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: 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: 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. (C) 2017 Elsevier Ltd. All rights reserved.

Résumé: Moored fish aggregating devices (MFADs) are increasingly being used in small-scale tropical fisheries to access pelagic fish species that are otherwise difficult to harvest in large numbers. Little attention has yet been paid to monitoring MFADs in coastal areas, however. This is most likely due to the small-scale nature of most fisheries that utilize them and the presumed lower impact of those fisheries on fish stocks and their ecosystems. In this paper, we examined the abundance and density of MFADs around Guadeloupe, using aerial line transect surveys. Estimated MFAD densities were found to be high compared with previously reported densities in this area, especially within the 22-45 km range offshore. We examine and discuss possible reasons for these high densities. The main drivers appear to be the target species dolphinfish (Coryphaena hippurus) and yellowfin tuna (Thunnus albacares) and related fishing behaviour. We present different approaches for reducing and monitoring MFADs densities, including the co-management of MFAD territorial use rights by fishing communities. (C) 2016 Elsevier B.V. All rights reserved.

Résumé: Productivity and Susceptibility Analysis (PSA) is a methodology for evaluating the vulnerability of a stock based on its biological productivity and susceptibility to fishing. In this study, we evaluated the vulnerability of 60 stocks of tuna, billfishes and other teleosts caught by the tuna longline fleets operating in the South Atlantic and Indian Ocean using a semi-quantitative PSA. We (a) evaluated the vulnerability of the species in the study areas; (b) compared the vulnerability of target and non-target species and oceans; (c) analyzed the sensitivity of data entry; and (d) compared the results of the PSA to other fully quantitative assessment methods. Istiophoridae exhibited the highest scores for vulnerability. The top 10 species at risk were: Atlantic Istiophorus albicans; Indian Ocean Istiompax indica; Atlantic Makaira nigricans and Thunnus alalunga; Indian Ocean Xiphias gladius; Atlantic T. albacares, Gempylus serpens, Ranzania laevis and X. gladius; and Indian Ocean T. alalunga. All species considered at high risk were targeted or were commercialized bycatch, except for the Atlantic G. serpens and R. laevis which.were discarded, and may be considered as a false positive. Those species and others at high risk should be prioritized for further assessment and/or data collection. Most species at moderate risk were bycatch species kept for sale. Conversely, species classified at low risk were mostly discarded. Overall, species at high risk were overfished and/or subjected to overfishing. Moreover, all species considered to be within extinction risk (Critically Endangered, Endangered and Vulnerable) were in the high risk category. The good concordance between approaches corroborates the results of our analysis. PSA is not a replacement for traditional stock assessments, where a stock is assessed at regular intervals to provide management advice. It is of importance, however, where there is uncertainty about catches and life history parameters, since it can identify species at risk, and where management action and data collection is required, e.g. for many species at high and most at moderate risk in the South Atlantic and Indian oceans.

Résumé: There is an urgent need for developing policy-relevant future scenarios of biodiversity and ecosystem services. This paper is a milestone toward this aim focusing on open ocean fisheries. We develop five contrasting Oceanic System Pathways (OSPs), based on the existing five archetypal worlds of Shared Socioeconomic Pathways (SSPs) developed for climate change research (e.g., Nakicenovic et al., 2014 and Riahi et al., 2016). First, we specify the boundaries of the oceanic social-ecological system under focus. Second, the two major driving forces of oceanic social-ecological systems are identified in each of three domains, viz., economy, management and governance. For each OSP (OSP1 “sustainability first”, OSP2 “conventional trends”, OSP3 “dislocation”, OSP4 “global elite and inequality”, OSP5 “high tech and market”), a storyline is outlined describing the evolution of the driving forces with the corresponding SSP. Finally, we compare the different pathways of oceanic social-ecological systems by projecting them in the two-dimensional spaces defined by the driving forces, in each of the economy, management and governance domains. We expect that the OSPs will serve as a common basis for future model-based scenario studies in the context of the Intergovernmental Panel on Climate Change (IPCC) and the Intergovernmental Platform on Biodiversity and Ecosystem Services (IPBES).

