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1,416 Research products

  • European Marine Science
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  • European Marine Science

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Trouche, Blandine;

    Anvi'o databases of the 47 ammonia-oxidizing archaea MAGs from abyssal and hadal surface sediments presented in Trouche et al, 2023 (https://doi.org/10.1038/s43705-023-00341-6). 

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ ZENODOarrow_drop_down
    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    ZENODO
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  • Authors: Diaz-Arce, Natalia; Gagnaire, Pierre-Alexandre; Richardson, David E.; Walter III, John F.; +15 Authors

    The commercially important Atlantic bluefin tuna (Thunnus thynnus), a large migratory fish, has experienced notable recovery aided by accurate resource assessment and effective fisheries management efforts. Traditionally, this species has been perceived as consisting of eastern and western populations, spawning respectively in the Mediterranean Sea and the Gulf of Mexico, with mixing occurring throughout the Atlantic. However, recent studies have challenged this assumption by revealing weak genetic differentiation and identifying a previously unknown spawning ground in the Slope Sea used by Atlantic bluefin tuna of uncertain origin. To further understand the current and past population structure and connectivity of Atlantic bluefin tuna, we have assembled a unique dataset including thousands of genome-wide single-nucleotide polymorphisms (SNPs) from 500 larvae, young of the year and spawning adult samples covering the three spawning grounds and including individuals of other Thunnus species. Our analyses support two weakly differentiated but demographically connected ancestral populations that interbreed in the Slope Sea. Moreover, we also identified signatures of introgression from albacore (Thunnus alalunga) into the Atlantic bluefin tuna genome, exhibiting varied frequencies across spawning areas, indicating strong gene flow from the Mediterranean Sea towards the Slope Sea. We hypothesize that the observed genetic differentiation may be attributed to increased gene flow caused by a recent intensification of westward migration by the eastern population, which could have implications for the genetic diversity and conservation of western populations. Future conservation efforts should consider these findings to address potential genetic homogenization in the species.

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Daniel Moreno-Parada; Alexander Robinson; Marisa Montoya; Jorge Alvarez-Solas;

    We present the ice-sheet model Nix, an open-source project intended for collaborative development. Nix is a 2D thermomechanical model written in C/C++ that simultaneously solves for the momentum balance equations, mass conservation and temperature evolution.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ ZENODOarrow_drop_down
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    ZENODO
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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Martínez Moreno, Josué;

    This dataset includes the NEMO 4.0.2 configuration used and analysed in the paper titled "Eddy-driven heterogeneity in sea ice during the ice-growth season". The output data is approximately 4TB for the 3 idealised configuration used in the manuscript, thus we opted to distribute the configuration. Note: The initial conditions for each simulation are compressed into the file `init_cond.zip` The configuration for one of the simulations is compressed in the file `config.zip` In order to reproduce all the runs, it's only required to change the initial conditions in the file namelist_cfg and namelist_ice_cfg. Further information and scripts to reproduce the result of the manuscript can be found at: https://github.com/josuemtzmo/Ice_formation

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ ZENODOarrow_drop_down
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  • Authors: Garcia-Baron, Isabel; Granado, Igor; Astarloa, Amaia; Boyra, Guillermo; +7 Authors

    Fishery bycatch is a serious threat to several protected, endangered, and threatened species (PETs), requiring urgent action to develop and implement conservation measures. This study performs an Ecological Risk Assessment for the Effects of Fishing (ERAEF) using a spatially and temporally Productivity-Susceptibility Analysis (PSA) to calculate the potential risk to great shearwaters (Ardenna gravis) from direct interaction with the metiers of the artisanal tuna fishing fleet at the Bay of Biscay (baitboats and trollers). The PSA incorporates productivity attributes based on the Fecundity Factor Index; and susceptibility attributes calculated from the species spatio-temporal abundance patterns obtained developing density surface models and distribution and intensity of fishing activity based on pooled Vessel Monitoring System and logbook data. The PSA shows an overall moderate risk to great shearwaters by the artisanal tuna fishery also revealing that baitboats are less risky than trollers (risk score of 3.12 +/- 0.09 and 2.70 +/- 0.05, respectively). Spatially, the likelihood of presence of high potential risk areas was associated with prey availability for both the PET and the commercial fish species. The systematic, repeatable, and standardized ERAEF followed in this study can be used to advice for ecosystem-based fisheries management to improve management measures for reducing bycatch of PETs around the world.

