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Registros recuperados: 18
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Analysis of the genetic structure and life history of albacore tuna in terms of diversity, abundance and migratory range at the spatial and time scales: Project GERMON (GEnetic stRucture and Migration Of albacore tuNa) ArchiMer
Nikolic, Natacha; Bourjea, Jerome.
Tunas are important commercial species that represent a share of about 8 percent of total fish exports. In 2010, the total catch of tuna in three oceans was about 6.6 million tons, 4.3 million tons for the most marketed species, a level roughly stable since 2002 (FAO 2012). Among these tuna species, there are in descending order of capture: skipjack tuna (Katsuwonus pelamis), yellowfin tuna (Thunnus albacares), bigeye tuna (Thunnus obesus), albacore tuna (Thunnus alalunga) and bluefin tuna (Thunnus thynnus). Overall, the biology of albacore stock in the Indian Ocean is not well known and there is relatively little new recent information on albacore stocks. Albacore life history characteristics, including a relatively late maturity, long life and sexual...
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Ano: 2012 URL: http://archimer.ifremer.fr/doc/00160/27109/25289.pdf
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Changes in the genetic structure of Atlantic salmon populations over four decades reveal substantial impacts of stocking and potential resiliency ArchiMer
Perrier, Charles; Guyomard, Rene; Bagliniere, Jean-luc; Nikolic, Natacha; Evanno, Guillaume.
While the stocking of captive-bred fish has been occurring for decades and has had substantial immediate genetic and evolutionary impacts on wild populations, its long-term consequences have only been weakly investigated. Here, we conducted a spatiotemporal analysis of 1428 Atlantic salmon sampled from 1965 to 2006 in 25 populations throughout France to investigate the influence of stocking on the neutral genetic structure in wild Atlantic salmon (Salmo salar) populations. On the basis of the analysis of 11 microsatellite loci, we found that the overall genetic structure among populations dramatically decreased over the period studied. Admixture rates among populations were highly variable, ranging from a nearly undetectable contribution from donor stocks...
Tipo: Text Palavras-chave: Conservation; Population genetics; Salmo salar; Stocking; Temporal stability.
Ano: 2013 URL: http://archimer.ifremer.fr/doc/00141/25271/23328.pdf
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Characterization and standardization of the Atlantic albacore French pelagic trawl fishery ArchiMer
Nikolic, Natacha; Lauretta, Matthew; Patucca, Audrey; Morandeau, Gilles.
We compiled and analysed logbook data from the French trawl albacore fishery covering the period 1991–2015. The dataset comprised catch and effort data for the French fleet operating in the Bay of Biscay and Celtic Sea, as well as spatiotemporal and gear characteristics. Generalized linear modelling was used to model spatial, seasonal, environmental, and gear covariates of fleet CPUE rates. A long-term index of relative abundance is provided that can be integrated into the stock assessment of North Atlantic albacore. The analysis revealed higher albacore CPUE associated with relatively low sea surface temperature and distinct seasonal effects. The derived abundance trend for the French trawl fishery agreed with the estimated time series of stock abundance...
Tipo: Text Palavras-chave: Albacore; Catch; Atlantic; Trawl; Fisheries; Stock.
Ano: 2018 URL: https://archimer.ifremer.fr/doc/00461/57256/59283.pdf
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Chemical contaminants (trace metals, persistent organic pollutants) in albacore tuna from western Indian and south-eastern Atlantic Oceans: Trophic influence and potential as tracers of populations ArchiMer
Chouvelon, Tiphaine; Brach-papa, Christophe; Auger, Dominique; Bodin, Nathalie; Bruzac, Sandrine; Crochet, Sylvette; Degroote, Maxime; Hollanda, Stephanie J.; Hubert, Clarisse; Knoery, Joel; Munschy, Catherine; Puech, Alexis; Rozuel, Emmanuelle; Thomas, Bastien; West, Wendy; Bourjea, Jerome; Nikolic, Natacha.
Albacore tuna (Thunnus alalunga) is a highly commercial fish species harvested in the world's Oceans. Identifying the potential links between populations is one of the key tools that can improve the current management across fisheries areas. In addition to characterising populations' contamination state, chemical compounds can help refine foraging areas, individual flows and populations' structure, especially when combined with other intrinsic biogeochemical (trophic) markers such as carbon and nitrogen stable isotopes. This study investigated the bioaccumulation of seven selected trace metals – chromium, nickel, copper (Cu), zinc (Zn), cadmium (Cd), mercury (Hg) and lead – in the muscle of 443 albacore tunas, collected over two seasons and/or years in the...