Résumé: Trophic models are key tools to go beyond the single-species approaches used in stock assessments to adopt a more holistic view and implement the Ecosystem Approach to Fisheries Management (EAFM). This study aims to: (i) analyse the trophic functioning of the Celtic Sea and the Bay of Biscay, (ii) investigate ecosystem changes over the 1980–2013 period and, (iii) explore the response to management measures at the food web scale. Ecopath models were built for each ecosystem for years 1980 and 2013, and Ecosim models were fitted to time series data of biomass and catches. EcoTroph diagnosis showed that in both ecosystems, fishing pressure focuses on high trophic levels (TLs) and, to a lesser extent, on intermediate TLs. However, the interplay between local environmental conditions, species composition and ecosystem functioning could explain the different responses to fisheries management observed between these two contiguous ecosystems. Indeed, over the study period, the ecosystem's exploitation status has improved in the Bay of Biscay but not in the Celtic Sea. This improvement does not seem to be sufficient to achieve the objectives of an EAFM, as high trophic levels were still overexploited in 2013 and simulations conducted with Ecosim in the Bay of Biscay indicate that at current fishing effort the biomass will not be rebuilt by 2030. The ecosystem's response to a reduction in fishing mortality depends on which trophic levels receive protection. Reducing fishing mortality on pelagic fish, instead of on demersal fish, appears more efficient at maximising catch and total biomass and at conserving both top-predator and intermediate TLs. Such advice-oriented trophic models should be used on a regular basis to monitor the health status of marine food webs and analyse the trade-offs between multiple objectives in an ecosystem-based fisheries management context.

Résumé: Commercial tunas and billfishes (swordfish, marlins and sailfish) provide considerable catches and income in both developed and developing countries. These stocks vary in status from lightly exploited to rebuilding to severely depleted. Previous studies suggested that this variability could result from differences in life-history characteristics and economic incentives, but differences in exploitation histories and management measures also have a strong effect on current stock status. Although the status (biomass and fishing mortality rate) of major tuna and billfish stocks is well documented, the effect of these diverse factors on current stock status and the effect of management measures in rebuilding stocks have not been analysed at the global level. Here, we show that, particularly for tunas, stocks were more depleted if they had high commercial value, were long-lived species, had small pre-fishing biomass and were subject to intense fishing pressure for a long time. In addition, implementing and enforcing total allowable catches (TACs) had the strongest positive influence on rebuilding overfished tuna and billfish stocks. Other control rules such as minimum size regulations or seasonal closures were also important in reducing fishing pressure, but stocks under TAC implementations showed the fastest increase of biomass. Lessons learned from this study can be applied in managing large industrial fisheries around the world. In particular, tuna regional fisheries management organizations should consider the relative effectiveness of management measures observed in this study for rebuilding depleted large pelagic stocks.

Résumé: Variable and low egg quality is a major limiting factor for the development of efficient aquaculture production. This stems from limited knowledge on the mechanisms underlying egg quality in cultured fish. Molecular analyses, such as transcriptomic studies, are valuable tools to identify the most important processes modulating egg quality. However, very few studies have been devoted to this aspect so far. Within this study, the microarray-based transcriptomic analysis of eggs (of different quality) of sea bass (Dicentrarchus labrax) was performed. An Agilent oligo microarray experiment was performed on labelled mRNA extracted from 16 batches of eggs (each batch obtained from a different female) of sea bass, in which over 24,000 published probe arrays were used. We identified 39 differentially expressed genes exhibiting a differential expression between the groups of low (fertilization rate < 60 %) and high (fertilization rate > 60 %) quality. The mRNA levels of eight genes were further analyzed by quantitative PCR. Seven genes were confirmed by qPCR to be differentially expressed in eggs of low and high quality. This study confirmed the importance of some of the genes already reported to be potential molecular quality indicators (mainly rnf213 and irf7), but we also found new genes (mainly usp5, mem-prot, plec, cenpf), which had not yet been reported to be quality-dependent in fish. These results suggest the importance of genes involved in several important processes, such as protein ubiquitination, translation, DNA repair, and cell structure and architecture; these probably being the mechanisms that contribute to egg developmental competence in sea bass.

Résumé: In this introductory paper we highlight key questions that were discussed during the symposium on “Status, functioning and shifts in marine ecosystems” organized by the Association Francaise d'Halieutique (French Association for Fisheries Sciences, Montpellier, France, July 2015). This symposium illustrated that fisheries science is now working at multiple scales and on all dimensions of socio-ecosystems (ecological, political, sociological, and economic), with a great diversity of approaches and taking into account different levels of complexity while acknowledging diverse sources of uncertainty. We argue that we should go one step further and call for a protean fisheries science to address the deteriorated states of aquatic ecosystems caused by anthropogenic pressures. Protean science is constantly evolving to meet emerging issues, while improving its coherence and integration capacity in its complexity. This science must be nourished by multiple approaches and be capable of addressing all organizational scales, from individual fish or fishermen up to the entire ecosystem, include society, its economy and the services it derives from aquatic systems. Such a protean science is required to address the complexity of ecosystem functioning and of the impacts of anthropogenic pressures.