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  • Authors: Aliani, Stefano; Basurko, Oihane C.; Arias, Manuel; Isobe, Atsuhiko; +3 Authors
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  • Authors: Zorita, Izaskun; Rodriguez, Jose German; Garmendia, Joxe Mikel;

    This dataset presents the growth performance and survival of black scallops (Mimachlamys varia) reared under suspended conditions using different growing systems at two different sites of the Basque coast (SE Bay of Biscay). Monthly data on environmental variables (temperature, salinity, oxygen satu-ration and chlorophyll ``a�� concentration) in the water col-umn is also provided. Juveniles obtained from a hatchery with a mean length of 23.6 +/- 4.12 mm and a mean wet weight of 2.06 +/- 1.09 g were deployed in cages and pots at two experimental sites: a raft installed in sheltered waters and a longline located at offshore waters. The experiment was run from June 2019 to August 2020 (447 days). Black scallops were collected every one or two months and at each sampling time a cage and a pot were retrieved from each site. Black scallop survival and growth performance were de-termined. This database is useful for (i) assessing the viability of the species on the Basque coast, (ii) determining the time needed for black scallops to reach commercial size, (iii) pro- moting species diversification in the emerging offshore aqua -culture sector in the Basque Country and, (iv) for comparison with other biogeographical areas.(c) 2022 The Author(s). Published by Elsevier Inc. This is an open access article under the CC BY license ( http://creativecommons.org/licenses/by/4.0/ )

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  • Authors: Gesteiro, E.; Pantoja-Arevalo, L.; Piccardi, A.; Canada-Lopez, D.; +4 Authors
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  • Authors: Borja, Angel; Karstensen, Johannes; Scobie, Michelle; Barbier, Michele;
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  • Authors: Molony, Brett W. W.; Ford, Alex T. T.; Sequeira, Ana M. M.; Borja, Angel; +8 Authors
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1,416 Research products
  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Trouche, Blandine;

    Anvi'o databases of the 47 ammonia-oxidizing archaea MAGs from abyssal and hadal surface sediments presented in Trouche et al, 2023 (https://doi.org/10.1038/s43705-023-00341-6). 

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ ZENODOarrow_drop_down
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    ZENODO
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  • Authors: Diaz-Arce, Natalia; Gagnaire, Pierre-Alexandre; Richardson, David E.; Walter III, John F.; +15 Authors

    The commercially important Atlantic bluefin tuna (Thunnus thynnus), a large migratory fish, has experienced notable recovery aided by accurate resource assessment and effective fisheries management efforts. Traditionally, this species has been perceived as consisting of eastern and western populations, spawning respectively in the Mediterranean Sea and the Gulf of Mexico, with mixing occurring throughout the Atlantic. However, recent studies have challenged this assumption by revealing weak genetic differentiation and identifying a previously unknown spawning ground in the Slope Sea used by Atlantic bluefin tuna of uncertain origin. To further understand the current and past population structure and connectivity of Atlantic bluefin tuna, we have assembled a unique dataset including thousands of genome-wide single-nucleotide polymorphisms (SNPs) from 500 larvae, young of the year and spawning adult samples covering the three spawning grounds and including individuals of other Thunnus species. Our analyses support two weakly differentiated but demographically connected ancestral populations that interbreed in the Slope Sea. Moreover, we also identified signatures of introgression from albacore (Thunnus alalunga) into the Atlantic bluefin tuna genome, exhibiting varied frequencies across spawning areas, indicating strong gene flow from the Mediterranean Sea towards the Slope Sea. We hypothesize that the observed genetic differentiation may be attributed to increased gene flow caused by a recent intensification of westward migration by the eastern population, which could have implications for the genetic diversity and conservation of western populations. Future conservation efforts should consider these findings to address potential genetic homogenization in the species.

