Résumé: In an increasingly anthropogenic world, the scientific community and managers have to take interactions between the drivers of ecosystems into consideration. Tools like ecological network analysis (ENA) indices offer the opportunity to study those interactions at the ecosystem level. However, ENA indices have never been used to test the incidence of cumulative drivers. The present study uses models combining the effects of (i) the reef caused by the future offshore wind farm of Courseulles-sur-Mer and (ii) climate change on species distribution, to test the response of multiple ENA indices. ENA indices proved sensitive to this cumulative impact, displaying a wide variety of cumulative effects. They were also very powerful to characterize the role of the cumulative impact on ecosystem functioning. These results demonstrate the capacity of ENA indices to describe and understand cumulative effects at the ecosystem scale. Using a sensitivity analysis approach, this study shows that ENA indices could be viable tools for managers. To help them in their tasks, the next step could be to link ecosystem services to ENA indices for a more practical use.

Résumé: The eastern oyster once provided major societal and ecosystem benefits, but these benefits have been threatened in recent decades by large declines in oyster harvests. In many areas, recovery of oyster aquaculture faces significant societal opposition and spatial constraints limiting its ability to meet expectations regarding future food needs and provision of ecosystem services. In Virginia, oyster aquaculture has begun to expand, concurrent with an increase in subaqueous leased areas (over 130,000 acres of grounds are currently leased). Though private leases must in theory be used for oyster production, in practice, they can be held for other reasons, such as speculation or intentional exclusion of others. These factors have led to large variation over time and space in the use of leases in lower Chesapeake Bay; and privately leased grounds are now thought to be underutilized for oyster production. This research examined potential barriers to expansion of oyster aquaculture in Virginia. We first evaluated if a lack of space was limiting industry expansion and quantified temporal and spatial trends in the use and productivity of leases. Then, differences in used and non-used leases were investigated in relation to variables thought to be related to “not in my backyard” attitudes, congestion, speculation, local economic and environmental conditions. Finally, the performance of the Virginia leasing system was compared with those in other states along the U.S. East and Gulf Coasts. We found limited evidence for spatial constraints on aquaculture leasing, but strong evidence for social and regulatory inefficiencies. Although rates of lease use increased from 2006 to 2016, only 33% of leases were ever used for oyster production and about 63% of leaseholders reported no commercial harvests. Non-used leases tended to be smaller, and were found in more populated, high-income regions, consistent with both speculative and exclusionary uses. Virginia had the second lowest level of total production of cultured oysters per leased acre among the states on the East and Gulf Coasts of the United States. These results indicate that there is room for oyster aquaculture expansion in Virginia if societal, regulatory, and economic barriers can be reduced or if existing leased areas are used more efficiently.

Résumé: Coral reef fisheries depend on reef fish biomass to support ecosystem functioning and sustainable fisheries. Here, we evaluated coral reefs across 4,000 km of the Indonesian archipelago to reveal a large gradient of biomass, from 17,000 kg/ha. Trophic pyramids characterized by planktivore dominance emerged at high biomass, suggesting the importance of pelagic pathways for reef productivity. Total biomass and the biomass of most trophic groups were higher within gear restricted and no-take management, but the greatest biomass was found on unmanaged remote reefs. Within marine protected areas (MPAs), 41.6% and 43.6% of gear restricted and no-take zones, respectively, met a global biomass target of 500 kg/ha, compared with 71.8% of remote sites. To improve conservation outcomes for Indonesia's biodiverse and economically important coral reef fisheries, our results suggest to: (1) strengthen management within Indonesia's existing MPAs and (2) precautionarily manage remote reefs with high biomass.

Résumé: The marine ecosystem off British Columbia (BC), Canada, has experienced various changes in the last two decades. Understanding how stressors interactively and cumulatively affect commercially important fish species is key to moving towards ecosystem-based fisheries management. Because it is challenging to assess the cumulative effects of multiple stressors by using empirical data alone, a dynamic, individual-based spatially-explicit ecosystem modeling platform such as OSMOSE represents a valuable tool to simulate ecological processes and comprehensively evaluate how stressors cumulatively impact modelled species. In this study, we employed OSMOSE to investigate the cumulative effects of fishing, plankton biomass change, and marine mammal consumption on the dynamics of some fish species and the BC marine ecosystem as a whole. We specifically simulated ecosystem dynamics during the last 20 years under two sets of scenarios: (1) unfavorable conditions from the perspective of commercial fish species (i.e., doubling fishing rates, halving plankton biomass, and doubling marine mammal biomass, acting individually or collectively); and (2) favorable conditions with the three factors having opposite changes (i.e., halving fishing rates, doubling plankton biomass, and halving marine mammal biomass, acting individually or collectively). Our results indicate that, under unfavorable conditions, the degree to which species biomass was reduced varied among species, and that negative synergistic and negative dampened effects were dominant under historical and doubled fishing mortality rates, respectively. Under favorable conditions, species biomasses did not increase as much as expected due to the existence of complex predator-prey interactions among fish species, and positive synergistic and positive dampened effects were prevailing under historical and halved fishing mortality rates, respectively. The ecosystem total biomass and the biomass to fisheries yield ratio were found to be good ecological indicators to represent ecosystem changes and track the impacts from the multiple drivers of change. Our research provides insights on how fisheries management should adapt to prepare for potential future impacts of climate change.

Résumé: The Ocean Decade: A True Ecosystem Modeling Challenge

Résumé: By relating observed changes to the pressures suffered, the Marine Strategy Framework Directive intends to better control the factors of environmental degradation and to manage their consequences in European waters. Several descriptors are defined within the framework of the MFSD and in particular descriptor 1 relating to the biological diversity of the seabed and descriptor 6 relating to the seabed integrity (i.e. the quality of their structures and functions). For each descriptor, indicators and threshold values must be defined and a novel conceptual approach to define and detect seabed integrity thresholds is proposed here. Bottom trawling being the main source of shelf continental disturbance, it is important to evaluate its impact on benthic habitat. The goal of this study is to propose a methodology to determine “Good Ecological Status” threshold values for each habitat type present in three contrasted MFSD sub-region (North Sea, English Channel and Mediterranean Sea). Trawling impacts are dependent of the spatial and temporal distribution of the fishing effort, fishing gears, intensity of natural disturbances and habitat types. Benthic community structures present in these areas were studied using by-catch non-commercial benthic invertebrates data collected during French scientific bottom trawl surveys. Swept area ratios derived from VMS data were used to quantify the intensity of fishery induced abrasion on the seabed. A modeling approach was used to determine abrasion threshold values on each EUNIS level 4 habitat. The values, beyond which trawling has an adverse effect on benthic communities, have been determined for each habitat. This made it possible to assess and map the ecological status of each of the habitats and to determine the percentage of each habitat impacted by trawling. The method proposed here to evaluate the impact of trawling on benthic communities highlighted that the vast majority of the investigated sub-regions were adversely impacted or lost as a result of seabed impacting trawling.

Résumé: Many deep-water fish populations, being K-selected species, have little resilience to overexploitation and may be at serious risk of depletion as a consequence. Sea warming represents an additional threat. In this study, the condition, or health, of several populations of common ling (Molva molva), blue ling (Molva dypterygia) and Mediterranean or Spanish ling (Molva macrophthalma) inhabiting different areas in the North Atlantic and the Mediterranean was evaluated, to shed light on the challenges these deep-water species are facing in the context of fishing activity and a warming climate. The data on the condition of Molva populations which are analysed here have been complemented with data on abundance and, for the southernmost species (Mediterranean ling), with two other health indicators (parasitism and hepato-somatic index). Despite some exceptions (e.g., common ling in Icelandic waters), this study shows that the condition of many populations of Molva species in the northeastern Atlantic and the Mediterranean Sea has worsened, a trend which, in recent decades, has usually been found to be accompanied by a decline in their abundance. In addition, the poor health status of most populations of common ling, blue ling and Mediterranean ling considered in this analysis points to a lower sustainability of these populations in the future. Overall, the health status and abundance of Molva populations in the northeastern Atlantic and the Mediterranean suggest that only some populations located in the North Atlantic may be able to rebuild, whereas the populations in southern North Atlantic and the Mediterranean, which are probably most at risk from sea warming, are facing serious difficulties in doing so. In the context of fisheries and global warming, this study's results strongly indicate that management bodies need to consider the health status of many of the populations of Molva species, particularly in southern European waters, before implementing their decisions.

