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A global database for metacommunity ecology, integrating species, traits, environment and space ArchiMer
Jeliazkov, Alienor; Mijatovic, Darko; Chantepie, Stéphane; Andrew, Nigel; Arlettaz, Raphaël; Barbaro, Luc; Barsoum, Nadia; Bartonova, Alena; Belskaya, Elena; Bonada, Núria; Brind'Amour, Anik; Carvalho, Rodrigo; Castro, Helena; Chmura, Damian; Choler, Philippe; Chong-seng, Karen; Cleary, Daniel; Cormont, Anouk; Cornwell, William; De Campos, Ramiro; De Voogd, Nicole; Doledec, Sylvain; Drew, Joshua; Dziock, Frank; Eallonardo, Anthony; Edgar, Melanie J.; Farneda, Fábio; Hernandez, Domingo Flores; Frenette-dussault, Cédric; Fried, Guillaume; Gallardo, Belinda; Gibb, Heloise; Gonçalves-souza, Thiago; Higuti, Janet; Humbert, Jean-yves; Krasnov, Boris R.; Saux, Eric Le; Lindo, Zoe; Lopez-baucells, Adria; Lowe, Elizabeth; Marteinsdottir, Bryndis; Martens, Koen; Meffert, Peter; Mellado-díaz, Andres; Menz, Myles H. M.; Meyer, Christoph F. J.; Miranda, Julia Ramos; Mouillot, David; Ossola, Alessandro; Pakeman, Robin; Pavoine, Sandrine; Pekin, Burak; Pino, Joan; Pocheville, Arnaud; Pomati, Francesco; Poschlod, Peter; Prentice, Honor C.; Purschke, Oliver; Raevel, Valerie; Reitalu, Triin; Renema, Willem; Ribera, Ignacio; Robinson, Natalie; Robroek, Bjorn; Rocha, Ricardo; Shieh, Sen-her; Spake, Rebecca; Staniaszek-kik, Monika; Stanko, Michal; Tejerina-garro, Francisco Leonardo; Braak, Cajo Ter; Urban, Mark C.; Klink, Roel Van; Villéger, Sébastien; Wegman, Ruut; Westgate, Martin J.; Wolff, Jonas; Żarnowiec, Jan; Zolotarev, Maxim; Chase, Jonathan M..
The use of functional information in the form of species traits plays an important role in explaining biodiversity patterns and responses to environmental changes. Although relationships between species composition, their traits, and the environment have been extensively studied on a case-by-case basis, results are variable, and it remains unclear how generalizable these relationships are across ecosystems, taxa and spatial scales. To address this gap, we collated 80 datasets from trait-based studies into a global database for metaCommunity Ecology: Species, Traits, Environment and Space; “CESTES”. Each dataset includes four matrices: species community abundances or presences/absences across multiple sites, species trait information, environmental...
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Ano: 2020 URL: https://archimer.ifremer.fr/doc/00604/71606/70047.pdf
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A quantitative estimate of the function of soft-bottom sheltered coastal areas as essential flatfish nursery habitat ArchiMer
Trimoreau, E.; Archambault, Benoit; Brind'Amour, Anik; Lepage, Mario; Guitton, Jerome; Le Pape, O..
Essential fish habitat suitability (EFHS) models and geographic information system (GIS) were combined to describe nursery habitats for three flatfish species (Solea solea, Pleuronectes platessa, Dicologlossa cuneata) in the Bay of Biscay (Western Europe), using physical parameters known or suspected to influence juvenile flatfish spatial distribution and density (i.e. bathymetry, sediment, estuarine influence and wave exposure). The effects of habitat features on juvenile distribution were first calculated from EFHS models, used to identify the habitats in which juvenile are concentrated. The EFHS model for S. solea confirmed previous findings regarding its preference for shallow soft bottom areas and provided new insights relating to the significant...
Tipo: Text Palavras-chave: Coastal and estuarine dependent species; Nursery ground; Habitat suitability models; Geographic Information System; Bay of Biscay.