Résumé: Time-area regulations have been introduced to manage stocks of tropical tuna, given the increased use of drifting fish aggregation devices (FADs). However, the consequences in terms of changes in fishing strategies and effort reallocation may not always be as expected. For instance, in the eastern Pacific Ocean, previous studies have highlighted that the increase use of FAD-fishing following the demand for tuna caught without dolphin mortality has raised concerns about the bycatch and the capture of juvenile tuna. In the tropical eastern Atlantic and western Indian Oceans, this study aimed to (1) assess, using before-after analysis, the consequences of previous time-area regulations on FAD sets on the fishing effort allocated to megafauna associated sets, and (2) evaluate through Monte Carlo simulations the potential effect of new regulations banning whale or/and whale shark associated sets. Firstly, we showed that previous time-area regulations, which were mainly implemented during seasons with few whale and whale shark associated sets, generally had thus little effect on the number of megafauna associated sets. Secondly, some simulations, particularly when both whale and whale shark associated sets were banned, predicted consequences of changes in fishing strategy. Indeed, these types of ban could lead to an increase in the number of FAD and free school sets but no change in the tuna catch, as well as a slight decrease in bycatch. These results indicate that an ecosystem approach to fisheries, by taking into account megafauna associated sets and bycatch, should thus be adopted when implementing management or conservation measures.

Résumé: Stock-based and ecosystem-based indicators are used to provide a new diagnosis of the fishing impact and environmental status of European seas. In the seven European marine ecosystems covering the Baltic and the North-east Atlantic, (i) trends in landings since 1950 were examined; (ii) syntheses of the status and trends in fish stocks were consolidated at the ecosystem level; and (iii) trends in ecosystem indicators based on landings and surveys were analysed. We show that yields began to decrease everywhere (except in the Baltic) from the mid-1970s, as a result of the over-exploitation of some major stocks. Fishermen adapted by increasing fishing effort and exploiting a wider part of the ecosystems. This was insufficient to compensate for the decrease in abundance of many stocks, and total landings have halved over the last 30 years. The highest fishing impact took place in the late 1990s, with a clear decrease in stock-based and ecosystem indicators. In particular, trophic-based indicators exhibited a continuous decreasing trend in almost all ecosystems. Over the past decade, a decrease in fishing pressure has been observed, the mean fishing mortality rate of assessed stocks being almost halved in all the considered ecosystems, but no clear recovery in the biomass and ecosystem indicators is yet apparent. In addition, the mean recruitment index was shown to decrease by around 50% in all ecosystems (except the Baltic). We conclude that building this kind of diagnosis is a key step on the path to implementing an ecosystem approach to fisheries management

Résumé: Periodically harvested closures (PHCs) are small fisheries closures with objectives such as sustaining fisheries and conserving biodiversity and have become one of the most common forms of nearshore marine management in the Western Pacific. Although PHCs can provide both short-term conservation and fisheries benefits, their potential as a long-term management strategy remains unclear. Through empirical assessment of a single harvest event in each of five PHCs, we determined whether targeted fishes that differ in their vulnerability to fishing recovered to pre-harvest conditions (the state prior to last harvest) and demonstrated post-harvest recovery benefits after 1 year of re-closure. For low and moderately vulnerable species, two PHCs provided significant pre-harvest benefits and one provided significant post-harvest recovery benefits, suggesting a contribution to longer-term sustainability. PHCs with a combination of high compliance and longer closing times are more likely to provide fisheries benefits and recover from harvest events, however, no benefits were observed across any PHCs for highly vulnerable species. We recommend PHCs have longer closure periods before being harvested and species that are highly vulnerable to fishing (e.g. large species of; grouper, wrasse and parrotfish) are avoided during harvests to avoid overexploitation and increase the sustainability of small-scale fisheries. (C) 2016 Elsevier Ltd. All rights reserved.