Résumé: Spatial indicators are widely used to monitor species and are essential to management and conservation. In the present study, we tested the ability of 11 spatial indicators to quantify changes in species' geographic patterns: (1) spatial displacement of a patch of biomass ('shift'), (2) a spatial decrease in a patch, accompanied either by a loss of biomass ('shrink0') or (3) a relocation of the same biomass ('shrink1'), and (4) splitting of a patch into smaller patches ('split'). The geographic changes were simulated by manipulating the spatial distributions of the demersal species (observed during bottom trawl surveys). Hence, the spatial distributions of the latter being used as input data on which the manipulations were done. Additionally, other aspects of the indicators affecting the responses to the geographic changes were also tested, (1) homogeneous increase in biomass throughout the patch and (2) different sample sizes. The center of gravity (defined by latitude and longitude) was the only indicator that accurately detected the 'shift' in biomass. The index of aggregation identified a decrease in the area and biomass of the main biomass patch ('shrink0'), while the Gini index, equality area and spreading area were accurately identified a decrease in the area of the main biomass patch when total biomass did not decreased ('Shrink1'). Inertia and isotropy responded to all geographic changes, except for those in biomass or distribution area. None of the indicators successfully identified 'split' process. Likewise, one of the indicators were sensitive to a homogeneous increase in biomass or the type of spatial distribution. Overall, all indicators behaved similarly well when sample sizes exceeded 40 stations randomly located in the area. The framework developed provides an accessible and simple approach that can be used to evaluate the ability of spatial indicators to identify geographic processes using empirical data and can be extended to other indicators or geographic processes. We discuss perspectives of the development of spatial indicators especially within the application of EU's Marine Strategy Framework Directive.

Résumé: In Europe, implementation of sustainable fisheries management has been reinforced in the latest common fisheries policy, and presently marine fish stocks are mostly managed through assessment of their exploitation and ecological status compared to reference points such as Maximum Sustainable Yield (MSY). However, MSY and its associated fishing mortality rate F-MSY are sensitive to both stock characteristics and environment conditions. In parallel, climate change impacts are increasingly affecting fish stocks directly and indirectly but might also change the exploitation reference points and the associated level of catch. Here we explored the variability of MSY reference points under climate change by using a multi-species model applied to the Eastern English Channel, a highly exploited semi-continental sea. The spatial individual-based OSMOSE explicitly represents the entire fish life cycle of 14 species interacting through size-based opportunistic predation. The model was first parameterized and run to fit the historical situation (2000-2009) and then used to assess the ecosystem state for the 2050-2059 period, using two contrasting climate change scenarios (RCP 4.5 and RCP 8.5). For each condition, a monospecific MSY estimation routine was performed by varying species fishing mortality independently and allowed estimation of reference points for each species. The F-MSY estimated with OSMOSE were mostly in accordance with available values derived from stock assessment and used for fishing advice. Evolution of reference points with climate change was compared across species and highlighted that overexploited cold-water species are likely to have both MSY and F-MSY declining with climate warming. Considering all species together, MSY under RCP scenarios was expected to be higher than historical MSY for half of them, with no clear link with species temperature preferences, exploitation status or trophic level, but in relation with expected change of species biomass under climate change. By contrast, for 80% of cases F-MSY projections showed consistent decreasing pattern as climate conditions changed from historical to RCP scenarios in the Eastern English Channel. This result constitutes a risk for fisheries management, and anticipation of climate change impacts on fish community would require targeting a smaller fishing mortality than F-MSY to ensure sustainable exploitation of marine stocks.

Résumé: The state of marine systems subject to natural or anthropogenic impacts can be generally summarized by suites of ecological indicators carefully selected to avoid redundancy. Length-based indicators capture the status of fish community structure, fulfilling the Marine Strategy Framework Directive (MSFD) requirement for Descriptor 3 (status of commercial fish species). Although the MSFD recommends the development of regional indicators, a comparison among alternative length-based indicators is so far missing for the Mediterranean Sea. Using principal component analysis and dynamic factor analysis, we identified the most effective subset of length-based indicators, whether or not based on maximum length. Indicator trends and lime series of fishing effort and environmental variables are also compared in order to highlight the individual and combined capability of indicators to track system changes across geographical sub-areas. Two indicators, typical length and mean maximum length, constitute the smallest set of non-redundant indicators, capturing together 87.45% of variability. Only in combination can these indicators disentangle changes in the fish community composition from modifications of size structure. Our study supports the inclusion of typical length among the regional MSFD Descriptor 3 indicators for the Mediterranean Sea. Finally, we show dissimilarity between the western and eastern-central Mediterranean, suggesting that there are sub-regional differences in stressors and community responses.

Résumé: Periodically harvested closures are a widespread, centuries-old form of fisheries management that protects fish between pulse harvests and can generate high harvest efficiency by reducing fish wariness of fishing gear. However, the ability for periodic closures to also support high fisheries yields and healthy marine ecosystems is uncertain, despite increased promotion of periodic closures for managing fisheries and conserving ecosystems in the Indo-Pacific. We developed a bioeconomic fisheries model that considers changes in fish wariness, based on empirical field research, and quantified the extent to which periodic closures can simultaneously maximize harvest efficiency, fisheries yield and conservation of fish stocks. We found that periodic closures with a harvest schedule represented by closure for one to a few years between a single pulse harvest event can generate equivalent fisheries yield and stock abundance levels and greater harvest efficiency than achievable under conventional fisheries management with or without a permanent closure. Optimality of periodic closures at maximizing the triple objective of high harvest efficiency, high fisheries yield, and high stock abundance was robust to fish life history traits and to all but extreme levels of overfishing. With moderate overfishing, there emerged a trade-off between periodic closures that maximized harvest efficiency and no-take permanent closures that maximized yield; however, the gain in harvest efficiency outweighed the loss in yield for periodic closures when compared with permanent closures. Only with extreme overfishing, where fishing under nonspatial management would reduce the stock to <= 18% of its unfished level, was the harvest efficiency benefit too small for periodic closures to best meet the triple objective compared with permanent closures. Synthesis and applications. We show that periodically harvested closures can, in most cases, simultaneously maximize harvest efficiency, fisheries yield, and fish stock conservation beyond that achievable by no-take permanent closures or nonspatial management. Our results also provide design guidance, indicating that short closure periods between pulse harvest events are most appropriate for well-managed fisheries or areas with large periodic closures, whereas longer closure periods are more appropriate for small periodic closure areas and overfished systems.

Résumé: Bycatch in fisheries can have profound effects on the abundance of species with relatively low resilience to increased mortality, can alter the evolutionary characteristics and concomitant fitness of affected populations through heritable trait-based selective removals, and can alter ecosystem functions, structure and services through food web trophic links. We challenge current piecemeal bycatch management paradigms, which reduce the mortality of one taxon of conservation concern at the unintended expense of others. Bycatch mitigation measures may also reduce intraspecific genetic diversity. We drew examples of broadly prescribed ‘best practice’ methods to mitigate bycatch that result in unintended cross-taxa conflicts from pelagic longline, tuna purse seine, gillnet and trawl fisheries. We identified priority improvements in data quality and in understanding ecological effects of bycatch fishing mortality to support holistic ecological risk assessments of the effects of bycatch removals conducted through semi-quantitative and model-based approaches. A transition to integrated bycatch assessment and management that comprehensively consider biodiversity across its hierarchical manifestations is needed, where relative risks and conflicts from alternative bycatch management measures are evaluated and accounted for in fisheries decision-making processes. This would enable managers to select measures with intentional and acceptable tradeoffs to best meet objectives, when conflicts are unavoidable.

Résumé: One of the current major scientific challenges to sustain social-ecological systems is to improve our understanding of the spatial and temporal dynamics of the relationships between biodiversity, ecosystem functioning and ecosystem services. Here, we analyse the bundles of ecosystem services supplied by three coastal ecosystems (coastal lagoons, coral reefs and sandy beaches) along a gradient of eutrophication. Based on a state-and-transition model, we analyses the dynamic responses of ecological communities to environmental change and management actions. Although few exceptions are highlighted, increasing eutrophication in the three ecosystem types leads to a degradation of the ecosystem service bundles, particularly for nutrient and pathogen regulation/sequestration, or for the support of recreational and leisure activities. Despite few obstacles to their full use, state-and-transition models can be very powerful frameworks to integrate multiple functions and services delivered by ecosystems while accounting for their temporal dynamics.

