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# Long-term changes in taxonomic and functional composition of European marine fish communities The GitHub linked repository is here: [European_demersal_fish_assemblages (](https://github.com/auroreRECE/European_demersal_fish_assemblages)DOI [10.5281/zenodo.11190119](https://zenodo.org/doi/10.5281/zenodo.11190119)) ## Overview This project is dedicated to studying the influence of environmental conditions and fishing on the functional and taxonomic structure of a demersal fish community in Europe. This GitHub repository provides the code of the Receveur et al. (2024) publication in Ecography. ## Data files description ### df\_MFA.csv This file contains the coordinates resulting from the Multiple Factor Analysis (MFA): * X : the row numbers ; * ID_unique : a unique ID number corresponding to the trawls ; * Dim.1 : the coordinate of each trawl on the first MFA dimension ; * Dim.2 : the coordinate of each trawl on the second MFA dimension ; * Dim.3 : the coordinate of each trawl on the third MFA dimension ; ### df\_PCA.csv This file contains the coordinates * X : the row numbers ; * ID_unique : a unique ID number corresponding to the trawls ; * Dim.1 : the coordinate of each trawl on the first PCA dimension ; * Dim.2 : the coordinate of each trawl on the second PCA dimension ; * Dim.3 : the coordinate of each trawl on the third PCA dimension ; ### df\_env.csv This file contains the following environmental parameters: * X : the row numbers ; * ID_unique : a unique ID number corresponding to the trawls ; * Year : the Year of each trawl ; * Quarter : the Quarter of each trawl ; * Ecoregion : the Ecoregion where each trawl has been done; * Survey : the name of the Survey ; * x_my_spatial_id : the longitude of the ICES rectangle where the trawl has been done ; * y_my_spatial_id : the latitude of the ICES rectangle where the trawl has been done ; * my_spatial_id : an ID for the ICES rectangle where the trawl has been done ; * depth : the bottom depth (meters) ; * depth_span : the bottom depth variability (maximum depth of the ICES cell - minimum depth) (meters) ; * chloro_mea: the mean chlorophyll-a concentration (mg/m³) ; * mlotst_mea : the mean mixed layer depth (meters) ; * oxy_bottom_mea : the mean bottom dissolved oxygen (umol/l) ; * oxy_surf_mea : the mean surface dissolved oxygen (umol/l) ; * temp_bottom_mea : the mean bottom temperature (°C) ; * temp_surf_mea : the mean surface temperature (°C) ; * curr_surf_mea : the mean surface current strength (m/s) ; * curr_bottom_mea : the mean bottom current strength (m/s) ; * sal_surf_mea : the mean surface salinity (PSU) ; * chloro_std : the standard deviation of chlorophyll-a concentration (mg/m³) ; * mlotst_std : the standard deviation of mixed layer depth (meters) ; * oxy_bottom_std : the standard deviation of bottom dissolved oxygen (umol/l) ; * oxy_surf_std : the standard deviation of surface dissolved oxygen (umol/l) ; * temp_bottom_std : the standard deviation of bottom temperature (°C) ; * temp_surf_std : the standard deviation of surface temperature (°C) ; * curr_surf_std : the standard deviation of surface current strength (m/s) ; * curr_bottom_std : the standard deviation of bottom current strength (m/s) ; * sal_surf_std : the standard deviation of surface salinity (PSU). ## Raw Data sources ### Biological data Trawls content is publicly available for the North East Atlantic (DATRAS database). Mediterranean data (MEDITS database) are available upon request to Maritime Affairs and Fisheries (MARE DATACOLLECTIONFRAMEWORK). The project uses the following surveys: | Survey Code | Survey name | Area | Period | References | | :---------- | :----------------------------------------------------- | :------------------------------------- | :-------: | :--------: | | BITS | Baltic International Trawl Survey | Baltic Sea | 1994-2019 | 4 | | BTS | Beam Trawl Survey | Celtic Sea; English Channel; North Sea | 1997-2019 | 7 | | BTS-VIII | Beam Trawl Survey – Bay of Biscay | Bay of Biscay | 2011-2019 | 7 | | DWS | Deepwater Survey | Irish Sea | 2006-2007 | 8 | | DYFS | Inshore Beam Trawl Survey | Southern North Sea | 2002-2019 | 7 | | EVHOE | French Southern Atlantic Bottom trawl Survey | Bay of Biscay and Celtic Sea | 2003-2019 | 1 | | FR-CGFS | French Channel ground Survey | English Channel | 1997-2019 | 2 | | IE-IAMS | Irish Anglerfish and megrim Survey | Scottish rockall and Irish Sea | 2016-2019 | 2 | | IE-IGFS | Irish Groundfish | Ireland Shelf Sea | 2003-2019 | 2 | | MEDITS | International bottom trawl survey in the Mediterranean | Mediterranean Sea | 1994-2018 | 9 | | NIGFS | Northern Ireland Groundfish Survey | Irish Sea | 2009-2019 | 2 | | NS-IBTS | North Sea International Bottom Trawl Survey | North Sea | 1997-2019 | 2 | | PT-IBTS | Portuguese International Bottom Trawl Survey | Portugal Shelf Sea | 2003-2017 | 2 | | ROCKALL | Scottish Rockall Survey (until 2010) | Rockall plateau | 2003-2009 | 2 | | SCOROC | Scottish Rockall Survey (from 2011) | Scottish plateau | 2011-2019 | 2 | | SCOWCGFS | Scottish West Coast Groundfish Survey | Scottish west coast | 2011-2019 | 2 | | SNS | Sole Net Survey | Southern North Sea | 2002-2019 | 7 | | SP-ARSA | Spanish Gulf of Cadiz Bottom Trawl Survey | Spain | 2003-2019 | 6 | | SP-NORTH | Spanish North Bottom Trawl Survey | North of Spain | 2003-2019 | 2 | | SP-PORC | Spanish Porcupine Bottom Trawl Survey | Irish Sea | 2003-2019 | 5 | | SWC-IBTS | Scottish West Coast International Bottom Trawl Survey | Scotland Shelf Sea | 1999-2010 | 2 | ### Trait data The complete traits data table is available upon request. It is a combination of the publicly available PANGAEA database, Fishbase information, and inference based on the FISHLIFE project. ### Environmental variables The data used are all publicly available on the Copernicus website. ### Fishing data The data used are all publicly available on the Global Fishing Watch website. ## Recommended Citation Please use the following citation: Receveur, A., Leprieur F., Ellingsen K., Keith D., Kleisner K., McLean M., Mérigot B., Mills K., Mouillot D., Rufino M., Trindade-Santos I., Van Hoey G., Albouy C., Auber A. Data for “Long-term changes in taxonomic and functional composition of European marine fish communities.” Dryad Digital Repository. (2024). doi.org/10.5061/dryad.x69p8czsj ## Acknowledgments This research is a product of the MAESTRO group funded by the synthesis center CESAB of the French Foundation for Research on Biodiversity (FRB). We thank France Filière Pêche (FFP) who founded the MAESTRO project. We also warmly thank all those who have contributed in any way to the scientific surveys and data collection/provision (European Institutions and scientists implicated in DATRAS-BTS, MEDITS, and DCF). ## References 1. ICES. The EVHOE survey (France). ICES Documents. (1997). Available at: https://archimer.ifremer.fr/doc/00036/14707/12013.pdf 2. ICES. Manual of the IBTS North Eastern Atlantic Surveys. Series of ICES Survey Protocols SISP 15 (2017). doi:10.17895/ices.pub.3519 3. ICES. Manual for the International Bottom Trawl Surveys Revision VIII. Series of ICES Survey Protocols SISP 10 - IBTS IX. (2015). 4. https://ices-library.figshare.com/articles/report/SISP_7_-*Manual_for_the_Baltic_International_Trawl_Surveys_BITS*/19050986 5. https://gis.ices.dk/geonetwork/srv/api/records/ce94a257-c8b3-44f7-9fd0-6bd7449ce073 6. http://ices.dk/sites/pub/CM%20Doccuments/2002/D/D0302A.pdf 7. https://ices-library.figshare.com/articles/report/SISP_14_-*Manual_for_the_Offshore_Beam_Trawl_Surveys_WGBEAM*/19051328 8. https://gis.ices.dk/geonetwork/srv/api/records/936b4fb7-9baa-4dbc-abd0-b1b7bda16406 9. https://archimer.ifremer.fr/doc/00117/22783/20585.pdf Evidence of large-scale biodiversity degradation in marine ecosystems has been reported worldwide, yet most research has focused on few species of interest or on limited spatiotemporal scales. Here we assessed the spatial and temporal changes in the taxonomic and functional composition of fish communities in European seas over the last 25 years (1994-2019). We then explored how these community changes were linked to environmental gradients and fishing pressure. We show that the spatial variation in fish species composition is more than two times higher than the temporal variation, with a marked spatial continuum in taxonomic composition and a more homogenous pattern in functional composition. The regions warming the fastest are experiencing an increasing dominance and total abundance of r-strategy fish species (lower age of maturity). Conversely, regions warming more slowly show an increasing dominance and total abundance of K-strategy species (high trophic level and late reproduction). Among the considered environmental variables, sea surface temperature, surface salinity, and chlorophyll-a most consistently influenced communities’ spatial patterns, while bottom temperature and oxygen had the most consistent influence on temporal patterns. Changes in communities’ functional composition were more closely related to environmental conditions than taxonomic changes. Our study demonstrates the importance of integrating community-level species traits across multi-decadal scales and across a large region to better capture and understand ecosystem-wide responses and provides a different lens on community dynamics that could be used to support sustainable fisheries management.