Ano: 2013 URL: http://archimer.ifremer.fr/doc/00164/27546/25720.pdf
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Application of Moran Eigenvector Maps (MEM) to irregular sampling designs ArchiMer
Brind'Amour, Anik; Mahevas, Stephanie; Legendre, Pierre; Bellanger, Lise.
Moran’s eigenvectors maps (MEM) are attractive mathematical objects as they are fairly simple to calculate and can be used in most studies of spatially-explicit data. There is, however, an aspect of MEM analysis that still requires some investigation: the effect of irregular sampling on their modeling performance. This study investigates empirically the behavior of MEMs under different irregularity schemes. It is focusing on simulated scenarios representing sampling designs frequently encountered in ecology. We advocate that MEMs can be computed and correctly used with data coming from irregularly designed sampling surveys, given some precautions. We suggest that when the sampling sites are equally spaced but do not cover the entire study area, the MEMs...
Tipo: Text Palavras-chave: Autocorrelation; Irregular sampling; Sampling schemes; Spatial analyses; Statistical methods.
Ano: 2018 URL: https://archimer.ifremer.fr/doc/00444/55594/57224.pdf
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Arbre de régression multivariable : application à une communauté de poissons littoraux d’un lac du Bouclier canadien ArchiMer
Brind'Amour, Anik.
La combinaison de deux approches statistiques, une analyse de partitionnement et la technique de l’arbre de régression mutivariable, a été utilisée afin de développer un modèle d’utilisation d’habitats pour une communauté de poissons d’un lac du Bouclier canadien. Les résultats soulignent l’importance des variables dites associées dans le modèle et l’importance de la taille de l’habitat dans la succession d’autres variables environnementales structurantes et dans la détermination de la composition spécifique de la communauté de poissons du lac à l’étude.
Tipo: Text Palavras-chave: Arbre de régression mutivariable; Communauté piscicole; Habitat; Lac; Partitionnement par la méthode des K centroïdes (K-means).
Ano: 2005 URL: http://archimer.ifremer.fr/doc/00048/15972/13412.pdf
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Assessment of impacts from human activities on ecosystem components in the Bay of Biscay in the early 1990s ArchiMer
Lorance, Pascal; Bertrand, Jacques; Brind'Amour, Anik; Rochet, Marie-joelle; Trenkel, Verena.
The ecosystem-based approach to fisheries management and, more specifically, the European Marine Strategy Framework Directive require the assessment of the state and dynamics of an ecosystem in order to determine suitable management strategies. This paper takes an analytical approach to assess the state of the Bay of Biscay ecosystem in the early 1990s, chosen as a period of reference because key monitoring data series have been collected since then. To assess the state of the ecosystem, the pressures exerted by six broad categories of human activities were examined. A literature review of the ecosystem components was made and a component tree was tailored according to data availability. Data rich components were subdivided into subcomponents for their...
Tipo: Text Palavras-chave: Reference state; Ecosystem based management; Human pressure; Inventory; Atlantic Ocean.
Ano: 2009 URL: http://archimer.ifremer.fr/doc/00000/11164/7520.pdf
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Assessment of the ecological status of coastal areas and estuaries in France, using multiple fish-based indicators: a comparative analysis on the Vilaine estuary ArchiMer
Brind'Amour, Anik; Lobry, Jeremy.
When reviewing the various fish-based community indicators aiming at assessing the ecological status of marine communities and/or ecosystems, a typology consisting of three major components emerges. The first component highlights the choice of relevant metrics associated with a level of organization (e. g. population or community). The second relies on the method used to combine the metrics (an aggregated indicator or a synoptic table). The third refers to the type of analysis (direct or indirect) that is used to establish the link between the metrics and a given pressure. In this paper we use the Vilaine coastal-estuarine fish communities as a case study to discuss and relate two different approaches to the suggested typology. The first approach...
Tipo: Text Palavras-chave: Coastal ecosystems; Fish communities; Indicators; Integrated approaches; Metric; Typology of fish indicators.