Résumé: Understanding how inter-specific variation in functional traits affects native and non-native species responses to stream disturbances, is necessary to inform management strategies, providing tools for biomonitoring, conservation and restoration. This study used a functional trait approach to characterise the responses of macrophyte assemblages to reach-scale disturbances (measured by lack of riparian shading, altered hydromorphology and eutrophication), from 97 wadeable stream sites in an agriculturally impacted region of New Zealand. To determine whether macrophyte assemblages differed due to disturbances, we examined multidimensional assemblage functional structure in relation to eleven functional traits and further related two functional diversity indices (entropy and originality) to disturbances. Macrophyte assemblages showed distinct patterns in response to disturbances, with riparian shading and hydromorphological conditions being the strongest variables shaping macrophyte functional structure. In the multidimensional space, most of the non-native species were associatedwith disturbed conditions. These species had traits allowing faster colonisation rates (higher number of reproductive organs and larger root-rhizome system) and superior competitive abilities for resources (tall and dense canopy, heterophylly and greater preferences for light and nitrogen). In addition, lack of riparian shading increased the abundance of functionally distinct species (i.e. entropy), and eutrophication resulted in the growth of functionally unique species (i.e. originality). We demonstrated that stream reach-scale habitat disturbances were associated to a dominance of more productive species, equating to a greater abundance of non-native species. This, can result in a displacement of native species, habitat alterations, and changes to higher trophic level assemblages. Our results suggests that reachscale management efforts such as the conservation and restoration of riparian vegetation that provides substantial shading and hydromorphologically diverse in-stream habitat, would have beneficial direct and indirect effects on ecosystem functioning, and contribute to the mitigation of land-use impacts. (C) 2018 Published by Elsevier B.V.

Résumé: The aquaculture of meagre (Argyrosomus regius) requires methods for the control of reproduction that enable the production of families from specific individuals for selective breeding programs. We experimentally determined the parameters required for an in vitro fertilisation protocol. A total of 14 females and 5 males (mean +/- S.D. weights of 20.45 +/- 6.22 and 15.94 +/- 2.75 kg, respectively) were used. Selected females had vitellogenic oocytes > 550 pm in diameter and males had fluid sperm upon application of abdominal pressure. Both sexes were treated with an injection of 15 mu g kg(-1) of gonadotropin-releasing hormone agonist (GnRHa) to induce oocyte maturation/ovulation and enhance sperm production. To determine the timing of ovulation and window of high egg viability, females were stripped serially every 2.5 h beginning 35 h after GnRHa treatment. Sperm was obtained 24 h after GnRHa treatment and was diluted 1/4 in modified Leibovitz for storage at 4 degrees C until use. Sperm quality parameters such as percentage initial spermatozoa motility, duration of motility, velocity and density were determined using computer assisted sperm analysis (CASA). In vitro inseminations were made in duplicate or triplicate batches of eggs from each spawn by mixing 0.5-1 mL of eggs, 20-40 mu L diluted sperm (pooled from two males) and 100 mL of seawater. Fertilisation success was examined at spermatozoa (spz): egg ratios between similar to 2000 and 400,000 spz egg(-1). The optimal time for stripping ovulated females was <= 3 h after ovulation, which was the window of optimal egg viability. Ovulation under the conditions of this study was close to 38 h after GnRHa treatment, with a range from 35 to 41 h. Beginning from 3 h after ovulation, egg viability declined probably due to overripening. Sperm diluted in Leibovitz maintained motility and velocity for as long as 7 h after collection. Spermatozoa motility (%) and average path velocity (VAP, mu m/s) of sperm samples obtained from males before GnRHa injection declined rapidly after activation compared to the samples obtained 24 h post-injection, with significant decreases respectively after 75 and 45 s. A minimum ratio of 150,000 spermatozoa egg(-1) was necessary to ensure high fertilisation success. The acquired knowledge of the present study will aid the aquaculture industry and future research on selective breeding programs for meagre.

Résumé: The present work examines the spatio-temporal biomass trends of Mullus barbatus and Mullus sunnuletus in the Mediterranean Sea through the analysis of a time series of data coming from the Mediterranean International Trawl Surveys (MEDITS), accomplished annually from 1994 to 2015. The biomass of both species showed clear declining trends below 150 to 200 m depth, which were steeper in the case of M. barbatus. Increases in temporal biomass trends were observed for M. barbatus from 2008 onward in most geographic sub-areas (GSAs), while stability was mostly observed for M. stumuletus. For both species, dynamic factor analysis revealed similarities among neighbouring GSAs and the subsequent cluster analysis identified two major GSA groups corresponding to the eastern and western basins of the Mediterranean. Overall, the results suggested that the combined effects of fishing and environmental conditions determine species abundance variations, but the relative importance of each component may vary among areas.

Résumé: The Peruvian hake (Merluccius gayi peruanus) stock has been in a delicate state in the last decades due to overexploitation combined with adverse climatic events. The stock is showing certain signs of recovery since 2012. This work analyses the environmental impacts of current fleet operations and its likely trend. The fleet was divided into coherent segments, per holding capacity and engine power. The validity of both segmentations, as well as the presence of an effect of economies of scale driving fuel use intensity (FUI), was tested. Life cycle assessment was used to calculate environmental impacts, per individual sampled vessel and per segment, complemented with indicators of energy efficiency and biotic resource depletion. The fleet is highly fuel-efficient (120 kg fuel per tonne fish) when compared with other reported values, despite a large overcapacity that increases the impact of the construction and maintenance phases. Significant inter-annual FUI variations were observed (80.0 kg t(-1) in 2008 to 210.3 kg t(-1) in 2006), but no clear trend. Neither significant differences in FUI among fleet segments nor a clear effect of economies of scale were found (but FUI analysis was based on a small sample of 32 values for nine vessels, two of which had data for a single year). Only the largest vessels, featuring 242 m(3) holding capacity and 850 hp engine power, were found to have lower FUI than any of the other vessels, but no statistical test could be applied to validate this difference. Differences in environmental impacts of individual vessels are mostly dominated by their relative FUI. Fuel use and, to a lower extent, maintenance are the main sources of environmental impacts. The most contributing impacts to ReCiPe single score are climate change, human toxicity and fossil depletion. The fishery's impacts on the biotic natural resource were orders of magnitude higher than many other global hake stocks, due to overexploitation. The environmental impacts of the national hake fleet are relatively low during the study period, despite an overcapacity of the fleet. With the perspective of expanding its operations and obtaining better yields on the eventuality that the stock fully recovers, these impacts should decrease. More research based on additional FUI data is necessary to effectively compare the performance of these vessels with larger ones (featuring > 180 m(3) and > 500 hp, of which nine existed in 2016) before possibly recommending their preferential use.

Résumé: For the first time in Senegal, assessments based on both stochastic and deterministic production models were used to draw a global diagnosis of the fishing impact on coastal demersal stocks. Based one national fisheries databases and scientific trawl surveys data: (i) trends in landings since 1971 were examined, (ii) abundance indices of 10 stocks were estimated using linear models fitted to surveys data and commercial catch per unit efforts, and (iii) stock assessments were carried out using pseudo-equilibrium Fox and Pella-Tomlinson models and a Biomass dynamic production model fitted in a Bayesian framework to abundance indices. Most stocks have seen their abundance sharply declining over time. All stocks combined, results of stock assessments suggest a 63% reduction compared to virgin state. Three fifth of demersal stocks are overexploited and excess in fishing effort was estimated until 75% for the worst case. We conclude by suggesting that the fishing of such species must be regulated and an ecosystem approach to fisheries management should be implemented in order to monitor the whole ecosystem.