Résumé: The regularity of the community size-spectrum, i.e., the fact that the total ecosystem biomass contained in logarithmically equal body size intervals remains constant, is a striking characteristic of marine ecosystems. Community size-spectrum models exploit this feature to represent marine ecosystems with two measures: the slope and the intercept (height) of the community spectrum. Size-spectrum models have gain popularity over time to model the properties of fish communities, whether to investigate the impact of fishing, or embedded into end-to-end models to investigate the impact of climate. We review the main features and state of the art developments in the domain of continuous size-spectrum models. The community spectrum emerges from a balance between size-selective predation, growth and biomass dissipation. Further to these basic components, reproduction and various causes of mortality have been introduced in recent studies to increase the model's realism or simply close the mass budget of the spectrum. These different processes affect the stability of the spectrum and affect the predictions of the size-spectrum models. A few models have also introduced a representation of life-history traits in the community size-spectrum. This allows accounting for the diversity of energy pathways in food webs and for the fact that metabolism is both size- and species-specific. The community-level metabolism therefore depends on the species composition of the community. The size-spectrum's regularity at the community level can serve as a conceptual basis for building theories of marine ecosystems’ functioning. It is also used as indicator of anthropogenic and natural disturbances. The mechanistic nature of size-spectrum models as well as their simple and aggregated representation of complex systems makes them good candidates as a strategic management tool. For instance, for testing the impact of different fishing management actions or for projecting marine ecosystem's states under various climate change scenarios.

Résumé: The three countries of the Benguela Current Large Marine Ecosystem (BCLME), namely Angola, Namibia and South Africa, have committed to implementing ecosystem-based management (EBM) including an ecosystem approach to fisheries (EAF) in the region, to put in practice the principles of sustainable development in ocean-related matters. There is also recognition of the need for marine spatial planning (MSP) as a process for informing EBM with regard to the allocation and siting of ocean uses so that ecosystem health is ensured and trade-offs between ecosystem services are appropriately dealt with. Marine spatial planning is both an integrated and an area-based process, and this paper produces a spatial characterisation of the BCLME for achieving a common basis for MSP in the region, focusing on the oceanography, biology and fisheries. Recognising spatial variation in physical driving forces, primary and secondary production, trophic structures and species richness, four different subsystems are characterised: (1) north of the Angola-Benguela Front, (2) from the Angola-Benguela Front to Luderitz, (3) from Luderitz to Cape Agulhas, and (4) from Cape Agulhas to Port Alfred on the south-east coast of South Africa. Research and monitoring requirements of relevance for MSP and EBM in the region are identified, focusing on understanding variability and change, including with regard to the boundary areas identified for the system. To this end, 14 cross-shelf monitoring transects are proposed (including seven that are already being monitored) to estimate fluxes of biota, energy and materials within and between the subsystems. The usefulness of models for understanding ecosystem variability and changes is recognised and the need for fine-scale resolution of both sampling and modelling for adequate MSP as input to EBM for the often-conflicting interests of conserving biodiversity, and managing fisheries, recreation, offshore oil and gas exploration and exploitation, offshore mining and shipping routes, is emphasised.

Résumé: The identification and mitigation of adverse effects of the bycatch of tuna longline fishery have been mainly developed and implemented for seabirds, sharks and turtles and, the knowledge on teleost bycatch for this fishery, remains very poor. This paper contributes to a comprehensive assessment of life history traits and fishery attributes of target and bycatch species caught by the tuna longline fishery in the South Atlantic and Indian Oceans. Data was compiled on seven life history traits and three fishery attributes for 33 and 27 teleost stocks caught by longliners in South Atlantic and Indian Oceans, respectively. In addition, each species was assigned into four categories describing the fate of the catch: target species for commercial use, bycatch species kept for consumption, bycatch species kept for commercial use and discarded bycatch. Life history traits and fishery attributes did not differ between oceans. However, non-target but commercialized species were smaller in the Atlantic Ocean. Teleosts caught by the tuna longline fishery was segregated into three main groups: (1) the fast growing species represented mainly by dolphinfishes (Coryphaena hippurus and C. equisellis), skipjack tuna (Katsuwonus pelamis), kawakawa (Euthynnus affinis), bullet tuna (Auxis rochei), snoek (Thyrsites atun) and blackfin tuna (Thunnus atlanticus); (2) target tunas and most other bycatch species which were part of an intermediate group and (3) billfishes including swordfish representing the large and slow growing species with moderate to high market values and unknown or highly uncertain stock status. Investment in some key life history traits (such as growth coefficient) and the development of quantitative or semi-quantitative approaches (stock assessment and Ecological Risk Assessment) should be priorized as precautionary management measures for these species.