Project: GCOS Earth Heat Inventory - A study under the Global Climate Observing System (GCOS) concerted international effort to update the Earth heat inventory (EHI), and presents an updated international assessment of ocean warming estimates, and new and updated estimates of heat gain in the atmosphere, cryosphere and land over the period from 1960 to present. Summary: The file “GCOS_EHI_1960-2020_Earth_Heat_Inventory_Ocean_Heat_Content_data.nc” contains a consistent long-term Earth system heat inventory over the period 1960-2020. Human-induced atmospheric composition changes cause a radiative imbalance at the top-of-atmosphere which is driving global warming. Understanding the heat gain of the Earth system from this accumulated heat – and particularly how much and where the heat is distributed in the Earth system - is fundamental to understanding how this affects warming oceans, atmosphere and land, rising temperatures and sea level, and loss of grounded and floating ice, which are fundamental concerns for society. This dataset is based on a study under the Global Climate Observing System (GCOS) concerted international effort to update the Earth heat inventory published in von Schuckmann et al. (2020), and presents an updated international assessment of ocean warming estimates, and new and updated estimates of heat gain in the atmosphere, cryosphere and land over the period 1960-2020. The dataset also contains estimates for global ocean heat content over 1960-2020 for different depth layers, i.e., 0-300m, 0-700m, 700-2000m, 0-2000m, 2000-bottom, which are described in von Schuckmann et al. (2022). This version includes an update of heat storage of global ocean heat content, where one additional product (Li et al., 2022) had been included to the initial estimate. The Earth heat inventory had been updated accordingly, considering also the update for continental heat content (Cuesta-Valero et al., 2023).

Energy and environmental stability are positively correlated with species richness along broad-scale spatial gradients in terrestrial ecosystems, so their relative importance in generating and preserving diversity cannot be readily disentangled. This study seeks to exploit the negative correlation between energy and stability along the oceanic depth gradient to better understand their relative contribution in shaping broadscale biodiversity patterns. We develop a conceptual framework by simulating speciation and extinction along energy and stability gradients to generate expected patterns of biodiversity for a suite of complementary phylogenetic diversity metrics. Using a time-calibrated molecular phylogeny for New Zealand marine ray-finned fishes and a replicated community ecological sampling design, we then modelled these metrics along large-scale depth and latitude gradients. Our results indicate that energy-rich shallow waters may be an engine of diversity for percomorphs, but also suggest that recent speciation occurs in ancient fish lineages in the deep sea, hence questioning the role of energy as a key driver of speciation. Despite potentially facing high extinction early in their evolution, ancient phylogenetic lineages specialized for the deep-sea were likely preserved by environmental stability during the Cenozoic. Furthermore, intermediate depths might be a “museum” (or zone of overlap) for distinct lineages that occur predominantly in either shallow or deep-sea waters. These intermediate depths (500-900m) may form a “phylogenetic diversity bank”, perhaps providing a refuge during ancient (Mesozoic) extreme anoxic events affecting the deep sea and more recent (Pliocene-Pleistocene) climatic events occurring in shallow ecosystems. Finally, the phylogenetic structures observed in fish communities at intermediate depths suggest other processes might restrict the co-occurrence of closely related species. Overall, by combining a conceptual framework with models of empirical phylogenetic diversity patterns, our study paves the way for understanding the determinants of biodiversity across the largest habitat on earth.