Résumé: Mid-latitude (similar to 30-60 degrees) seasonally stratifying shelf-seas support a high abundance and diversity of marine predators such as marine mammals and seabirds. However, anthropogenic activities and climate change impacts are driving changes in the distributions and population dynamics of these animals, with negative consequences for ecosystem functioning. Across mid-latitude shelf-seas marine mammals and seabirds are known to forage across a number of oceanographic habitats that structure the spatio-temporal distributions of prey fields. Knowledge of these and the bio-physical mechanisms driving such associations are needed to improve marine management and policy. Here, we provide a concise and easily accessible guide for both researchers and managers of marine systems on the predominant oceanographic habitats that are favoured for foraging by marine mammals and seabirds across mid-latitude shelf-seas. We (1) identify and describe key discrete physical features present across the continental shelf, working inshore from the shelf-edge to the shore line, (2) provide an overview of findings relating to associations between these habitats and marine mammals and seabirds, (3) identify areas for future research and (4) discuss the relevance of such information to conservation management. We show that oceanographic features preferentially foraged at by marine mammals and seabirds include shelf edge fronts, upwelling and tidal-mixing fronts, offshore banks and internal waves, regions of stratification, and topographically complex coastal areas subject to strong tidal flow. Whilst associations were variable across taxa and through space and time, in the majority of cases interactions between bathymetry and tidal currents appear to play a dominant role, alongside patterns in seasonal stratification and shelf-edge upwelling. We suggest that the ecological significance of these bio-physical structures stems from a capacity to alter the densities, distributions (both horizontally and vertically) and/or behaviours of prey in a persistent and/or predictable manner that increases accessibility for predators, and likely enhances foraging efficiency. Future conservation management should aim to preserve and protect these habitats. This will require adaptive and holistic strategies that are specifically tailored to the characteristics of an oceanographic feature, and where necessary, evolve through space and time in response to spatio-temporal variability. Improved monitoring of animal movements and biophysical conditions across shelf-seas would aid in this. Areas for future research include multi-disciplinary/ trophic studies of the mechanisms linking bio-physical processes, prey and marine mammals and seabirds (which may elucidate the importance of lesser studied features such as bottom fronts and Langmuir circulation cells), alongside a better understanding of how predators perceive their environment and develop foraging strategies during immature/juvenile stages. Estimates of the importance of oceanographic habitat features at a population level should also be obtained. Such information is vital to ensuring the future health of these complex ecosystems, and can be used to assess how anthropogenic activities and future environmental changes will impact the functioning and spatio-temporal dynamics of these bio-physical features and their use by marine predators.

Résumé: An integrated understanding of both social and ecological aspects of environmental issues is essential to address pressing sustainability challenges. An integrated social-ecological systems perspective is purported to provide a better understanding of the complex relationships between humans and nature. Despite a threefold increase in the amount of social-ecological research published between 2010 and 2015, it is unclear whether these approaches have been truly integrative. We conducted a systematic literature review to investigate the conceptual, methodological, disciplinary, and functional aspects of social-ecological integration. In general, we found that overall integration is still lacking in social-ecological research. Some social variables deemed important for addressing sustainability challenges are underrepresented in social-ecological studies, e.g., culture, politics, and power. Disciplines such as ecology, urban studies, and geography are better integrated than others, e.g., sociology, biology, and public administration. In addition to ecology and urban studies, biodiversity conservation plays a key brokerage role in integrating other disciplines into social-ecological research. Studies founded on systems theory have the highest rates of integration. Highly integrative studies combine different types of tools, involve stakeholders at appropriate stages, and tend to deliver practical recommendations. Better social-ecological integration must underpin sustainability science. To achieve this potential, future social-ecological research will require greater attention to the following: the interdisciplinary composition of project teams, strategic stakeholder involvement, application of multiple tools, incorporation of both social and ecological variables, consideration of bidirectional relationships between variables, and identification of implications and articulation of clear policy recommendations.

Résumé: Yellowfin tuna, Thunnus albacares, is one of the most important seafood commodities in the world. Despite its great biological and economic importance, conflicting evidence arises from classical genetic and tagging studies concerning the yellowfin tuna population structure at local and global oceanic scales. Access to more powerful and cost effective genetic tools would represent the first step towards resolving the population structure of yellowfin tuna across its distribution range. Using a panel of 939 neutral Single Nucleotide Polymorphisms (SNPs), and the most comprehensive data set of yellowfin samples available so far, we found genetic differentiation among the Atlantic, Indian and Pacific oceans. The genetic stock structure analysis carried out with 33 outlier SNPs, putatively under selection, identified discrete populations within the Pacific Ocean and, for the first time, also within the Atlantic Ocean. Stock assessment approaches that consider genetic differences at neutral and adaptive genomic loci should be routinely implemented to check the status of the yellowfin tuna, prevent illegal trade, and develop more sustainable management measures.

Résumé: Sea turtle stranding events provide an opportunity to study drivers of mortality, but causes of strandings are poorly understood. A general sea turtle carcass oceanographic drift model was developed to estimate likely mortality locations from coastal sea turtle stranding records. Key model advancements include realistic direct wind forcing on carcasses, temperature driven carcass decomposition and the development of mortality location predictions for individual strandings. We applied this model to 2009-2014 stranding events within the Chesapeake Bay, Virginia. Predicted origin of vessel strike strandings were compared to commercial vessel data, and potential hazardous turtle-vessel interactions were identified in the southeastern Bay and James River. Commercial fishing activity of gear types with known sea turtle interactions were compared to predicted mortality locations for stranded turtles with suggested fisheries-induced mortality. Probable mortality locations for these strandings varied seasonally, with two distinct areas in the southwest and southeast portions of the lower Bay. Spatial overlap was noted between potential mortality locations and gillnet, seine, pot, and pound net fisheries, providing important information for focusing future research on mitigating conflict between sea turtles and human activities. Our ability to quantitatively assess spatial and temporal overlap between sea turtle mortality and human uses of the habitat were hindered by the low resolution of human use datasets, especially those for recreational vessel and commercial fishing gear distributions. This study highlights the importance of addressing these data gaps and provides a meaningful conservation tool that can be applied to stranding data of sea turtles and other marine megafauna worldwide.

Résumé: Marine reserves are viewed as flagship tools to protect exploited species and to contribute to the effective management of coastal fisheries. Yet, the extent to which marine reserves are globally interconnected and able to effectively seed areas, where fisheries are most critical for food and livelihood security is largely unknown. Using a hydrodynamic model of larval dispersal, we predict that most marine reserves are not interconnected by currents and that their potential benefits to fishing areas are presently limited, since countries with high dependency on coastal fisheries receive very little larval supply from marine reserves. This global mismatch could be reversed, however, by placing new marine reserves in areas sufficiently remote to minimize social and economic costs but sufficiently connected through sea currents to seed the most exploited fisheries and endangered ecosystems.

Résumé: Sharks are charismatic predators that play a key role in most marine food webs. Their demonstrated vulnerability to exploitation has recently turned them into flagship species in ocean conservation. Yet, the assessment and monitoring of the distribution and abundance of such mobile species in marine environments remain challenging, often invasive and resource-intensive. Here we pilot a novel, rapid and non-invasive environmental DNA (eDNA) metabarcoding approach specifically targeted to infer shark presence, diversity and eDNA read abundance in tropical habitats. We identified at least 21 shark species, from both Caribbean and Pacific Coral Sea water samples, whose geographical patterns of diversity and read abundance coincide with geographical differences in levels of anthropogenic pressure and conservation effort. We demonstrate that eDNA metabarcoding can be effectively employed to study shark diversity. Further developments in this field have the potential to drastically enhance our ability to assess and monitor elusive oceanic predators, and lead to improved conservation strategies.

Résumé: Ecological indicators are useful tools to analyse and communicate historical changes in ecosystems and plausible future scenarios while evaluating environmental status. Here we introduce a new plug-in to the Ecopath with Ecosim (EwE) food web modelling approach, which is widely used to quantitatively describe aquatic ecosystems. The plug-in (ECOIND) calculates standardized ecological indicators. We describe the primary functionality of ECOIND and provide an example of its application in both static and temporal-spatial dynamic modelling, while we highlight several related features including a new taxonomy input database (species traits) and the ability to analyse input uncertainty on output results. ECOIND adds new capabilities to the widely used EwE food web modelling approach and enables broadening its applications into biodiversity and conservation-based frameworks to contribute to integrated ecosystem analyses. (C) 2016 Elsevier Ltd. All rights reserved.