Résumé: Tuna fisheries have been identified as one of the major threats to populations of other marine vertebrates, including sea turtles, sharks, seabirds and marine mammals. The development of technical mitigation measures (MM) in fisheries is part of the code of conduct for responsible fisheries. An in-depth analysis of the available literature regarding bycatch mitigation in tuna fisheries with special reference to elasmobranchs was undertaken. Studies highlighting promising MMs were reviewed for four tuna fisheries (longline, purse seine, driftnets and gillnet, and rod and line – including recreational fisheries). The advantages and disadvantages of different MMs are discussed and assessed based on current scientific knowledge. Current management measures for sharks and rays in tuna Regional Fishery Management Organizations (t-RFMOs) are presented. A review of relevant studies examining at-vessel and postrelease mortality of elasmobranch bycatch is provided. This review aims to help fisheries managers identify pragmatic solutions to reduce mortality on pelagic elasmobranchs (and other higher vertebrates) whilst minimizing impacts on catches of target tuna species. Recent research efforts have identified several effective MMs that, if endorsed by t-RFMOs, could reduce elasmobranchs mortality rate in international tropical purse seine tuna fisheries. In the case of longline fisheries, the number of operational effective MMs is very limited. Fisheries deploying driftnets in pelagic ecosystems are suspected to have a high elasmobranchs bycatch and their discard survival is uncertain, but no effective MMs have been field validated for these fisheries. The precautionary bans of such gear by the EU and by some t-RFMOs seem therefore appropriate. Recreational tuna fisheries should be accompanied by science-based support to reduce potential negative impacts on shark populations. Priorities for research and management are identified and discussed.

Résumé: In spite of its pivotal role in future implementations of the Ecosystem Approach to Fisheries Management, current knowledge about tuna habitat preferences remains fragmented and heterogeneous, because it relies mainly on regional or local studies that have used a variety of approaches making them difficult to combine. Therefore in this study we analyse data from six tuna species in the Pacific, Atlantic and Indian Oceans in order to provide a global, comparative perspective of habitat preferences. These data are longline catch per unit effort from 1958 to2007 for albacore, Atlantic bluefin, southern bluefin, bigeye, yellowfin and skipjack tunas. Both quotient analysis and Generalized Additive Models were used to determine habitat preference with respect to eight biotic and abiotic variables. Results confirmed that, compared to temperate tunas, tropical tunas prefer warm, anoxic, stratified waters. Atlantic and southern bluefin tuna prefer higher concentrations of chlorophyll than the rest. The two species also tolerate most extreme sea surface height anomalies and highest mixed layer depths. In general, Atlantic bluefin tuna tolerates the widest range of environmental conditions. An assessment of the most important variables determining fish habitat is also provided.

Résumé: Invertebrate catches are increasing globally following the depletion of many finfish stocks, yet stock assessments and management plans for invertebrates are limited, as is an understanding of the ecosystem effects of these fisheries. Using an ecosystem modelling approach, we explored the trade-offs between invertebrate catches and their impacts on the associated ecosystem on the south coast of Wellington, New Zealand. We simulated exploitation of lobster (Jasus edwardsii), abalone (Haliotis australis, H. iris), and sea urchin (Evechinus chloroticus) over a range of depletion levels—from no depletion to local extinction—to estimate changes in target catches and associated effects on other species groups, trophic levels, and benthic and pelagic components. Exploitation of lobster showed the strongest ecosystem effects, followed by abalone and urchin. In all three fisheries, the current exploitation rate exceeds that which produces maximum sustainable yield, with considerable ecosystem effects. Interestingly, a reduced exploitation rate is predicted to increase target catches (and catch-per-unit-effort), thereby strongly reducing ecosystem effects, a win–win situation. Our results suggest that invertebrate exploitation clearly influences ecosystem structure and function, yet the direction and magnitude of responses depend on the target group and exploitation rate. An ecosystem-based fisheries management approach that includes the role of invertebrates would improve the conservation and management of invertebrate resources and marine ecosystems on broader scales.