Tipo: Text Palavras-chave: Top predator; Bioaccumulation; Inorganic elements; Organic contaminants; Stable isotopes; Intrinsic markers.
Ano: 2017 URL: http://archimer.ifremer.fr/doc/00384/49532/51152.pdf
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Detecting past changes of effective population size ArchiMer
Nikolic, Natacha; Chevalet, Claude.
Understanding and predicting population abundance is a major challenge confronting scientists. Several genetic models have been developed using microsatellite markers to estimate the present and ancestral effective population sizes. However, to get an overview on the evolution of population requires that past fluctuation of population size be traceable. To address the question, we developed a new model estimating the past changes of effective population size from microsatellite by resolving coalescence theory and using approximate likelihoods in a Monte Carlo Markov Chain approach. The efficiency of the model and its sensitivity to gene flow and to assumptions on the mutational process were checked using simulated data and analysis. The model was found...
Tipo: Text Palavras-chave: Atlantic salmon; Effective population size; Microsatellites; Past demography.
Ano: 2014 URL: http://archimer.ifremer.fr/doc/00194/30565/28986.pdf
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Differentiation of albacore stock: review by oceanic regions ArchiMer
Nikolic, Natacha; Bourjea, Jerome.
Because one of the most common problems in fisheries is the definition of management units, we propose in this paper a bibliometric review focusing on the differentiation of Albacore populations, Thunnus alalunga, among and within oceanic regions (Atlantic, Pacific and Indian Oceans, and Mediterranean Sea). This paper is the first step of a current work on a global review of Albacore tuna using an international aquatic database (ASFA). For the present purpose, 367 publications, mainly composed of articles (64%), but also conference papers, proceedings and reports (24%), and books (12%), were analyzed. We will see that the concept of the stock and its delimitation is controversial because of the divergence of results. Such a conclusion makes us believe in...
Tipo: Text Palavras-chave: Albacore; Stock; Structure; Distribution; Thunnus alalunga.
Ano: 2013 URL: http://archimer.ifremer.fr/doc/00149/25990/24085.pdf
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Discovery of Genome-Wide Microsatellite Markers in Scombridae: A Pilot Study on Albacore Tuna ArchiMer
Nikolic, Natacha; Duthoy, Stephanie; Destombes, Antoine; Bodin, Nathalie; West, Wendy; Puech, Alexis; Bourjea, Jerome.
Recent developments in sequencing technologies and bioinformatics analysis provide a greater amount of DNA sequencing reads at a low cost. Microsatellites are the markers of choice for a variety of population genetic studies, and high quality markers can be discovered in non-model organisms, such as tuna, with these recent developments. Here, we use a high-throughput method to isolate microsatellite markers in albacore tuna, Thunnus alalunga, based on coupling multiplex enrichment and next-generation sequencing on 454 GS-FLX Titanium pyrosequencing. The crucial minimum number of polymorphic markers to infer evolutionary and ecological processes for this species has been described for the first time. We provide 1670 microsatellite design primer pairs, and...
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Ano: 2015 URL: http://archimer.ifremer.fr/doc/00293/40460/39151.pdf
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Diversité génétique et taille efficace chez les populations de poissons sauvages : le cas du Saumon atlantique un poisson migrateur amphihalin menacé ArchiMer
Nikolic, Natacha.
This thesis was concerned mainly with the genetic diversity and the effective size (Ne) of wild fish stocks of diadromous migratory endangered Atlantic salmon (Salmo salar). For this, four populations were chosen in the northern (Scotland) and southern (France) part of Europe for their differences in their structure and management. This work led to the development of two new models. DemoDivMS predicted genetic diversity of a population whose evolutionary scenario, given by the user, describes variations of Ne during the previous generations. VarEff tries to estimate the effective sizes, sampling time and pasts, based on direct analytical calculations to shorten the time of calculations.
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Ano: 2009 URL: http://archimer.ifremer.fr/doc/00074/18544/16093.pdf
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Guide de prélèvements des otolithes chez les grands pélagiques ArchiMer
Evano, Hugues; Metral, Luisa; Brisset, Blandine; Bourjea, Jerome; Nikolic, Natacha; Mahe, Kelig.