Résumé: Given the increasingly extensive use of drifting fish aggregation devices (FADs) by the purse-seine fisheries targeting tropical tunas, fishing effort restrictions have been introduced to manage tropical tuna stocks. However, these measures are focused on the protection of juvenile tunas and do not take account of the potential impact on bycatch or associated megafauna (whales and whale sharks). An iterative “fishing-day” Monte Carlo simulation model was developed to investigate the consequences on tropical tunas and bycatch of introducing extensive area 6-month moratoria on FAD activities. The model allowed for variability in a range of plausible values of the parameters characterizing the fishing operations conducted by European purse-seiners in the eastern tropical Atlantic and western Indian Oceans for the period 2005-2014. Monte Carlo simulations, using probabilities based on these fishery data, were carried out for the French and Spanish fishing fleets separately to account for differences in fishing strategies. The models predicted a decrease in FAD sets and an increase in free school sets. As a consequence, the catch of small tuna (<10 kg) decreased while the catch of large tuna (>= 10 kg) increased, leading to an overall increase in tuna catch of 100-200 tons/year/vessel in the Atlantic Ocean, and a decrease of 400-1500 tons/year/vessel in the Indian Ocean. The bycatch decreased in the Indian Ocean, while in the Atlantic Ocean billfishes, turtles and chondrichthyans bycatch increased slightly and other bony fishes decreased. Because fishing practices were modified, whale and whale shark associated sets increased slightly in the Indian Ocean.

Résumé: Despite major advances in our capacity to measure marine larval connectivity (i.e. the pattern of transport of marine larvae from spawning to settlement sites) and the importance of these measurements for ecological and management questions, uncertainty in experimental estimates of marine larval connectivity has been given little attention. We review potential uncertainty sources in empirical larval connectivity studies and develop Bayesian statistical methods for estimating these uncertainties based on standard techniques in the mark-recapture and genetics literature. These methods are implemented in an existing R package for working with connectivity data, ConnMatTools, and applied to a number of published connectivity estimates. We find that the small sample size of collected settlers at destination sites is a dominant source of uncertainty in connectivity estimates in many published results. For example, widths of 95% CIs for relative connectivity, the value of which is necessarily between 0 and 1, exceeded 0.5 for many published connectivity results, complicating using individual results to conclude that marine populations are relatively closed or open. This “small sample size” uncertainty is significant even for studies with near-exhaustive sampling of spawners and settlers. Though largely ignored in the literature, the magnitude of this uncertainty is straightforward to assess. Better accountability of this and other uncertainties is needed in the future so that marine larval connectivity studies can fulfill their promises of providing important ecological insights and informing management questions (e.g. related to marine protected area network design, and stock structure of exploited organisms). In addition to using the statistical methods developed here, future studies should consistently evaluate and report a small number of critical factors, such as the exhaustivity of spawner and settler sampling, and the mating structure of target species in genetic studies.

Résumé: Since the mid-1990s, drifting Fish Aggregating Devices (dFADs), artificial floating objects designed to aggregate fish, have become an important mean by which purse seine fleets catch tropical tunas. Mass deployment of dFADs, as well as the massive use of GPS buoys to track dFADs and natural floating objects, has raised serious concerns for the state of tropical tuna stocks and ecosystem functioning. Here, we combine tracks from a large proportion of the French GPS buoys from the Indian and Atlantic oceans with data from observers aboard French and Spanish purse seiners and French logbook data to estimate the total number of dFADs and GPS buoys used within the main fishing grounds of these two oceans over the period 2007-2013. In the Atlantic Ocean, the total number of dFADs increased from 1175 dFADs active in January 2007 to 8575 dFADs in August 2013. In the Indian Ocean, this number increased from 2250 dFADs in October 2007 to 10 300 dFADs in September 2013. In both oceans, at least a fourfold increase in the number of dFADs was observed over the 7-year study period. Though the relative proportion of natural to artificial floating objects varied over space, with some areas such as the Mozambique Channel and areas adjacent to the mouths of the Niger and Congo rivers being characterized by a relatively high percentage of natural objects, in no region do dFADs represent <50% of the floating objects and the proportion of natural objects has dropped over time as dFAD deployments have increased. Globally, this increased dFAD use represents a major change to the pelagic ecosystem that needs to be closely followed in order to assess its impacts and avoid negative ecosystem consequences.

Résumé: Biodiversity in estuarine ecosystems suffers from the impact of environmental changes and human activities. This mainly involves changes in temperature, salinity, pollution, habitat degradation or loss and fishing activities. The diversity of species communities is traditionally assessed on the basis of their species richness and composition. However, there is growing interest in taking into account complementary components dealing with species differences (e.g. taxonomic relatedness). In spite of their social, ecological and economic importance, the diversity of tropical estuarine fish assemblages has rarely been monitored by means of a multi-component approach under different human pressure and environmental conditions. We analysed the diversity of exploited fish communities (both target and non-target species) sampled during scientific surveys within four estuarine complexes in the state of Pernambuco, Brazil: Itapissuma, Suape, Sirinhaém, and Rio Formoso. A total of 122 species were collected within 34 samples. Overall, diversity indices and species models fitting dominance-evenness profiles mainly revealed differences between assemblages from Itapissuma, being the largest estuary with wide areas of mangrove, and the other estuaries. While assemblages from Itapissuma generally encompassed more species and individuals than the other estuaries, species were more closely related from a taxonomic point of view. In addition, a Double Principal Coordinate Analysis (DPCoA) established a typology of assemblages, useful for management purposes, and linked to particular fish families: it highlighted differences between Itapissuma, Suape, Sirinhaém and Rio Formoso. This method combines matrices of species abundances and differences (here taxonomic distances according to the Linnean classification). It was particularly accurate with a first factorial plane explaining 73% of the total inertia, while only 17% was achieved by a traditional Principal Component Analysis (PCA). Overall, this study provides an assessment of the state of fish assemblage diversity in Pernambuco estuaries where contrasted human and environmental conditions occur. It underscores the accuracy of using a multi-component diversity approach, with a multivariate analysis that is not yet widely used, for monitoring the diversity of estuaries for ecosystem-based fisheries management purposes.

Résumé: Ecological indicators are increasingly used to examine the evolution of natural ecosystems and the impacts of human activities. Assessing their trends to develop comparative analyses is essential. We introduce the analysis of convergence, a novel approach to evaluate the dynamic and trends of ecological indicators and predict their behavior in the long-term. Specifically, we use a non-parametric estimation of Gaussian kernel density functions and transition probability matrix integrated in the R software. We validate the performance of our methodology through a practical application to three different ecological indicators to study whether Mediterranean countries converge towards similar fisheries practices. We focus on how distributions evolve over time for the Marine Trophic Index, the Fishing in Balance Index and the Expansion Factor during 1950–2010. Results show that Mediterranean countries persist in their fishery behaviors throughout the time series, although a tendency towards similar negative effects on the ecosystem is apparent in the long-term. This methodology can be easily reproduced with different indicators and/or ecosystems in order to analyze ecosystem dynamics.

Résumé: The failure to achieve fisheries management objectives has been broadly discussed in international meetings. Measuring the effects of fishery regulations is difficult due to the lack of detailed information. The yellowfin tuna fishery in the eastern Pacific Ocean offers an opportunity to evaluate the fishers' responses to temporal regulations. We used data from observers on-board Mexican purse-seine fleet, which is the main fleet fishing on dolphin-associated tuna schools. In 2002, the Inter-American Tropical Tuna Commission implemented a closed season to reduce fishing effort for this fishery. For the period 1992-2008, we analysed three fishery indicators using generalized estimating equations to evaluate the fishers' response to the closure. We found that purse-seiners decreased their time spent in port, increased their fishing sets, and maintained their proportion of successful fishing sets. Our results highlight the relevance of accounting for the fisher behaviour to understand fisheries dynamics when establishing management regulations.

Résumé: Two stocks of bluefin tuna (Thunnus thynnus) inhabit the north Atlantic; the western and eastern stocks spawn in the Gulf of Mexico and the Mediterranean Sea respectively. Trans-Atlantic movements occur outside spawning time whereas natal homing maintains stock structure. Commercial fisheries may exploit a mixed assemblage of both stocks. The incorporation of mixing rates into stock assessment is precluded by uncertainties surrounding stock discrimination. Otolith shape descriptors were used to characterise western and eastern stocks of Atlantic bluefin tuna in the present study and to estimate stock composition in catches of unknown origin. Otolith shape varied with length and between locations and years. Within a restricted size range (200-297-cm fork length (FL)) the two stocks were distinguished with an accuracy of 83%. Bayesian stock mixture analysis indicated that samples from the east Atlantic and Mediterranean were predominantly of eastern origin. The proportion assigned to the eastern stock showed slight spatial variation; however, overlapping 95% credible intervals indicated no significant difference (200-297 cm FL: central Atlantic, 73-100%; Straits of Gibraltar, 73-100%; Morocco, 50-99%; Portugal 64-100%). Otolith shape could be used in combination with other population markers to improve the accuracy of mixing rate estimates for Atlantic bluefin tuna.