Résumé: We applied the individual-based, multi-species OSMOSE modeling approach to the West Florida Shelf, with the intent to inform ecosystem-based management (EBM) in this region. Our model, referred to as ‘OSMOSE-WFS’, explicitly considers both pelagic-demersal and benthic high trophic level (HTL) groups of fish and invertebrate species, and is forced by the biomass of low trophic level groups of species (plankton and benthos). We present a steady-state version of the OSMOSE-WFS model describing trophic interactions in the West Florida Shelf in the 2000s. OSMOSE-WFS was calibrated using a recently developed evolutionary algorithm that allowed simulated biomasses of HTL groups to match observed biomasses over the period 2005–2009. The validity of OSMOSE-WFS was then evaluated by comparing simulated diets to observed ones, and the simulated trophic levels to those in an Ecopath model of the West Florida Shelf (WFS Reef fish Ecopath). Finally, OSMOSE-WFS was used to explore the trophic structure of the West Florida Shelf in the 2000s and estimate size-specific natural mortality rates for a socio-economically important species, gag grouper (Mycteroperca microlepis). OSMOSE-WFS outputs were in full agreement with observations as to the body size and ecological niche of prey of the different HTL groups, and to a lesser extent in agreement with the observed species composition of the diet of HTL groups. OSMOSE-WFS and WFS Reef fish Ecopath concurred on the magnitude of the instantaneous natural mortality of the different life stages of gag grouper over the period 2005–2009, but not always on the main causes of natural mortality. The model evaluations conducted here provides a strong basis for ongoing work exploring fishing and environmental scenarios so as to inform EBM. From simple size-based predation rules, we were indeed able to capture the complexity of trophic interactions in the West Florida Shelf, and to identify the predators, prey and competitors of socio-economically important species as well as pivotal prey species of the ecosystem.

Résumé: The objectives of this study were (1) to assess the responses of benthic nematodes to a polycyclic aromatic hydrocarbon (PAH) contamination and (2) to test bioremediation techniques for their efficiency in PAH degradation and their effects on nematodes. Sediments with their natural nematofauna communities from Bizerte lagoon (Tunisia) were subjected to a PAH mixture (100 ppm) of phenanthrene, fluoranthene, and pyrene during 30 days. Nematode abundance and diversity significantly decreased, and the taxonomic structure was altered. Results from multivariate analyses of the species abundance data revealed that PAH treatments were significantly different from the control. Spirinia parasitifera became the dominant species (70 % relative abundance) and appeared to be an “opportunistic” species to PAH contamination while Oncholaimus campylocercoides and Neochromadora peocilosoma were strongly inhibited. Biostimulation (addition of mineral salt medium) and bioaugmentation (inoculation of a hydrocarbonoclastic bacterium) were used as bioremediation techniques. Bioremediation treatments enhanced degradation of all three PAHs, with up to 96 % degradation for phenanthrene resulting in a significant stimulation of nematode abundance relative to control microcosms. Nevertheless, these treatments, especially the biostimulation provoked a weak impact on the community structure and diversity index relative to the control microcosms suggesting their feasibility in biorestoration of contaminated sediments.

Résumé: Bycatch of endangered marine turtles is a growing issue for the management of all fisheries, including the oceanic purse-seine fishery. The aim of this study was to assess the spatial and temporal variation in bycatch rates of these species in the entire European purse-seine fishery operating in the Atlantic and Indian oceans. The study was based on data collected through observer programs from 1995 to 2011. During that period, a total of 15 913 fishing sets were observed, including 6 515 on Drifting Fish Aggregating Devices (DFADs) and 9 398 on free swimming schools, representing a global coverage of 10.3% and 5.1% of the total fishing activity in the Atlantic and Indian Ocean, respectively. Moreover, from 2003 to 2011, 14 124 specific observations were carried out on DFADs to check turtle entanglement in the net covering DFADs. We found that the purse-seine fishery has a very low impact on marine turtles. We estimated that the annual number of individuals incidentally captured was 218 (SD = 150) and 250 (SD = 157) in the Atlantic and Indian Ocean, respectively, with more than 75% being released alive. The present study also investigated the impact of DFADs; which is considered a key conservation issue for this fishery. Drifting objects may play a key role in aggregating juveniles of marine turtles, implying the need for improving their construction to avoid entanglement (e.g. avoiding nets in the structure); however, based on our study it is not the main source of incidental captures of marine turtles in this fishery.