Ce guide présente les modes et règles de prélèvement puis de stockage des otolithes de grands pélagiques (thons et espadons). Ils ont été mis en place dans le cadre de projets de recherche comme « Germon » (http://wwz.ifremer.fr/lareunion/Les-projets/GERMON-en-cours), « IOSSS-Espadon » (http://wwz.ifremer.fr/lareunion/Les-projets/IOSSS-ESPADON) et «thon rouge (ICCAT-GBYP) » et dans le cadre de réseaux de surveillance coordonnés au niveau international, en particulier au sein du règlement européen sur la collecte des données halieutiques (DCMAP, Data Collection Multi Annual Programme). Ce guide a pour but de standardiser les prélèvements d’otolithes effectués à l'Ifremer sur ces grands pélagiques. Il reprend et complète la synthèse française des procédures...
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Ano: 2014 URL: http://archimer.ifremer.fr/doc/00212/32318/30767.pdf
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Identification of skipjack tuna juveniles based on DNA control region sequences and potential spawning area around reunion island ArchiMer
Nikolic, Natacha; Jerome, Marc; Fonteneau, Alain; Evano, Hugues; Verrez-bagnis, Veronique.
In this study, we confirmed that DNA control region can be used to identify potential spawning area from pelagic juveniles species. We used the mitochondrial DNA control region to identify tuna juveniles predated by common dolphinfish and sampled in surface waters around Reunion Island. These were skipjack juveniles at an early stage (small length and young age). The biological results confirmed the species identification based on DNA analysis. Catch data by longline reveal a higher number of skipjack from October to December around Reunion Island corresponding to the period of our skipjack juvenile sampling
Tipo: Text Palavras-chave: Skipjack tuna; Reunion island; DNA; Age; Juvenile.
Ano: 2016 URL: https://archimer.ifremer.fr/doc/00299/40993/42657.pdf
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Observations à bord des navires de pêche. Bilan de l'échantillonnage 2010 ArchiMer
Fauconnet, Laurence; Badts, Vincent; Biseau, Alain; Dimeet, Joel; Dintheer, Christian; Dube, Benoit; Gaudou, Olivier; Lorance, Pascal; Messannot, Cecile; Nikolic, Natacha; Peronnet, Isabelle; Reecht, Yves; Rochet, Marie-joelle; Tetard, Alain.
Ce document est une synthèse des informations collectées en 2010 à bord des navires de pêche professionnelle dans le cadre de l'action ObsMer. Cette action vise à observer in situ l'activité de pêche et l'ensemble de la capture, particulièrement la partie non retenue, en identifiant les espèces capturées, les tonnages par espèce et en prenant des mesures de tailles.
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Ano: 2011 URL: http://archimer.ifremer.fr/doc/00054/16490/16058.pdf
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Projet GERMON. Structure génétique et migration du thon Germon ArchiMer
Nikolic, Natacha; Puech, Alexis; Chouvelon, Tiphaine; Munschy, Catherine; Bodin, Nathalie; Brach-papa, Christophe; Potier, Michel; West, Wendy; Knoery, Joel; Zudaire, Iker; Dhurmeea, Zahirah; Degroote, Maxime; Cedras, Maria; Evano, Hugues; Bourjea, Jerome.
The GERMON project had several aims i) to understand the populations’ structure between albacore tuna southwest of the Indian Ocean and southeast Atlantic, ii) to determine the origin of juveniles observed in South Africa iii) to improve the understanding of the biology field (Size/Size and Size/Weight; reproduction and feeding area; trophic linkages) and iv) to initiate work on chemical analyzes and adaptation of the albacore species to its environment. These aims have been held and the results allow a better understanding of the management albacore. A general summary of results is presented in Part 9.
Tipo: Text Palavras-chave: Germon; Thunnus alalunga; Génétique; Stock; Structure; Connectivité; Chimie; Reproduction; Alimentation; Habitat; Albacore; Thunnus alalunga; Genetic; Stock; Structure; Connectivity; Chemical; Reproduction; Feeding behavior; Habitat.
Ano: 2015 URL: http://archimer.ifremer.fr/doc/00293/40461/39152.pdf
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Reproductive Biology of Albacore Tuna (Thunnus alalunga) in the Western Indian Ocean ArchiMer
Dhurmeea, Zahirah; Zudaire, Iker; Chassot, Emmanuel; Cedras, Maria; Nikolic, Natacha; Bourjea, Jerome; West, Wendy; Appadoo, Chandani; Bodin, Nathalie.
