement portions and continental crust blocks are superimposed. To this aim, a 2D inversion of the magnetic data of this region was conducted to define buried structures. The magnetic susceptibility pattern was computed by solving the least squares problem of the misfit between the predicted and real data for separated wavebands. This method produced two 2D models of the high and low frequency fields of the Selli-Vavilov region. The two apparent susceptibility maps provide different information for distinct ranges of depth. The results of the inversions were also combined with seismic data of the Selli region highlighting the position of the highly magnetized buried bodies. The results confirm a role for the Selli Line as a deep crustal boundary dividing the Sardinian passive domain from the easternmost active region where different oceanic structures are located. The Selli Line has worked as a detachment fault system which has moved eastward. Finally, the Selli-Vavilov region may be interpreted as a tectonic result due to a passive asymmetrical rift occurred between the Tortonian and Pliocene.     

An overview of socio-economic and ecological perspectives of Fiji's inshore reef fisheries

This paper reviews the socio-economic and ecological context of Fijian reef fisheries. This review is deemed necessary because improved understanding of the state and trends of Fiji's coral reef fisheries on a national level is required for designing an effective management plan for Fiji's inshore reef fisheries. The most important point that emerges from our review is that despite numerous studies of Fiji's reef fisheries, the current status of reef-associated fisheries at the national level is still uncertain due, mainly, to the lack of dependable data on the subsistence fisheries. This in turn leads to uncertainty about how the continuation of fishing, in particular, fishing focused on target species for the coral reef resources trade, will affect fishing communities and the ecosystem.     

Sensitivity of hurricane surge to morphological parameters of coastal wetlands

Given the history and future risk of storm surge in the United States, functional storm protection techniques are needed to protect vital sectors of the economy and coastal communities. It is widely hypothesized that coastal wetlands offer protection from storm surge and wave action, though the extent of this protection is unknown due to the complexities of flow through vegetation. Here we present the sensitivity of storm-surge numerical modeling results to various coastal wetlands characteristics. An idealized grid domain and 400-km² marsh feature were used to evaluate the effects of marsh characteristics on hurricane surge, including the effects of bottom friction, elevation, and continuity (the ratio of healthy marsh to open water area within the total wetland area).Through coupled hydrodynamic and wave model simulations, it is confirmed that increased bottom friction reduces storm-surge levels for most storms. However, increases in depth associated with marsh elevation loss generally results in a reduction of surge. As marsh continuity is decreased, coastal surge increases as a result of enhanced surge conveyance into and out of the marsh. Storm surge is parameterized in terms of marsh morphology, namely marsh elevation, frictional characteristics, and degree of segmentation, which will assist in the justification for and optimization of marsh restoration in terms of storm protection.     

Multi-stakeholder collaboration yields valuable data for cetacean conservation in Gamba,Gabon

Private industry, the Government of Gabon and two international NGOs collaborated to conduct marine surveys off the coast of Gabon, Central Africa. Surveys addressed multiple objectives of surveillance and monitoring, the documentation of the distribution of and threats to the marine megafauna, and capacity-building among government agents and local early-career scientists. During 22 days of survey effort over a two-year period, observers documented humpback whales Megaptera novaeangliae, bottlenose dolphins Tursiops truncatus, Atlantic humpback dolphins Sousa teuszii and common dolphins Delphinus delphis. Humpback whale presence was limited to the months of July to November. Bottlenose dolphins were present year-round and photo-identification of individuals indicated a closed, resident population, with an abundance estimate of 118 (CV = 21.6%, 95% CI 78–180). Small open-decked fishing vessels with gillnets were observed concentrated around river mouths within 2 km of shore, while commercial trawlers were at least 10 km offshore; all were confirmed to be registered and legal. Observations of marine turtles, flocks of marine birds, and floating logs and other debris were sparse. This multi-stakeholder collaboration to conduct a marine survey can serve as an effective model by which funding and logistic support from private industry paired with technical expertise from NGOs and academic institutions can benefit marine and coastal conservation.     

The WOCE-era 3-D Pacific Ocean circulation and heat budget

To address questions concerning the intensity and spatial structure of the three-dimensional circulation within the Pacific Ocean and the associated advective and diffusive property flux divergences, data from approximately 3000 high-quality hydrographic stations collected on 40 zonal and meridional cruises have been merged into a physically consistent model. The majority of the stations were occupied as part of the World Ocean Circulation Experiment (WOCE), which took place in the 1990s. These data are supplemented by a few pre-WOCE surveys of similar quality, and time-averaged direct-velocity and historical hydrographic measurements about the equator.An inverse box model formalism is employed to estimate the absolute along-isopycnal velocity field, the magnitude and spatial distribution of the associated diapycnal flow and the corresponding diapycnal advective and diffusive property flux divergences. The resulting large-scale WOCE Pacific circulation can be described as two shallow overturning cells at mid- to low latitudes, one in each hemisphere, and a single deep cell which brings abyssal waters from the Southern Ocean into the Pacific where they upwell across isopycnals and are returned south as deep waters. Upwelling is seen to occur throughout most of the basin with generally larger dianeutral transport and greater mixing occurring at depth. The derived pattern of ocean heat transport divergence is compared to published results based on air–sea flux estimates. The synthesis suggests a strongly east/west oriented pattern of air–sea heat flux with heat loss to the atmosphere throughout most of the western basins, and a gain of heat throughout the tropics extending poleward through the eastern basins. The calculated meridional heat transport agrees well with previous hydrographic estimates. Consistent with many of the climatologies at a variety of latitudes as well, our meridional heat transport estimates tend toward lower values in both hemispheres.     

A review of marine mammal,sea turtle and seabird bycatch in USA fisheries and the role of policy in shaping management

This paper reviews the available information (observer programs, estimates, statutes, regulations) for bycatch of marine mammals, sea turtles, and seabirds in fisheries of the United States. Goals of the review were to evaluate the state of knowledge of bycatch and the role of existing protective legislation in shaping bycatch management for different taxa. Pressing issues are identified, as well as knowledge gaps and policy limitations that hinder multi-species bycatch reduction. The USA has made important progress toward reducing bycatch in its fisheries, but the efficacy of its management has been limited somewhat by a focus on taxon- and fishery-specific regulation and the lack of consistent mandate across taxa for taking a cumulative perspective on bycatch. Applying consistent criteria across taxa for setting bycatch limits (e.g., extending the approach used for marine mammals to sea turtles and seabirds) would be the first step in a multi-species approach to bycatch reduction. A population-based multi-species multi-gear approach to bycatch would help identify priority areas where resources are needed most and can be used most effectively.