Résumé: Peru is the top exporter of fishmeal and fish oil (FMFO) worldwide and is responsible for half and a third of global production, respectively. Landings of “anchoveta” (Engraulis ringens) are used nearly exclusively for FMFO production, despite a proactive national food policy aimed at favoring the direct human consumption of this inexpensive species. It may be surprising that in a country where malnutrition and caloric deficit constitute major issues, a low-priced and highly nutritious fish such as anchovy does not have stronger domestic demand as a food fish. Here, we review and assess eight potential politico-socio-economic processes that can explain this situation. The main explanation are dietary habits, the preference for broiler and the higher profit from anchovy sold as feed fish compared to its use as a food fish due to historically high FMFO prices, boosted by an increasing demand for aquaculture in a context of finite forage and trash fish resources. In addition, the recent introduction of an individual quota system has shifted bargaining power from processors to fishers, thereby increasing competition for the raw material. This competition results in an increase in anchovy prices offered by the feed fish industry due to its onshore processing overcapacity, which is detrimental to the food fish industry. In the end, although the dominant use of anchovy for fish feed is largely explained by integrating these market mechanisms and other minor ones, this use raises other issues, such as rent redistribution through public policies, employment, equitability and utility (low social costs), and resource management (threats to ecosystems or global change). Different policy scenarios are proposed in relation to these issues.

Résumé: Forage fish play a pivotal role in marine ecosystems and economies worldwide by sustaining many predators and fisheries directly and indirectly. We estimate global forage fish contributions to marine ecosystems through a synthesis of 72 published Ecopath models from around the world. Three distinct contributions of forage fish were examined: (i) the ecological support service of forage fish to predators in marine ecosystems, (ii) the total catch and value of forage fisheries and (iii) the support service of forage fish to the catch and value of other commercially targeted predators. Forage fish use and value varied and exhibited patterns across latitudes and ecosystem types. Forage fish supported many kinds of predators, including fish, seabirds, marine mammals and squid. Overall, forage fish contribute a total of about 16.9 billion USD to global fisheries values annually, i.e. 20% of the global ex-vessel catch values of all marine fisheries combined. While the global catch value of forage fisheries was 5.6 billion, fisheries supported by forage fish were more than twice as valuable (11.3 billion). These estimates provide important information for evaluating the trade-offs of various uses of forage fish across ecosystem types, latitudes and globally. We did not estimate a monetary value for supportive contributions of forage fish to recreational fisheries or to uses unrelated to fisheries, and thus the estimates of economic value reported herein understate the global value of forage fishes.

Résumé: It has been previously established that the Leopard Whipray, Himantura leoparda, consists of two genetically isolated, cryptic species, provisionally designated as 'Cluster 1' and 'Cluster 4' (Arlyza et al., Mol. Phylogenet. Evol. 65 (2013) [11). Here, we show that the two cryptic species differ by the spotting patterns on the dorsal surface of adults: Cluster-4 individuals tend to have larger-ocellated spots, which also more often have a continuous contour than Cluster-1 individuals. We show that H. leopard a's holotype has the typical larger-ocellated spot pattern, designating Cluster 4 as the actual H. leoparda. The other species (Cluster 1) is described as Himantura tutul sp. nov. on the basis of the nucleotide sequence of a 655-base pair fragment of its cytochrome-oxidase I gene (GENBANK accession No. JX263335). Nucleotide synapomorphies at this locus clearly distinguish H. tutul sp. nov. from all three other valid species in the H. uarnak species complex, namely H. leoparda, H. uarnak, and H. undulata. H. tutul sp. nov. has a wide distribution in the Indo-West Pacific, from the shores of eastern Africa to the Indo-Malay archipelago. H. leoparda under its new definition has a similarly wide Indo-West Pacific distribution. (C) 2013 Academie des sciences. Published by Elsevier Masson SAS. All rights reserved.

Résumé: The benefits of implementing no-take Marine Protected Areas (MPAs) for the conservation of highly migratory species are not easy to assess. They depend on several factors, such as the fish mobility, fisher behaviour and the area covered by the MPA with respect to the distribution area of the species to protect. In this study, we explore the simultaneous effects of MPAs and fishing scenarios on skipjack tuna population dynamics, using the spatially-explicit APECOSM-E model. The model represents the size-structured population dynamics of skipjack tuna in the Indian Ocean and their dependence on climatic variability and exploitation by fisheries. Numerical experiments were run from the beginning of industrial fisheries in the early 1980s to the year 2030, considering different scenarios for the future development of fisheries. These scenarios combined different trends in fishing effort and technological development, either assuming a continuous increase following historical trends or a stabilization of these factors at present values. The simulations were designed to explore the effects of two MPAs of different size and location: the recently established Chagos MPA, and a hypothetical MPA covering a large part of the Western Indian Ocean, where most of the skipjack catches are presently made. We modelled the redistribution of fishing effort around the MPAs assuming that the fishers had partial knowledge of the spatial distribution of the skipjack population. The effects of the two MPAs on the population dynamics, catch and fishing mortality are shown. Our results revealed a very minor effect of the Chagos MPA on the skipjack tuna population, while the Western Indian Ocean MPA had an important impact on the fishing mortality and succeeded in stabilizing the spawning population. The simulations also showed that the effect of an MPA depends on the evolution of fisheries and it is therefore important to explore different fishery scenarios to assess the future benefits of an MPA.