How much do poor rural households rely on environmental extraction from natural ecosystems? And how does climate variability impact their livelihoods? This paper sheds light on these two questions with household income data from the Poverty and Environment Network pantropical data set, combined with climate data for the past three decades. The study finds that extraction of wild resources (from natural forests, bushlands, fallows, etc.) provides on average as much income (about 27 percent) as crops across the smallholder sample. The cross-section data on past reactions to household self-perceived economic shocks and observed production reactions to climate anomalies can, respectively, provide hints about livelihood vulnerability to current climate variability, which is likely to worsen with climate change. Forest extraction did not figure among the most favored response strategies to households’ self-perceived economic shocks, but households undertake subtle substitutions in sector production in response to weather anomalies that accentuate suboptimal climatic conditions for cropping. By relying more on forest extraction and wages, households compensate quite successfully for declining crop incomes. This paints a cautiously optimistic picture about fairly flexible rural livelihood reactions to current climate variability, and featuring forests as potentially important in household coping strategies.

An attempt is made to calculate the specific production of major zooplankton groups using a physiological method proposed by Winberg. The present report is based on material obtained from 50 stations in the Aegean and Adriatic Seas; Tunisian Strait and Algerian-Provencal basin. The algorithm of Zharov, used by the author, includes the data biomass, abundance, relation between metabolism at given temperature and organism, dependence of production upon metabolism, and the food utilization coefficient for growth.

The objective of GHYDRO, a France Energies Marines project, is to draw up a methodology guide that provide stakeholders in tidal stream energy projects with decision-making help for the environmental integration of generators and tidal farms. The methodological guide currently represents a summary of the recommendations concerning the diverse physical parameters and biological compartments of the ecosystems that are potentially affected. The physical and biological compartments of the marine ecosystems have been addressed separately in the guide, in order to propose methodologies adapted to each one, in relation to the establishment of the initial state, the characterisation of the potential impacts and the environmental monitoring. To bring together the broadest range of expertise, France Energies Marines has created a consortium of specialists in tidal power technologies and in the marine environment coming from both research institutes and companies.

International audience This paper synthesizes the technical feasibility study carried out for a hybrid ocean energy converter. The solution envisaged involves a 100m large semi-submersible platform designed with five columns and equipped with floating pitching Wave Energy Converters (WECs). This floating structure is mounted with a 5MW wind turbine. The present study covers power performance estimations and structural analysis. The first section describes the “Wave to Wire” model programmed in both frequency and time domain. The mathematical and hydrodynamic assumptions are highlighted together with the numerical model. The second part starts with the assessment of the performances of this device, carried out on in-house simulation codes. Based on combined wave and wind resources, the annual average absorbed power figures are compared with published results for existing ocean energy converters. The total rated power of the combined system reaches 10MW. Eventually, the last section approaches practical topics, directly related to the capital and operational costs inherent to an industrial development phase. The total steel mass of the semi-submersible is estimated first, from structural calculations carried out for a selection of 3D static loads cases. Then, the extreme loads from the WECs are taken into account for a second design phase.

La gestion des risques a réduit la vulnérabilité aux inondations et aux sécheresses dans le monde1,2, mais leurs impacts continuent d'augmenter3. Une meilleure compréhension des causes de l'évolution des impacts est donc nécessaire, mais a été entravée par un manque de données empiriques4,5. Sur la base d'un ensemble de données mondiales de 45 paires d'événements qui se sont produits dans la même zone, nous montrons que la gestion des risques réduit généralement les impacts des inondations et des sécheresses, mais fait face à des difficultés pour réduire les impacts d'événements sans précédent d'une ampleur jamais connue auparavant. Si le deuxième événement était beaucoup plus dangereux que le premier, son impact était presque toujours plus élevé. En effet, la gestion n'a pas été conçue pour faire face à de