Résumé: We investigate the interactions between anthropogenic climate change, socioeconomic developments and tuna fishery management strategies. For this purpose, we use the APECOSM-E model to map the effects of climate change and commercial fishing on the distribution of skipjack tuna biomass in the three oceans, combined with a new bioeconomic module representing the rent or profit of skipjack fisheries. For forcing, we use Representative Concentration Pathway (RCP) 8.5, the highest emission scenario for greenhouse gas concentrations presented in the IPCC’s Fifth Assessment Report (AR5), and the IPCC Socioeconomic Shared Pathway (SSP) 3, which is characterized by low economic development and a strong increase in the world population. We first investigate the impact of climate change on regional skipjack abundance, catches and profits in three oceans (Atlantic, Indian and Pacific) in 2010, 2050 and 2095. We then study the effects of three management strategies (maximum sustainable yield or MSY, maximum economic yield or MEY, and zero rent or ZR) on the future distribution of fishing fleets between oceans and on global economic rent. Our model projections for 2050 and 2095 show an increase in global skipjack biomass compared to 2010 and major changes in its distribution, impacting local and regional fishing efforts. The Pacific Ocean will continue to dominate the skipjack market. In our modeling of management strategies, the currently predominant MSY strategy would have been unprofitable in 2010, due to a decreased catch per unit effort (CPUE). In the future, however, technological developments should increase fishing efficiency and make MSY profitable. In all the scenarios, a MEY strategy is more profitable than MSY but leads to the lowest catches and the highest prices. This raises ethical questions in a world where food security may become a top priority. In the scenarios where MSY generates an economic loss (e.g. 2010), a ZR strategy allows global stocks to be exploited at high but still profitable levels. Conversely, in the scenarios where MSY is profitable, (e.g. 2095) ZR leads to overfishing and smaller global catches. We conclude that the most appropriate management strategy at any time is likely to change as environmental and socioeconomic conditions evolve. The decision to follow one or other strategy is a complex one that must be regularly reviewed and updated.

Résumé: The Biguglia lagoon is a shallow Mediterranean coastal ecosystem where eutrophication is increasing for years. A channel supplying freshwater was cleared in 2009 to enhance lagoon water circulation and alleviate dystrophic crises. Monthly monitoring was started in 2010 to document the impacts of this action on abiotic characteristics and phytoplankton communities. Three stations were surveyed (by microscopy and HPLC). Evidence suggests that this operation had an unexpected outcome. Salinity footprints indicated the succession of three main hydrological sequences that depended on rainfall and circulation pattern. Diatoms and dinoflagellates dominated the first sequence, characterized by heavy rainfall, while Prorocentrum minimum became progressively the dominant species in the second period (increasing salinities) with extensive bloom over the whole lagoon (5.93 × 10-5 cells·L− 1) during the third period. These phytoplankton successions and community structures underline the risk of pernicious effects arising from remediation efforts, in the present case based on increasing freshwater inputs.

Résumé: AimBiological invasions are major contributors to global change and native biodiversity decline. However, they are overlooked in marine conservation plans. Here, we examine for the first time the extent to which marine conservation planning research has addressed (or ignored) biological invasions. Furthermore, we explore the change of spatial priorities in conservation plans when different approaches are used to incorporate the presence and impacts of invasive species. LocationGlobal analysis with a focus on the Mediterranean Sea region. MethodsWe conducted a systematic literature review consisting of three steps: (1) article selection using a search engine, (2) abstract screening and (3) review of pertinent articles, which were identified in the second step. The information extracted included the scale and geographical location of each case study as well as the approach followed regarding invasive species. We also applied the software Marxan to produce and compare conservation plans for the Mediterranean Sea that either protect, or avoid areas impacted by invasives, or ignore the issue. One case study focused on the protection of critical habitats, and the other on endemic fish species. ResultsWe found that of 119 papers on marine spatial plans in specific biogeographic regions, only three (2.5%) explicitly took into account invasive species. When comparing the different conservation plans for each case study, we found that the majority of selected sites for protection (ca. 80%) changed in the critical habitat case study, while this proportion was lower but substantial (27%) in the endemic fish species case study. Main conclusionsBiological invasions are being widely disregarded when planning for conservation in the marine environment across local to global scales. More explicit consideration of biological invasions can significantly alter spatial conservation priorities. Future conservation plans should explicitly account for biological invasions to optimize the selection of marine protected areas.

Résumé: End-to-end ecosystem modeling platforms, including OSMOSE, are key tools for informing ecosystem-based fisheries management (EBFM). End-to-end models ideally implement two-way interactions between model components, yet two-way interactions between high trophic level (HTL) functional groups and humans (fisheries managers and fishers) are currently missing in OSMOSE. We developed a management strategy evaluation (MSE) framework for OSMOSE, which allows for feedback between HTL functional groups and fisheries managers. This framework couples OSMOSE to a management procedure integrating decision rules and accounting for scientific uncertainty and the acceptable risk of overfishing. We applied the MSE framework to the OSMOSE model of the West Florida Shelf, so as to conduct an evaluation of total allowable catch (TAC) strategies for red grouper (Epinephelus morio) in a context of episodic events of natural mortality. Our simulations indicate that TAC strategies that assume higher scientific uncertainty and/or lower acceptable risk of overfishing result in higher biomass-related metrics for red grouper. However, the levels of scientific uncertainty and acceptable risk of overfishing impose a trade-off between biomass-related and catch-related metrics for red grouper. Our simulations also indicate that updating red grouper TAC more frequently in a context of episodic events of natural mortality does not have a large impact on biomass-related and catch-related metrics for red grouper and other functional groups. The MSE we conducted for red grouper is strategic, and its outcomes, which were obtained under a specific set of assumptions, must be considered preliminary. We discuss how future research could help enhance understanding of the possible impacts of TAC strategies for red grouper. The MSE framework designed for OSMOSE links the dynamics of HTL functional groups to that of fisheries managers, thereby allowing OSMOSE to be better suited for informing EBFM. This framework is an invaluable asset in assessing the performance of fisheries management strategies, but could also be used for other purposes, such as the evaluation of research monitoring programs.

Résumé: Ecopath with Ecosim (EwE) models are easier to construct and use compared to most other ecosystem modelling techniques and are therefore more widely used by more scientists and managers. This, however, creates a problem with quality assurance; to address this we provide an overview of best practices for creating Ecopath, models. We describe the diagnostics that can be used to check for thermodynamic and ecological principles, and highlight principles that should be used for balancing a model. We then highlight the pitfalls when comparing Ecopath models using Ecological Network Analysis indices. For dynamic simulations in Ecosim we show the state of the art in calibrating the model by fitting it to time series using a formal fitting procedure and statistical goodness of fit. Finally, we show how Monte Carlo simulations can be used to address uncertainty in input parameters, and we discuss the use of models in a management context, specifically using the concept of 'key runs' for ecosystem-based management. This novel list of best practices for EwE models will enable ecosystem managers to evaluate the goodness of fit of the given EwE model to the ecosystem management question. (C) 2016 The Authors. Published by Elsevier B.V.

Résumé: Chemical monitoring revealed a regular decrease in herbicide concentration in Lake Geneva since last decades that may be linked to an ecotoxic restoration of nontarget phytoplanktonic communities. The Pollution-induced community tolerance (PICT) approach was tested as a tool to monitor the ecotoxic restoration of Lake Geneva for herbicides from 1999 to 2011. We conducted monthly assessments in 1999 and in 2011 for the tolerance of the phytoplankton communities to two herbicides (atrazine and copper), using PICT bioassays. The taxonomical composition of the communities was determined on the same collecting dates. The herbicide concentration decrease during the 12 years significantly influenced the composition of communities. The PICT monitoring indicated that a significant tolerance decrease in the community to both herbicides accompanied the herbicide concentration decrease. PICT measurements for atrazine and copper also changed at the intra-annual level. These variations were mainly due to community composition shifts linked to seasonal phosphorus and temperature changes. PICT monitoring on a seasonal basis is required to monitor the mean tolerance of communities. PICT appeared to be a powerful tool that reflected the toxic effects on environmental communities and to monitor ecotoxic ecosystem restoration.

