First release of the European marine omics biodiversity observation network (EMO BON) shotgun metagenomics data from water and sediment samples

2025 · doi:10.3897/arphapreprints.e146366
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Abstract

The European Marine Omics Biodiversity Observation Network (EMO BON) is an initiative of the European Marine Biological Resource Centre (EMBRC) to establish a persistent genomic observatory among designated European coastal marine sites, sharing the same protocols for sampling and data curation. Environmental samples are collected from the water column, and at some sites, soft sediments and hard substrates (Autonomous Reef Monitoring Structures - ARMS), together with a set of mandatory and discretionary metadata (including Essential Ocean Variables - EOVs). Samples are collected following standardized protocols at regular and specified intervals, and sequenced in large six-monthly batches at a centralized sequencing facility. The use of standard operating procedures (SOPs) during data collection, library preparation and sequencing aims to provide uniformity among the data collected from the sites, coupled with strict adherence to open and FAIR (Findable, Accessible, Interoperable, Reusable) data principles, ensures maximum comparability among samples and enhance reusability and interoperability of the data with other data sources. The observatory network was launced in June 2021, when the first sampling campaign took place.
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Preprint ARPHA Preprints https://doi.org/10.3897/arphapreprints.e146366 (10 Jan 2025) https://doi.org/10.3897/arphapreprints.e146366 (10 Jan 2025) Published in: Biodiversity Data Journal https://doi.org/10.3897/BDJ.13.e143585 Other versions: - Preprint InfoPreprint Info - CiteCite - MetricsMetrics - CommentComment - RelatedRelated - CitedCited ARPHA Preprints doi: 10.3897/arphapreprints.e146366 First posted 10 Jan 2025 Authors Christina Pavloudi - Corresponding author European Marine Biological Resource Centre (EMBRC-ERIC), Paris, France Ioulia Santi - Corresponding author European Marine Biological Resource Centre (EMBRC-ERIC), Paris, France Institute of Marine Biology, Biotechnology and Aquaculture (IMBBC), Hellenic Centre for Marine Research (HCMR), Heraklion, Greece Department of Immunology, Microbiology and Parasitology, Faculty of Science and Technology and Research Centre for Experimental Marine Biology and Biotechnology, Plentziako itsas Estazioa (PiE-UPV/EHU), University of the Basque Country (UPV/EHU), Biscay, Spain Department of Immunology, Microbiology and Parasitology, Faculty of Science and Technology and Research Centre for Experimental Marine Biology and Biotechnology, Plentziako itsas Estazioa (PiE-UPV/EHU), University of the Basque Country (UPV/EHU), Biscay, Spain CNR-National Research Council, ISMAR - Institute of Marine Sciences, Venice, Italy Génomique Métabolique, Genoscope, Institut François Jacob, Commissariat à l’Energie Atomique (CEA), CNRS, Université Evry, Université Paris-Saclay, 2 Rue Gaston Crémieux, 91057, Evry, France Department of Plant Biology and Ecology, Faculty of Science and Technology and Research Centre for Experimental Marine Biology and Biotechnology, Plentziako itsas Estazioa (PiE-UPV/EHU), University of the Basque Country (UPV/EHU), Biscay, Spain Norwegian College of Fishery Science, UiT The Arctic University of Norway, Tromsø, Norway Sorbonne Université, CNRS, FR2424, Station Biologique de Roscoff, 29680, Roscoff, France Sorbonne Université, CNRS, FR2424, Station Biologique de Roscoff, 29680, Roscoff, France Department of Zoology and Animal Cell Biology, Faculty of Science and Technology and Research Centre for Experimental Marine Biology and Biotechnology, Plentziako itsas Estazioa (PiE-UPV/EHU), University of the Basque Country (UPV/EHU), Biscay, Spain Sorbonne University, CNRS, Laboratoire d’Océanographie de Villefranche, Villefranche-sur-Mer, France Integrative Marine Ecology Department, Stazione Zoologica Anton Dorn, Naples, Italy Sorbonne Université, CNRS, FR2424, Station Biologique de Roscoff, 29680, Roscoff, France Sorbonne Université, CNRS, Adaptation et Diversité en Milieu Marin, AD2M, 29680, Roscoff, France Centro de Ciências do Mar, Universidade do Algarve, Faro, Portugal Sorbonne Université, CNRS, Adaptation et Diversité en Milieu Marin, AD2M, 29680, Roscoff, France Department of Zoology and Animal Cell Biology, Faculty of Science and Technology and Research Centre for Experimental Marine Biology and Biotechnology, Plentziako itsas Estazioa (PiE-UPV/EHU), University of the Basque Country (UPV/EHU), Biscay, Spain Flanders Marine Institute [Vlaams Instituut voor de Zee (VLIZ)], Ostend, Belgium UMR ENTROPIE (IRD, Université de La Réunion, CNRS, IFREMER, Université de la Nouvelle-Calédonie), Villefranche-sur-Mer, France and Sorbonne University, CNRS, Laboratoire d’Océanographie de Villefranche, Villefranche-sur-Mer, France Department of Ecology, Evolution and Behavior, Silberman Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem, Israel and The Interuniversity Institute for Marine Sciences in Eilat, Eilat, Israel Sorbonne Université, CNRS, Laboratoire d’Ecogéochimie des Environnements Benthiques (LECOB), Observatoire Océanologique de Banyuls, Banyuls sur Mer, France Sorbonne Université, CNRS, Adaptation et Diversité en Milieu Marin, AD2M, 29680, Roscoff, France Centro de Investigación Mariña, Universidade de Vigo, Estación de Ciencias Mariñas de Toralla, Vigo, Spain Sorbonne Université, CNRS, Adaptation et Diversité en Milieu Marin, AD2M, 29680, Roscoff, France Flanders Marine Institute [Vlaams Instituut voor de Zee (VLIZ)], Ostend, Belgium Vrije Universiteit Brussel, Brussel, Belgium Flanders Marine Institute [Vlaams Instituut voor de Zee (VLIZ)], Ostend, Belgium Sorbonne Université, CNRS, FR2424, Station Biologique de Roscoff, 29680, Roscoff, France European Marine Biological Resource Centre (EMBRC-ERIC), Paris, France Institute of Marine Biology, Biotechnology and Aquaculture (IMBBC), Hellenic Centre for Marine Research (HCMR), Heraklion, Greece Flanders Marine Institute [Vlaams Instituut voor de Zee (VLIZ)], Ostend, Belgium European Marine Biological Resource Centre (EMBRC-ERIC), Paris, France Sorbonne Université, CNRS, Laboratoire d’Ecogéochimie des Environnements Benthiques (LECOB), Observatoire Océanologique de Banyuls, Banyuls sur Mer, France CIIMAR–Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Matosinhos, Portugal, Department of Biology, FCUP–Faculty of Sciences of the University of Porto, Porto, Portugal Institute of Marine Biology, Biotechnology and Aquaculture (IMBBC), Hellenic Centre for Marine Research (HCMR), Heraklion, Greece Centro de Ciências do Mar, Universidade do Algarve, Faro, Portugal CIIMAR–Interdisciplinary Centre of Marine and Environmental Research, University of Porto, Matosinhos, Portugal, Department of Biology, FCUP–Faculty of Sciences of the University of Porto, Porto, Portugal Institute of Marine Biology, Biotechnology and Aquaculture (IMBBC), Hellenic Centre for Marine Research (HCMR), Heraklion, Greece Stazione Zoologica Anton Dohrn, Naples, Italy Integrative Marine Ecology Department, Stazione Zoologica Anton Dorn, Naples, Italy Sorbonne Université, CNRS, Adaptation et Diversité en Milieu Marin, AD2M, 29680, Roscoff, France Centro de Investigación Mariña, Universidade de Vigo, Estación de Ciencias Mariñas de Toralla, Vigo, Spain Department of Ecology and Animal Biology, ECOCOST group, Marine Sciences Faculty, University of Vigo, Vigo, Spain Stazione Zoologica Anton Dohrn, Naples, Italy Sorbonne Université, CNRS, Laboratoire d’Ecogéochimie des Environnements Benthiques (LECOB), Observatoire Océanologique de Banyuls, Banyuls sur Mer, France Génomique Métabolique, Genoscope, Institut François Jacob, Commissariat à l’Energie Atomique (CEA), CNRS, Université Evry, Université Paris-Saclay, 2 Rue Gaston Crémieux, 91057, Evry, France Norwegian College of Fishery Science, UiT The Arctic University of Norway, Tromsø, Norway Sorbonne Université, CNRS, FR2424, Station Biologique de Roscoff, 29680, Roscoff, France Sorbonne Université, CNRS, Adaptation et Diversité en Milieu Marin, AD2M, 29680, Roscoff, France Institute of Marine Biology, Biotechnology and Aquaculture (IMBBC), Hellenic Centre for Marine Research (HCMR), Heraklion, Greece Centro de Investigación Mariña, Universidade de Vigo, Estación de Ciencias Mariñas de Toralla, Vigo, Spain Department of Ecology and Animal Biology, ECOCOST group, Marine Sciences Faculty, University of Vigo, Vigo, Spain Sorbonne Université, CNRS, OSU STAMAR, Station Biologique de Roscoff, 29680, Roscoff, France Sorbonne Université, CNRS, FR2424, Station Biologique de Roscoff, 29680, Roscoff, France Centro de Ciências do Mar, Universidade do Algarve, Faro, Portugal Stazione Zoologica Anton Dohrn, Naples, Italy Génomique Métabolique, Genoscope, Institut François Jacob, Commissariat à l’Energie Atomique (CEA), CNRS, Université Evry, Université Paris-Saclay, 2 Rue Gaston Crémieux, 91057, Evry, France European Marine Biological Resource Centre (EMBRC-ERIC), Paris, France Conflict of interest The authors have declared that no competing interests exist. This is an open access preprint distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

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