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Daniel Moreno-Parada; Alexander Robinson; Marisa Montoya; Jorge Alvarez-Solas;

    We present the ice-sheet model Nix, an open-source project intended for collaborative development. Nix is a 2D thermomechanical model written in C/C++ that simultaneously solves for the momentum balance equations, mass conservation and temperature evolution.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ ZENODOarrow_drop_down
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    Authors: Martínez Moreno, Josué;

    This dataset includes the NEMO 4.0.2 configuration used and analysed in the paper titled "Eddy-driven heterogeneity in sea ice during the ice-growth season". The output data is approximately 4TB for the 3 idealised configuration used in the manuscript, thus we opted to distribute the configuration. Note: The initial conditions for each simulation are compressed into the file `init_cond.zip` The configuration for one of the simulations is compressed in the file `config.zip` In order to reproduce all the runs, it's only required to change the initial conditions in the file namelist_cfg and namelist_ice_cfg. Further information and scripts to reproduce the result of the manuscript can be found at: https://github.com/josuemtzmo/Ice_formation

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ ZENODOarrow_drop_down
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  • Authors: Garcia-Baron, Isabel; Granado, Igor; Astarloa, Amaia; Boyra, Guillermo; +7 Authors

    Fishery bycatch is a serious threat to several protected, endangered, and threatened species (PETs), requiring urgent action to develop and implement conservation measures. This study performs an Ecological Risk Assessment for the Effects of Fishing (ERAEF) using a spatially and temporally Productivity-Susceptibility Analysis (PSA) to calculate the potential risk to great shearwaters (Ardenna gravis) from direct interaction with the metiers of the artisanal tuna fishing fleet at the Bay of Biscay (baitboats and trollers). The PSA incorporates productivity attributes based on the Fecundity Factor Index; and susceptibility attributes calculated from the species spatio-temporal abundance patterns obtained developing density surface models and distribution and intensity of fishing activity based on pooled Vessel Monitoring System and logbook data. The PSA shows an overall moderate risk to great shearwaters by the artisanal tuna fishery also revealing that baitboats are less risky than trollers (risk score of 3.12 +/- 0.09 and 2.70 +/- 0.05, respectively). Spatially, the likelihood of presence of high potential risk areas was associated with prey availability for both the PET and the commercial fish species. The systematic, repeatable, and standardized ERAEF followed in this study can be used to advice for ecosystem-based fisheries management to improve management measures for reducing bycatch of PETs around the world.

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  • Authors: Aliani, Stefano; Basurko, Oihane C.; Arias, Manuel; Isobe, Atsuhiko; +3 Authors
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  • Authors: Zorita, Izaskun; Rodriguez, Jose German; Garmendia, Joxe Mikel;

    This dataset presents the growth performance and survival of black scallops (Mimachlamys varia) reared under suspended conditions using different growing systems at two different sites of the Basque coast (SE Bay of Biscay). Monthly data on environmental variables (temperature, salinity, oxygen satu-ration and chlorophyll ``a�� concentration) in the water col-umn is also provided. Juveniles obtained from a hatchery with a mean length of 23.6 +/- 4.12 mm and a mean wet weight of 2.06 +/- 1.09 g were deployed in cages and pots at two experimental sites: a raft installed in sheltered waters and a longline located at offshore waters. The experiment was run from June 2019 to August 2020 (447 days). Black scallops were collected every one or two months and at each sampling time a cage and a pot were retrieved from each site. Black scallop survival and growth performance were de-termined. This database is useful for (i) assessing the viability of the species on the Basque coast, (ii) determining the time needed for black scallops to reach commercial size, (iii) pro- moting species diversification in the emerging offshore aqua -culture sector in the Basque Country and, (iv) for comparison with other biogeographical areas.(c) 2022 The Author(s). Published by Elsevier Inc. This is an open access article under the CC BY license ( http://creativecommons.org/licenses/by/4.0/ )

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  • Authors: Gesteiro, E.; Pantoja-Arevalo, L.; Piccardi, A.; Canada-Lopez, D.; +4 Authors
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  • Authors: Borja, Angel; Karstensen, Johannes; Scobie, Michelle; Barbier, Michele;
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