Ano: 2009 URL: http://archimer.ifremer.fr/doc/00000/11174/7532.pdf
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Available Benthic Energy Coefficient (ABEC): a generic tool to estimate the food profitability in coastal fish nurseries ArchiMer
Tableau, Adrien; Le Bris, H.; Brind'Amour, Anik.
The benthic production of prey seems to be one of the main drivers among many environmental factors that influence the quality of fish nurseries and potentially limit their carrying capacity. However, the contribution of food availability in the growth and survival of juveniles is still controversial. The Available Benthic Energy Coefficient (ABEC) aims to assess the trophic profitability of benthic invertebrate prey; this concept reflects the combination of energy richness and availability of prey. A value of the coefficient was associated with each prey species. This value was calculated from the product of 4 components: (1) mass energy, (2) productivity, (3) regeneration, and (4) accessibility. Thus, this coefficient is expressed as a quantity of energy...
Tipo: Text Palavras-chave: Predator-prey relationship; Secondary production; Prey availability; Demersal fish; Nursery habitat; Carrying capacity; Bioenergetics.
Ano: 2015 URL: https://archimer.ifremer.fr/doc/00260/37079/35588.pdf
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Community structure and temperature dynamics within a mussel assemblage on the Southern East Pacific Rise ArchiMer
Sarrazin, Jozee; Walter, Cecile; Sarradin, Pierre-marie; Brind'Amour, Anik; Desbruyeres, Daniel; Briand, Patrick; Fabri, Marie-claire; Van Gaever, S; Vanreusel, A; Bachraty, Charleyne; Thiebaut, E.
The composition, biomass and diversity of the fauna in a Bathymodiolus thermophilus mussel assemblage colonizing diffuse flow areas on the SEPR is described and compared with biological characteristics of other hydrothermal assemblages. The spatio-temporal dynamics of temperatures over fine scales within the mussel habitat are characterized using newly-developed statistical approaches. Temperature data obtained from two adjacent habitats (a cirriped assemblage and a bare substratum) are compared. The results of the temperature data show that the mean temperature and the temperature variations were significantly higher in the mussel assemblage (mean temperature: 4.12 +/- 1.85 degrees C) in comparison with 2.40 +/- 0.14 degrees C in the cirriped assemblage...
Tipo: Text Palavras-chave: East Pacific Rise; Temperature dynamics; Biomass; Diversity; Bathymodiolus thermophilus; Mussel assemblage; Hydrothermal vents.
Ano: 2006 URL: http://archimer.ifremer.fr/doc/2006/publication-3570.pdf
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Comparative study of isotopic trends in two coastal ecosystems of North Biscay: A multitrophic spatial gradient approach ArchiMer
Mortillaro, J. M.; Schaal, G.; Grall, Jacques; Nerot, C.; Brind'Amour, Anik; Marchais, V.; Perdriau, M.; Le Bris, H..
In coastal estuarine embayments, retention of water masses due to coastal topography may result in an increased contribution of continental organic matter in food webs. However, in megatidal embayments, the effect of topography can be counterbalanced by the process of tidal mixing. Large amounts of continental organic matter are exported each year by rivers to the oceans. The fate of terrestrial organic matter in food webs of coastal areas and on neighboring coastal benthic communities was therefore evaluated, at multi-trophic levels, from primary producers to primary consumers and predators. Two coastal areas of the French Atlantic coast, differing in the contributions from their watershed, tidal range and aperture degree, were compared using carbon and...
Tipo: Text Palavras-chave: Bay of Brest; Bay of Vilaine; Benthic; Filter-feeders; Stable isotopes; Organic matter.
Ano: 2014 URL: http://archimer.ifremer.fr/doc/00167/27847/26203.pdf
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Cost of Living Dictates what Whales, Dolphins and Porpoises Eat: The Importance of Prey Quality on Predator Foraging Strategies ArchiMer
Spitz, Jerome; Trites, Andrew W.; Becquet, Vanessa; Brind'Amour, Anik; Cherel, Yves; Galois, Robert; Ridoux, Vincent.
