ARPHA Preprints, doi: 10.3897/arphapreprints.e146366

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

Christina Pavloudi^‡, Ioulia Santi^§‡, Iñigo Azua^|, Zuriñe Baña^|, Mauro Bastianini^¶, Caroline Belser^#, Jone Bilbao^¤, Julie Bitz-Thorsen^«, Caroline Broudin^», Mathieu Camusat^», Ibon Cancio^˄, Louis Caray-Counil^˅, Raffaella Casotti^¦, Jade Castel^», Thierry Comtet^ˀ, Cymon J Cox^ˁ, Claire Daguin^ˀ, Oihane Díaz de Cerio^˄, Katrina Exter^₵, Cécile Fauvelot^ℓ, Miguel J. Frada^₰, Pierre E Galand^₱, Laurence Garczarek^ˀ, Jose González Fernández^₳, Laure Guillou^ˀ, Pascal I. Hablützel^₵₴, Hanneloor Heynderickx^₵, Céline Houbin^», Anne Emmanuelle Kervella^‡, Apostolos Krystallas^§, Rune Lagaisse^₵, Arnaud Laroquette^‡, Lyvia Lescure^₱, Eva Lopes^₣, Melina Loulakaki^§, Bruno Louro^ˁ, Catarina Magalhaes^₣, Maria Maidanou^§, Francesca Margiotta^₮, Marina Montresor^¦, Fabrice Not^ˀ, Estefanía Paredes^₳₦, Isabella Percopo^₮, Erwan Péru^₱, Julie Poulain^#, Kim Præbel^«, Fabienne Rigaut-Jalabert^», Sarah Romac^ˀ, Melanthia Stavroulaki^§, Jesús Souza Troncoso^₳₦, Eric Thiébaut^₭, Wilfried Thomas^», Andrzej Tkacz^ˁ, Anna Chiara Trano^₮, Patrick Wincker^#, Nicolas Pade^‡

‡ 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¶ 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˄ 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, Italyˀ Sorbonne Université, CNRS, Adaptation et Diversité en Milieu Marin, AD2M, 29680, Roscoff, Franceˁ Centro de Ciências do Mar, Universidade do Algarve, Faro, Portugal₵ Flanders Marine Institute [Vlaams Instituut voor de Zee (VLIZ)], Ostend, Belgiumℓ 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₳ Centro de Investigación Mariña, Universidade de Vigo, Estación de Ciencias Mariñas de Toralla, Vigo, Spain₴ Vrije Universiteit Brussel, Brussel, Belgium₣ 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₮ Stazione Zoologica Anton Dohrn, Naples, Italy₦ 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

Corresponding author: Christina Pavloudi ( christina.pavloudi@embrc.eu )

Corresponding author: Ioulia Santi ( isanti@hcmr.gr )

© Christina Pavloudi, Ioulia Santi, Iñigo Azua, Zuriñe Baña, Mauro Bastianini, Caroline Belser, Jone Bilbao, Julie Bitz-Thorsen, Caroline Broudin, Mathieu Camusat, Ibon Cancio, Louis Caray-Counil, Raffaella Casotti, Jade Castel, Thierry Comtet, Cymon Cox, Claire Daguin, Oihane Díaz de Cerio, Katrina Exter, Cécile Fauvelot, Miguel Frada, Pierre Galand, Laurence Garczarek, Jose González Fernández, Laure Guillou, Pascal Hablützel, Hanneloor Heynderickx, Céline Houbin, Anne Kervella, Apostolos Krystallas, Rune Lagaisse, Arnaud Laroquette, Lyvia Lescure, Eva Lopes, Melina Loulakaki, Bruno Louro, Catarina Magalhaes, Maria Maidanou, Francesca Margiotta, Marina Montresor, Fabrice Not, Estefanía Paredes, Isabella Percopo, Erwan Péru, Julie Poulain, Kim Præbel, Fabienne Rigaut-Jalabert, Sarah Romac, Melanthia Stavroulaki, Jesús Souza Troncoso, Eric Thiébaut, Wilfried Thomas, Andrzej Tkacz, Anna Chiara Trano, Patrick Wincker, Nicolas Pade.

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.

Citation: Pavloudi C, Santi I, Azua I, Baña Z, Bastianini M, Belser C, Bilbao J, Bitz-Thorsen J, Broudin C, Camusat M, Cancio I, Caray-Counil L, Casotti R, Castel J, Comtet T, Cox C, Daguin C, Díaz de Cerio O, Exter K, Fauvelot C, Frada MJ, Galand P, Garczarek L, González Fernández J, Guillou L, Hablützel PI, Heynderickx H, Houbin C, Kervella A, Krystallas A, Lagaisse R, Laroquette A, Lescure L, Lopes E, Loulakaki M, Louro B, Magalhaes C, Maidanou M, Margiotta F, Montresor M, Not F, Paredes E, Percopo I, Péru E, Poulain J, Præbel K, Rigaut-Jalabert F, Romac S, Stavroulaki M, Souza Troncoso J, Thiébaut E, Thomas W, Tkacz A, Trano AC, Wincker P, Pade N (2025) First release of the European marine omics biodiversity observation network (EMO BON) shotgun metagenomics data from water and sediment samples. ARPHA Preprints. https://doi.org/10.3897/arphapreprints.e146366

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.

Keywords

EMO BON, EMBRC, marine omics, coastal marine sites