Résumé: Grüss, A., Kaplan, D. M., and Robinson, J. Evaluation of the effectiveness of marine reserves for transient spawning aggregations in data-limited situations. – ICES Journal of Marine Science, doi:10.1093/icesjms/fst028. Many coral reef fish species form predictable, transient spawning aggregations. Many aggregations are overfished, making them a target for spatial management. Here, we develop a per-recruit model to evaluate the performance of no-take marine reserves protecting transient spawning aggregations. The model consists of only 14 demographic and exploitation-related parameters. We applied the model to a protogynous grouper and a gonochoristic rabbitfish from Seychelles and tested six scenarios regarding the extent of protected areas, the level of fish spawning-site fidelity, and fishing effort redistribution post reserve implementation. Spawning aggregation reserves improve spawning-stock biomass-per-recruit and reduce the sex ratio bias in protogynous populations for all scenarios examined. However, these benefits are often small and vary among the different scenarios and as a function of sexual ontogeny. In all scenarios, increases in yield-per-recruit do not occur or are negligible. The long-term yield increases due to spawning aggregation reserves may still occur, but only if spawning-stock biomass recovery results in a recruitment subsidy. Given these limited benefits, the value of no-take reserves must be weighed against those of other management options, such as fishing effort reduction and seasonal fishery closures. The latter is particularly appropriate when spawning and non-spawning areas overlap in space.

Résumé: We conservatively estimate the distant-water fleet catch of the People's Republic of China for 2000–2011, using a newly assembled database of reported occurrence of Chinese fishing vessels in various parts of the world and information on the annual catch by vessel type. Given the unreliability of official statistics, uncertainty of results was estimated through a regionally stratified Monte Carlo approach, which documents the presence and number of Chinese vessels in Exclusive Economic Zones and then multiplies these by the expected annual catch per vessel. We find that China, which over-reports its domestic catch, substantially under-reports the catch of its distant-water fleets. This catch, estimated at 4.6 million t year−1 (95% central distribution, 3.4–6.1 million t year−1) from 2000 to 2011 (compared with an average of 368 000 t·year−1 reported by China to FAO), corresponds to an ex-vessel landed value of 8.93 billion € year−1 (95% central distribution, 6.3–12.3 billion). Chinese distant-water fleets extract the largest catch in African waters (3.1 million t year−1, 95% central distribution, 2.0–4.4 million t), followed by Asia (1.0 million t year−1, 0.56–1.5 million t), Oceania (198 000 t year−1, 144 000–262 000 t), Central and South America (182 000 t year−1, 94 000–299 000 t) and Antarctica (48 000 t year−1, 8 000–129 000 t). The uncertainty of these estimates is relatively high, but several sources of inaccuracy could not be fully resolved given the constraints inherent in the underlying data and method, which also prevented us from distinguishing between legal and illegal catch.

Résumé: Blanchard, J. L., Coll, M., Trenkel, V. M., Vergnon, R., Yemane, D., Jouffre, D., Link, J. S., and Shin, Y-J. 2010. Trend analysis of indicators: a comparison of recent changes in the status of marine ecosystems around the world. – ICES Journal of Marine Science, 67: 732-744.

Résumé: Over the last few decades, European fish culture was developed mainly as a intensive monospecific activity. In most countries, marine aquaculture cannot continue to develop on the shore line where it first settled due to high competition with other activities. It has now to move either offshore or into recirculation systems located in less occupied spaces. Fresh water availability and impact of fish production farms on the environment are strongly restraining the development of the activity, which is even declining in some countries such as France. Recirculation systems make it possible to decrease water consumption and facilitate waste treatment. Their economical feasibility is being demonstrated and they offer an alternative to developing fish farms. Whatever the rearing system, nutrients of feed are partially converted into fish flesh and most of them are thrown back as wastes into the environment. Integrated systems make it possible to convert such nutrients into algae, molluscs or fish and to release purified water. This article presents some aspects of the development of three types of rearing systems which are increasingly used in northern Europe: offshore cage culture, recirculation systems and integrated systems.