Understanding the mechanisms that drive prey selection is a major challenge in foraging ecology. Most studies of foraging strategies have focused on behavioural costs, and have generally failed to recognize that differences in the quality of prey may be as important to predators as the costs of acquisition. Here, we tested whether there is a relationship between the quality of diets (kJ.g(-1)) consumed by cetaceans in the North Atlantic and their metabolic costs of living as estimated by indicators of muscle performance (mitochondrial density, n = 60, and lipid content, n = 37). We found that the cost of living of 11 cetacean species is tightly coupled with the quality of prey they consume. This relationship between diet quality and cost of living appears...
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Ano: 2012 URL: http://archimer.ifremer.fr/doc/00116/22749/20551.pdf
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Environmental drivers explain regional variation of changes in fish and invertebrate functional groups across the Mediterranean Sea from 1994 to 2012 ArchiMer
Brind'Amour, Anik; Rochet, Marie-joelle; Ordines, Francesc; Hosack, Geoff; Berthele, Olivier; Merigot, Bastien; Carbonara, Pierluigi; Follesa, Maria Cristina; Jadaud, Angelique; Lefkaditou, Evgenia; Maiorano, Porzia; Peristeraki, Panagiota; Mannini, Alessandro; Rabiller, Manuella; Spedicato, Maria Teresa; Tserpes, George; Trenkel, Verena.
Functional groups are sets of species that play a similar role in a food web. We defined functional groups of fish species based on their morphological characteristics, while using expert knowledge for invertebrates. We measured 9 morphological traits of 72 fish species, and carried out multivariate analyses to assign fish species to functional groups. The analysis identified 9 trait-based fish functional groups to which were added 3 expert-based invertebrate functional groups. The habitat (position in the water column) and potential diet of each group were identified from the literature. Using the MEDITS bottom trawl survey data collected at 10 to 800 m depth, we calculated relative change in the 12 fish and invertebrate functional group biomasses for 12...
Tipo: Text Palavras-chave: Morphological traits; Community models; Functional network; Functional groups; Mediterranean Sea; Temporal trends; Fish; Shellfish.
Ano: 2016 URL: https://archimer.ifremer.fr/doc/00363/47382/47475.pdf
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Evaluating the potential impact of fishing on demersal species in the Bay of Biscay using simulations and survey data ArchiMer
Ravard, David; Brind'Amour, Anik; Trenkel, Verena.
Fishing affects fish populations through direct and indirect effects. It can change size structures and/or modify population mean weights. Reference values are thus needed to assess the status of populations in exploited ecosystems. These reference values can either be set by a historical approach, i.e. using information from before the onset of exploitation or overexploitation, or by a simulation approach. Using a model based on life-history parameters, we predicted population mean weights and length structures at equilibrium (in the absence of fishing and for fishing equal to different fishing mortalities) which we compared with contemporary data collected during scientific surveys in the Bay of Biscay. Contemporary mean weights were 88% to 30% smaller...
Tipo: Text Palavras-chave: Indicators; Fishing impacts; Ecosystem based management; Fish community; Reference points; Northeast Atlantic.
Ano: 2014 URL: http://archimer.ifremer.fr/doc/00188/29968/28485.pdf
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Evaluation de la composante de l’écosystème « Poissons et céphalopodes » du descripteur 1 « Biodiversité » en France métropolitaine. ArchiMer
Brind'Amour, Anik; Delaunay, Damien.
The Marine Strategy Framework Directive (MSFD), adopted in June 2008, recommends Member States to adopt an ecosystemic approach to manage the marine environment. By this directive, France aims to achieve a good environmental status (GES) described by 11 descriptors, of its marine waters by 2020. Descriptor 1 stipulates that biological diversity is maintained. The quality and occurrence of habitats and the distribution and abundance of species are in line with prevailing physiographic, geographic and climate conditions (European Commission Decision 2017/848/UE). The ecosystem components of fish and cephalopods must be assessed in the four marine subregions (“English Channel – North Sea”, “Celtic seas”, “Bay of Biscay” and “Western Mediterranea”). The...
Tipo: Text Palavras-chave: DCSMM; Descripteur 1; Bon état écologique; Poissons et céphalopodes; Population d’espèces; Indice d’abondance; Traits d’histoire de vie; Indice de sensibilité; Pression de pêche; Zone fonctionnelle halieutique.