Résumé: Although coral reefs support the largest concentrations of marine biodiversity worldwide, the extent to which the global system of marine-protected areas (MPAs) represents individual species and the breadth of evolutionary history across the Tree of Life has never been quantified. Here we show that only 5.7% of scleractinian coral species and 21.7% of labrid fish species reach the minimum protection target of 10% of their geographic ranges within MPAs. We also estimate that the current global MPA system secures only 1.7% of the Tree of Life for corals, and 17.6% for fishes. Regionally, the Atlantic and Eastern Pacific show the greatest deficit of protection for corals while for fishes this deficit is located primarily in the Western Indian Ocean and in the Central Pacific. Our results call for a global coordinated expansion of current conservation efforts to fully secure the Tree of Life on coral reefs.

Résumé: Managing ecological systems, which operate over large spatial scales, is inherently difficult and often requires sourcing data from different countries and organizations. The assumption might be made that data collected using similar methodologies are comparable, but this is rarely tested. Here, benthic video data recorded using different towed underwater video systems (TUVSs) were experimentally compared. Three technically different TUVSs were compared on different seabed types (rocky, mixed ground and sandy) in Kingmere Marine Conservation Zone, off the south coast of England. For each TUVS, species metrics (forward facing camera), seabed impact (backward facing camera) and operational performance (strengths and limitations of equipment and video footage) were compared with the aim of providing recommendations on their future use and comparability of data between different systems. Statistically significant differences between species richness, density, cover and assemblage composition were detected amongst devices and were believed to be mostly due to their optical specifications. As a result of their high image definition and large field of vision both the benthic contacting heavy and benthic tending TUVS provided good quality footage and ecological measurements. However, the heaviest TUVS proved difficult to operate on irregular ground and was found to cause the most impact to the seabed. The lightest TUVS (benthic contacting light) struggled to maintain contact with the seabed. The benthic tending TUVS was able to fly over variable seabed relief and was comparably the least destructive. Results from this study highlight that particular care should be given to sled and optic specifications when developing a medium- or long-term marine protected area monitoring programme. Furthermore, when using data gathered from multiple sources to test ecological questions, different equipment specifications may confound observed ecological differences. A benthic tending TUVS is recommended for benthic surveys over variable habitat types, particularly in sensitive areas, such as marine protected areas.

Résumé: Thirty years of progress using the Ecopath with Ecosim (EwE) approach in different fields such as ecosystem impacts of fishing and climate change, emergent ecosystem dynamics, ecosystem-based management, and marine conservation and spatial planning were showcased November 2014 at the conference “Ecopath 30 years-modelling dynamic ecosystems: beyond boundaries with EwE”. Exciting new developments include temporal-spatial and end-to-end modelling, as well as novel applications to environmental impact analyses, in both aquatic and terrestrial domains. A wide range of plug-ins have been added to extend the diagnostic capabilities of EwE, and the scientific community is applying EwE to a diversified range of topics besides fishing impact assessments, such as the development of scientific advice for management, the analysis of conservation issues, and the evaluation of cumulative impacts of environmental and human activities in marine food webs (including habitat modification and the invasion of alien species). Especially promising is the new potential to include the EwE model in integrated assessments with other models such as those related to climate change research. However, there are still many challenges, including the communication of scientific results in management procedures. In addition, other important scientific issues are how to improve model result validation and perform model quality control. During the conference, the Ecopath International Research and Development Consortium was presented as a way for the EwE user community to become involved in the long-term sustainability of the EwE approach. Overall, exciting times are facing the ecosystem modelling scientific community, and as illustrated by the conference: synergistic cooperation is the future path for the EwE approach.

Résumé: Effective ecosystem-based management requires understanding ecosystem responses to multiple human threats, rather than focusing on single threats. To understand ecosystem responses to anthropogenic threats holistically, it is necessary to know how threats affect different components within ecosystems and ultimately alter ecosystem functioning. We used a case study of a Mediterranean seagrass (Posidonia oceanica) food web and expert knowledge elicitation in an application of the initial steps of a framework for assessment of cumulative human impacts on food webs. We produced a conceptual seagrass food web model, determined the main trophic relationships, identified the main threats to the food web components, and assessed the components’ vulnerability to those threats. Some threats had high (e.g., coastal infrastructure) or low impacts (e.g., agricultural runoff) on all food web components, whereas others (e.g., introduced carnivores) had very different impacts on each component. Partitioning the ecosystem into its components enabled us to identify threats previously overlooked and to reevaluate the importance of threats commonly perceived as major. By incorporating this understanding of system vulnerability with data on changes in the state of each threat (e.g., decreasing domestic pollution and increasing fishing) into a food web model, managers may be better able to estimate and predict cumulative human impacts on ecosystems and to prioritize conservation actions.

Résumé: Diversity in the by-catch communities from the pelagic ecosystem in the tropical tuna purse seine fishery has been poorly studied. This study uses different biodiversity measures to compare drifting fish aggregating devices (FADs) and Free School sets (sets made on schools of tuna) of the Western Indian Ocean. Data was collected from observer programs carried out by the European Union between 2003 and 2010 on board Spanish and French fleets. Alpha (species diversity of a particular area) and Beta diversity (difference in species composition between different areas) was analyzed to assess differences in the number of species, abundances and the species composition between areas and fishing modes. Generalized additive models were undertaken to explore which geographical/environmental variables explain the distribution of species richness index and Shannon diversity index in both fishing modes. Results showed that by-catch species in FAD communities may be used as observatories of surface pelagic biodiversity in combination with Free School communities. FAD communities were more diverse with higher number of species (74 species) and evenly distributed than Free School communities (56 species). However, environmental variables played a more important role in Free School communities. Somalia area and Mozambique Channel were the areas with highest biodiversity rates in both fishing modes. This work contributed for the future implementation of the EAFM to manage the pelagic ecosystem in a holistic and more integrated way.

Résumé: Sediments from Bizerta lagoon were used in an experimental microcosm setup involving three scenarios for the bioremediation of anthracene-polluted sediments, namely bioaugmentation, biostimulation, and a combination of both bioaugmentation and biostimulation. In order to investigate the effect of the biotreatments on the benthic biosphere, 16S rRNA gene-based T-RFLP bacterial community structure and the abundance and diversity of the meiofauna were determined throughout the experiment period. Addition of fresh anthracene drastically reduced the benthic bacterial and meiofaunal abundances. The treatment combining biostimulation and bioaugmentation was most efficient in eliminating anthracene, resulting in a less toxic sedimentary environment, which restored meiofaunal abundance and diversity. Furthermore, canonical correspondence analysis showed that the biostimulation treatment promoted a bacterial community favorable to the development of nematodes while the treatment combining biostimulation and bioaugmentation resulted in a bacterial community that advantaged the development of the other meiofauna taxa (copepods, oligochaetes, polychaetes, and other) restoring thus the meiofaunal structure. The results highlight the importance to take into account the bacteria/meiofauna interactions during the implementation of bioremediation treatment.

Résumé: Why are marine species where they are? The scientific community is faced with an urgent need to understand aquatic ecosystem dynamics in the context of global change. This requires development of scientific tools with the capability to predict how biodiversity, natural resources, and ecosystem services will change in response to stressors such as climate change and further expansion of fishing. Species distribution models and ecosystem models are two methodologies that are being developed to further this understanding. To date, these methodologies offer limited capabilities to work jointly to produce integrated assessments that take both food web dynamics and spatial-temporal environmental variability into account. We here present a new habitat capacity model as an implementation of the spatial-temporal model Ecospace of the Ecopath with Ecosim approach. The new model offers the ability to drive foraging capacity of species from the cumulative impacts of multiple physical, oceanographic, and environmental factors such as depth, bottom type, temperature, salinity, oxygen concentrations, and so on. We use a simulation modeling procedure to evaluate sampling characteristics of the new habitat capacity model. This development bridges the gap between envelope environmental models and classic ecosystem food web models, progressing toward the ability to predict changes in marine ecosystems under scenarios of global change and explicitly taking food web direct and indirect interactions into account.