The reproductive biology of albacore tuna, Thunnus alalunga, in the western Indian Ocean was examined through analysis of the sex ratio, spawning season, length-at-maturity (L50), spawning frequency and fecundity. From 2013 to 2015, a total of 923 female and 867 male albacore were sampled. A bias in sex ratio was found in favor of females with fork length (LF) < 100 cm. Using histological analyses and gonadosomatic index, spawning was found to occur between 10°S and 30°S, mainly to the east of Madagascar from October to January. Large females contributed more to reproduction through their longer spawning period compared to small individuals. The L50 (mean ± standard error) of female albacore was estimated at 85.3 ± 0.7 cm LF. Albacore spawn on average...
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Ano: 2016 URL: https://archimer.ifremer.fr/doc/00362/47284/47261.pdf
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Reunion island pelagic longline fishery characterization and standardization of albacore catch rates ArchiMer
Coelho, Rui; Nikolic, Natacha; Evano, Hugues; Miguel, N; Santos; Bourjea, Jerome.
This document presents a characterization of the Reunion Island pelagic longline fishery, with a first description of the albacore catches, catch-at-size, and the standardized catch per unit of effort (CPUE) series for the period 1992-2013. The spatial catch and effort analysis revealed the major areas of operation of the fishery, and the identification of the fishery core region closer to the Reunion Island area. The trends in the albacore catch-at-size were analyzed annually, and compared between the seasons and regions of operation of the fishery. The albacore nominal CPUEs were calculated as number of fish per 1000 hooks, and were standardized using Generalized Linear Models (GLMs). Four different modeling approaches were used (including Tweedie,...
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Ano: 2014 URL: http://archimer.ifremer.fr/doc/00208/31926/30344.pdf
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Review and Cartography of scientific literature on Thunnus alalunga ArchiMer
Nikolic, Natacha; Bourjea, Jerome.
Albacore tuna (Thunnus alalunga) is an economically valuable species worldwide. However information on this species is sparse in some scientific fields according to oceans. This disparity has been revealed from bibliometric analysis. Here, we presented the clustering map and the classification of scientific fields by ocean.
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Ano: 2013 URL: http://archimer.ifremer.fr/doc/00251/36260/34809.pdf
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Short review on biology, structure, and migration of thunnus alalunga in the indian ocean ArchiMer
Nikolic, Natacha; Fonteneau, Alain; Hoarau, Ludovic; Morandeau, Gilles; Puech, Alexis; Bourjea, Jerome.
The most comprehensive contribution to our understanding of albacore tuna, Thunnus alalunga, comes from studies in the Pacific and Atlantic Ocean. In the Indian Ocean, there is little information about this species in the literature. In the present paper, we propose a short review on albacore in the Indian Ocean with a particular attention on the biology, the structure, and the migration. We focused on these fields because they are key components of stock assessment undertaken by the Regional Fishery Management Organization. This work is part of an ongoing work on a global review of albacore tuna in the world.
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Ano: 2014 URL: http://archimer.ifremer.fr/doc/00208/31925/30343.pdf
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Using inferred drivers of discarding behaviour to evaluate discard mitigation measures ArchiMer
Catchpole, T. L.; Feekings, J. P.; Madsen, N.; Palialexis, A.; Vassilopoulou, V.; Valeiras, J.; Garcia, T.; Nikolic, Natacha; Rochet, Marie-joelle.
Discards refer to the part of the catch not retained on board during commercial fishing operations, but returned to the sea. The proposed European Union Common Fisheries Policy reform, to be implemented in 2014, sets out a gradual elimination of discards by reducing unwanted catches and ensuring that all catches are landed. To develop successful discard mitigation measures, it is necessary to identify the reasons for discarding. Here, we have developed a simple model that can be applied to data from observer programmes (ObsPs) to establish the contribution of different drivers of discarding behaviour. The analysis makes inferences on the causes of discarding by partitioning discards into four categories based on the length of the fish and the associated...
Tipo: Text Palavras-chave: CFP; Discards; Fishers market; Quota.
Ano: 2014 URL: http://archimer.ifremer.fr/doc/00159/27030/26202.pdf
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VarEff. Variation of Effective size. Software VAREFF (package R in file.zip) and the documentation ArchiMer
Nikolic, Natacha; Chevalet, Claude.
This package estimates the effective sizes from actual to ancestral time with a coalescent approach. It works on steps of constant size to resolve the probabilities by an approximation of maximum likelihood from a Bayesian posterior distribution. This package works with R software version 3.0.2 or later for VAREFF version 1.1 and R software version 2.10.0 or later for VAREFF version 1.0. This new version contains a new function TMRCA to estimate the time of the detected bottleneck.
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Ano: 2014 URL: http://archimer.ifremer.fr/doc/00177/28781/27262.pdf
Registros recuperados: 18
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