Ano: 2018 URL: https://archimer.ifremer.fr/doc/00458/57007/58905.pdf
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Fecundity, growth rate and survivorship at the interface between two contiguous genetically distinct groups of Semibalanus balanoides ArchiMer
Brind'Amour, Anik; Bourget, Edwin; Tremblay, Rejean.
On the western coast of the Atlantic, according to the literature, 2 distinct groups of Semibalanus balanoides occur with a distinct interface near the Miramichi Estuary, New Brunswick, in the Gulf of St. Lawrence. On each side of this interface, the groups are characterized by clinal variations for MPI (mannose-6-phosphate isomerase) and GPI (glucose-6-phosphate isomerase). The present study was carried out to determine whether selection occurs at this interface, to establish how early in the sessile life period it occurs and to examine the selecting forces involved. Reciprocal transplant experiments of newly settled individuals to both sides of the interface were carried out. No significant differences specifically linked to source or destination were...
Tipo: Text Palavras-chave: Semibalanus; Genetics; Selection; Fecundity; Growth rate; Survival.
Ano: 2002 URL: http://archimer.ifremer.fr/doc/00048/15970/13410.pdf
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Flatfish ecology: Advances from the 10th international flatfish symposium ArchiMer
Le Pape, Olivier; Brind'Amour, Anik; Begout, Marie-laure.
Tipo: Text
Ano: 2019 URL: https://archimer.ifremer.fr/doc/00471/58297/60815.pdf
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Functional differences between fish communities on artificial and natural reefs: a case study along the French Catalan coast ArchiMer
Koeck, Barbara; Tessier, Anne; Brind'Amour, Anik; Pastor, Jeremy; Bijaoui, Benjamin; Dalias, Nicolas; Astruch, Patrick; Saragoni, Gilles; Lenfant, Philippe.
In the context of growing anthropogenic disturbances that deeply alter marine coastal ecosystems, various management tools are used to protect biodiversity, such as fishing gear limitations, fishing quotas, protected areas or the creation of artificial reefs (ARs). In contrast to the other management tools, ARs require a modification of natural habitats. We used underwater visual censuses to investigate the effect of habitat modification on the structure of fish communities by comparing a natural reef (NR) to ARs with different habitat complexity. Different fish assemblage descriptors were used to assess species- and functional- and community-level aspects of the assemblages. ARs were rapidly colonized by adult fishes and presented community compositions...
Tipo: Text Palavras-chave: Ecological niche; Fish community; Fisheries management; Functional diversity; Gulf of Lion; Habitat complexity; Mediterranean Sea; Underwater visual census.
Ano: 2014 URL: https://archimer.ifremer.fr/doc/00189/30029/28514.pdf
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Functional gains of including non-commercial epibenthic taxa in coastal beam trawl surveys: A note ArchiMer
Brind'Amour, Anik; Rouyer, Armelle; Martin, Jocelyne.
The development of ecosystem-based indicators requires the broadening of a view of the community, from fish species to all the species (macrobenthic and fish) correctly captured by a given sampling gear. Many scientific surveys already have such integrated databases. The present note aims to demonstrate that existing databases, herein from dedicated coastal nursery surveys, are actually underexploited. Such databases contain information on non-commercial taxa, which could greatly improve our knowledge on the organisation and functioning of coastal ecosystems. Using two datasets, a "complete" dataset composed of commercial and not-commercial epibenthic trawled species (fish and invertebrate) and a "subset" dataset characterized by commercial and routinely...
Tipo: Text Palavras-chave: Nursery grounds; Functional diversity; Fish community; Coastal surveys; Beam trawl; Bay of Biscay.
Ano: 2009 URL: http://archimer.ifremer.fr/doc/2009/publication-6507.pdf
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Functional roles of an engineer species for coastal benthic invertebrates and demersal fish ArchiMer
Chaalali, Aurelie; Brind'Amour, Anik; Dubois, Stanislas; Le Bris, Herve.