Résumé: Effective use of spatial management in the pelagic realm presents special challenges due to high fish and fisher mobility, limited knowledge and significant governance challenges. The tropical Indian Ocean provides an ideal case study for testing our ability to apply existing data sources to assessing impacts of spatial management on tuna fisheries because of several recent controversial spatial closures. We review the scientific underpinnings of pelagic MPA effects, spatio-temporal patterns of Indian Ocean tuna catch, by catch and fish movements, and the consequences of these for the efficacy of spatial management for Indian Ocean tropical tuna fisheries. The tropical Indian Ocean is characterized by strong environmental fluctuations, regular seasonal variability in catch, large observed tuna displacement distances, relatively uniform catch-per-unit-effort and bycatch rates over space, and high fisher mobility, all of which suggest significant variability and movement in tropical tuna fisheries that are simply not well adapted to static spatial closures. One possible exception to this overall conclusion would be a large time/area closure east of Somalia. If closed for a significant fraction of the year it could reduce purse-seine bycatch and juvenile tuna catch. Dynamic closures following fish migratory patterns are possible, but more focused information on fish movements will be needed for effective implementation. Fortunately, several recent improvements in conventional fishery management and reporting will likely enhance our ability to evaluate spatial and non-spatial management options in the near future, particularly as pertaining to bycatch species.

Résumé: The current onshore aquaculture trend is to develop large scale production of diversified fingerlings and very large units for fish ongrowing. This requires an industrial type of approach including quality assurance and minimization of failures in addition to management of bio-technical and economic aspects. Therefore, all the key biological mechanisms involved in Recirculating Aquaculture Systems (RAS) need to be better understood, especially those determining the development of bacterial populations and their interactions with fish. This review presents new knowledge on bacterial community compositions in various parts of RAS and on bacterial-fish interactions in RAS, which constitute essential tools for system management. (C) 2012 Elsevier B.V. All rights reserved.

Résumé: Ensuring the sustainability of fish resources necessitates understanding their interaction with coastal habitats, which is becoming ever more challenging in the context of ever increasing anthropogenic pressures. The ability of coastal lagoons, exposed to major sources of disturbance, to provide resources and suitable habitats for growth and survival of juvenile fish is especially important. We analysed three lagoons with different ecological statuses and habitat quality on the basis of their eutrophication and ecotoxicity (Trix test) levels. Fish abundances were sampled using fishing and horizontal beaming acoustic surveys with the same protocols in the same year. The relative abundance of Anguilla anguilla, Dicentrarchus labrax or the Mugilidae group was not an indicator of habitat quality, whereas Atherina boyeri and Sparus aurata appeared to be more sensitive to habitat quality. Fish abundance was higher in the two lagoons with high eutrophication and ecotoxicity levels than in the less impacted lagoon, while fish sizes were significantly higher in the two most severely impacted lagoons. This leads us to suggest low habitat quality may increase fish growth rate (by the mean of a cascading effect), but may reduce lagoon juvenile abundance by increasing larval mortality. Such a hypothesis needs to be further validated using greater investigations which take into account more influences on fish growth and recruitment in such variable environments under complex multi-stressor conditions. (C) 2013 Elsevier Ltd. All rights reserved.

Résumé: In Senegal, a significant decrease in catches indicates that many demersal fish stocks are being overexploited. The white grouper Epinephelus aeneus, locally known as the 'thiof', is exploited by both small-scale and industrial fisheries. A 28-year database of E. aeneus catches along the Senegalese coast provided by the Centre for Oceanographic Research of Dakar-Thiaroye, and size at maturity measured in Dakar (Senegal) from monthly samples in 2010, were used to analyse changes in population structure in the area over the past 37 years. Catches from the northern fishing areas were lower than those from the southern fishing areas, and decreased steadily during the period (Kolmogorov-Smirnov test, D = 0.243, p = 0.0002). The individual mean weight of catches decreased from 1974 to 2010 (linear regression, r(2) = 0.40, n = 37) and only 60% of the individuals were mature. The calculated sizes at maturity were 49 cm total length (TL) for females and 55 cm for males, and the optimal length of capture for a sustainable fishery was 96 cm, but only 0.03% of E. aeneus caught reached this length. Most of the catch consisted of juveniles; the larger reproductive individuals had disappeared. The number of individuals caught decreased significantly between 1974 and 2010 (1974-1983, r(2) = 0.98, n = 74 674; 1984-1993, r(2) = 0.95, n = 96 696; 1994-2003, r(2) = 0.93, n = 12 619; 2004-2010, r(2) = 0.91, n = 12 887), whereas the length range remained the same (10-110 cm TL). Biological indicators clearly showed that E. aeneus stocks in Senegal are overexploited and the species is now endangered. Immediate active management of fishing pressure is needed, therefore, to maintain E. aeneus populations in the area. Our results suggest a minimum size of <50 cm should be introduced and that fishing effort should be reduced.

Résumé: Long-term demographic studies show that seabird populations may suffer from competition with fisheries. Understanding this process is critical for the implementation of an ecosystem approach to fisheries management (EAF). Existing studies rely mostly on indirect clues: overlaps between seabird foraging and fishing areas, comparing fish catches by seabirds and vessels. The study is based on a GPS tracking experiment performed in 2007 on one of the main guano-producing seabird species, the Peruvian booby, breeding on an island near the major port for anchovy landings in Peru. The fishery, which is entirely monitored by a Vessel Monitoring System, opened the day we began the tracking experiment, providing a unique opportunity to examine the day-to-day effects of an intense fishing activity on seabird foraging behaviour. We observed a significant increase in the range of the daily trips and distances of the dives by birds from the colony. This increase was significantly related to the concomitant fishing activity. Seabirds progressively became more segregated in space from the vessels. Their increased foraging effort was significantly related to the growing quantity of anchovy removals by the fishery. In addition, daily removals by the fishery were at least 100 times greater than the daily anchovy requirement of the seabird colonies. We conclude that seabirds needed to forage farther to cope with the regional prey depletion created by the intensive fishing behaviour of this open access fishery. Synthesis and applications. We show that the foraging efficiency of breeding seabirds may be significantly affected by not only the global quantity, but also the temporal and spatial patterns of fishery removals. Together with an ecosystem-based definition of the fishery quota, an EAF should limit the risk of local depletion around breeding colonies using, for instance, adaptive marine protected areas.

Résumé: Modern fisheries research and management must understand and take account of the interactions between climate and fishing, rather than try to disentangle their effects and address each separately. These interactions are significant drivers of change in exploited marine systems and have ramifications for ecosystems and those who depend on the services they provide. We discuss how fishing and climate forcing interact on individual fish, marine populations, marine communities, and ecosystems to bring these levels into states that are more sensitive to (i.e. more strongly related with) climate forcing. Fishing is unlikely to alter the sensitivities of individual finfish and invertebrates to climate forcing. It will remove individuals with specific characteristics from the gene pool, thereby affecting structure and function at higher levels of organisation. Fishing leads to a loss of older age classes, spatial contraction, loss of sub-units, and alteration of life history traits in populations, making them more sensitive to climate variability at interannual to interdecadal scales. Fishing reduces the mean size of individuals and mean trophic level of communities, decreasing their turnover time leading them to track environmental variability more closely. Marine ecosystems under intense exploitation evolve towards stronger bottom-up control and greater sensitivity to climate forcing. Because climate change occurs slowly, its effects are not likely to have immediate impacts on marine systems but will be manifest as the accumulation of the interactions between fishing and climate variability – unless threshold limits are exceeded. Marine resource managers need to develop approaches which maintain the resilience of individuals, populations, communities and ecosystems to the combined and interacting effects of climate and fishing. Overall, a less-heavily fished marine system, and one which shifts the focus from individual species to functional groups and fish communities, is likely to provide more stable catches with climate variability and change than would a heavily fished system. Crown Copyright (C) 2009 Published by Elsevier B.V. All rights reserved.

Résumé: Coastal and island states of the Western Indian Ocean lack scientific and management capacity to draw sustainable benefits from their Exclusive Economic Zones. Declining ecosystem services and unregulated fishing has prompted nine riparian countries to develop a regional framework for capacity building and scientific development towards collective management of shared resources. Supported by the Global Environment Facility (GEF), the Agulhas and Somali Currents large marine ecosystems programme consists of three inter-related modules, supported by different agencies: land-based impacts on the marine environment (UNEP); productivity, ecosystem health and nearshore fisheries (UNDP) and transboundary shared and migrating fisheries resources (World Bank). The latter is the South Western Indian Ocean Fisheries Project (SWIOFP), a 5-year joint data gathering and fisheries assessment initiative. SWIOFP is a prelude to long-term cooperative fisheries management in partnership with the newly established FAO–South Western Indian Ocean Fisheries Commission (SWIOFC). We describe the development of SWIOFP as a model of participatory regional scientific cooperation and collective ocean management.
© 2009 Elsevier Ltd. All rights reserved.