tels événements extrêmes : par exemple, ils ont dépassé les niveaux de conception des digues et des réservoirs. Dans deux cas de réussite, l'impact du deuxième événement, plus dangereux, a été plus faible, en raison de l'amélioration de la gouvernance de la gestion des risques et des investissements élevés dans la gestion intégrée. La difficulté observée à gérer des événements sans précédent est alarmante, étant donné que des événements hydrologiques plus extrêmes sont projetés en raison du changement climatique3. La gestión de riesgos ha reducido la vulnerabilidad a las inundaciones y sequías a nivel mundial1,2, pero sus impactos siguen aumentando3. Por lo tanto, se necesita una mejor comprensión de las causas de los impactos cambiantes, pero se ha visto obstaculizada por la falta de datos empíricos4,5. Sobre la base de un conjunto de datos global de 45 pares de eventos que ocurrieron dentro de la misma área, mostramos que la gestión de riesgos generalmente reduce los impactos de inundaciones y sequías, pero enfrenta dificultades para reducir los impactos de eventos sin precedentes de una magnitud no experimentada anteriormente. Si el segundo evento era mucho más peligroso que el primero, su impacto era casi siempre mayor. Esto se debe a que la gestión no fue diseñada para hacer frente a tales eventos extremos: por ejemplo, superaron los niveles de diseño de diques y embalses. En dos casos de éxito, el impacto del segundo evento, más peligroso, fue menor, como resultado de una mejor gobernanza de la gestión de riesgos y una alta inversión en la gestión integrada. La dificultad observada para gestionar eventos sin precedentes es alarmante, dado que se proyectan eventos hidrológicos más extremos debido al cambio climático3. Risk management has reduced vulnerability to floods and droughts globally1,2, yet their impacts are still increasing3. An improved understanding of the causes of changing impacts is therefore needed, but has been hampered by a lack of empirical data4,5. On the basis of a global dataset of 45 pairs of events that occurred within the same area, we show that risk management generally reduces the impacts of floods and droughts but faces difficulties in reducing the impacts of unprecedented events of a magnitude not previously experienced. If the second event was much more hazardous than the first, its impact was almost always higher. This is because management was not designed to deal with such extreme events: for example, they exceeded the design levels of levees and reservoirs. In two success stories, the impact of the second, more hazardous, event was lower, as a result of improved risk management governance and high investment in integrated management. The observed difficulty of managing unprecedented events is alarming, given that more extreme hydrological events are projected owing to climate change3. أدت إدارة المخاطر إلى تقليل التعرض للفيضانات والجفاف على مستوى العالم1,2، ومع ذلك لا تزال آثارها تتزايد3. لذلك هناك حاجة إلى فهم أفضل لأسباب تغير التأثيرات، ولكن أعيق ذلك بسبب نقص البيانات التجريبية4، 5. على أساس مجموعة بيانات عالمية مكونة من 45 زوجًا من الأحداث التي وقعت داخل نفس المنطقة، نظهر أن إدارة المخاطر تقلل عمومًا من آثار الفيضانات والجفاف ولكنها تواجه صعوبات في الحد من آثار الأحداث غير المسبوقة ذات الحجم الذي لم تشهده من قبل. إذا كان الحدث الثاني أكثر خطورة من الأول، فإن تأثيره كان دائمًا أعلى. وذلك لأن الإدارة لم تكن مصممة للتعامل مع مثل هذه الأحداث المتطرفة: على سبيل المثال، تجاوزت مستويات تصميم السدود والخزانات. في قصتي نجاح، كان تأثير الحدث الثاني، الأكثر خطورة، أقل، نتيجة لتحسين حوكمة إدارة المخاطر والاستثمار العالي في الإدارة المتكاملة. إن الصعوبة الملحوظة في إدارة الأحداث غير المسبوقة تنذر بالخطر، بالنظر إلى أنه من المتوقع حدوث المزيد من الأحداث الهيدرولوجية المتطرفة بسبب تغير المناخ3.

La modélisation mathématique de processus biologiques est présentée comme un ensemble d'outils de recherche développés en fonction d'un but précis: étude d'impact, bilan énergétique, validation d'hypothèses. Son utilisation doit être précédée d'une réflexion sur les mécanismes mis en jeu, selon que l'on s'intéresse à un écosystème ou un individu (échelle biologique), que des phénomènes physiques sont pris en compte (échelle physique), à une échelle de temps donnée. Il ne saurait alors exister de méthode générale d'analyse tant sont variées les conditions d'étude, mais quelques cas types permettent d'illustrer la démarche du modélisateur et les récents progrès de ses outils. Mathematical models for biological processes are presented as a set of tools for research, which ilave been created for specifie tasks impact studies, energy budget, test of hypothesis. Before using it, the mecanisms involved must be analysed, depending upon wether a whole ecosystem or one animal is studied (biological scale), physical conditions are taken into account (physical scale), with a predetermined scale for time. The no general method for analysis can be, as conditions of studies are so different, but sorne typical cases can show the approach of the modelizer and the recent developments of its tools.