Through their tissues or activities, engineer species create, modify, or maintain habitats and alter the distribution and abundance of many plants and animals. This study investigates key ecological functions performed by an engineer species that colonizes coastal ecosystems. The gregarious tubiculous amphipod Haploops nirae is used as a biological model. According to previous studies, the habitat engineered by H.nirae (i.e., Haploops habitat) could provide food and natural shelter for several benthic species such as benthic diatoms belonging to the gender Navicula, the micrograzer Geitodoris planata, or the bivalve Polititapes virgineus. Using data from scientific surveys conducted in two bays, this study explored whether (1) the Haploops sandy-mud...
Tipo: Text Palavras-chave: Coastal nurseries; Fish community; Haploops nirae; Isotopic diversity indices; Stable isotopes.
Ano: 2017 URL: http://archimer.ifremer.fr/doc/00396/50722/51431.pdf
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Grands invertébrés et poissons observés par les campagnes scientifiques. Atlas de distribution. Bilan 2008 ArchiMer
Trenkel, Verena; Berthele, Olivier; Lorance, Pascal; Bertrand, Jacques; Brind'Amour, Anik; Cochard, Marie-laure; Coppin, Franck; Leaute, Jean-pierre; Mahe, Jean-claude; Morin, Jocelyne; Rochet, Marie-joelle; Salaun, Michele; Souplet, Arnauld; Verin, Yves.
Depuis une vingtaine d'années, l'Ifremer organise des campagnes de pêche scientifique en mer du Nord, Manche, Atlantique et Méditerranée concernant les ressources pélagiques, démersales et benthiques. L'objectif prioritaire est de produire des indices d'abondance des principales espèces commerciales. Elles recueillent également des données sur les espèces capturées non commerciales. Les campagnes sont réalisées selon des plans d'échantillonnage standardisés. L'engin de pêche et son gréement, la position des stations, le tri des captures, les prélèvements biologiques suivent des protocoles fixés. Chaque zone étudiée est découpée en fonction de la profondeur, de la latitude ou d'autres critères. L'échantillonnage prévoit un nombre de traits de chalut...
Tipo: Text Palavras-chave: Populations; Halieutique; Bulletin; Méditerranée; Golfe de Gascogne; Manche; Mer du Nord; France; Pêche; Campagnes à la mer; Atlas; Survey; Mediterranean Sea; Bay of Biscay; English Channel; North Sea; France; Populations; Fishery science; Bulletin; Atlas.
Ano: 2009 URL: http://archimer.ifremer.fr/doc/2009/rapport-6976.pdf
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Grands invertébrés et poissons observés par les campagnes scientifiques. Bilan 2007 ArchiMer
Bertrand, Jacques; Brind'Amour, Anik; Cochard, Marie-laure; Coppin, Franck; Leaute, Jean-pierre; Lorance, Pascal; Mahe, Jean-claude; Morin, Jocelyne; Poulard, Jean-charles; Rochet, Marie-joelle; Schlaich, Ivan; Souplet, Arnauld; Trenkel, Verena; Verin, Yves.
The ecosystems exploited by fishing are complex. The species which are sought after and their distribution rely on numerous processes, in time and space. The understanding of marine ecosystems requires important means and diverse information including those of professional fishing and scientific cruises. At first, scientific fishing cruises aimed to explore marine fauna and discover new halieutic resources. They were in line with the exploration cruises carried out by Prince Albert 1st of Monaco at the end of the XIXth century. However, since the beginning of the 1970s, they have been focusing on the quantification of the resources exploited by fishing. [...] After a series of "Understanding keys" aimed at helping the reader understand the methodology and...
Tipo: Text Palavras-chave: Mediterranean Sea; Bay of Biscay; English Channel; North Sea; France; Communities; Populations; Fishery science; Indicators; Bulletin; Méditerranée; Golfe de Gascogne; Manche; Mer du Nord; France; Pêche; Campagnes à la mer; Communautés; Populations; Halieutique; Indicateurs; Bulletin.
Ano: 2009 URL: http://archimer.ifremer.fr/doc/2009/rapport-6160.pdf
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