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; Cymon J. Cox; Claire Daguin; Oihane Díaz de Cerio; Katrina Exter; Cécile Fauvelot; Miguel J. Frada; Pierre E. Galand; Laurence Garczarek; Jose González Fernández; Laure Guillou; Pascal I. Hablützel; Hanneloor Heynderickx; Céline Houbin; Anne Emmanuelle 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

doi:10.3897/BDJ.13.E143585

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, Cymon J. Cox, Claire Daguin, Oihane Díaz de Cerio, Katrina Exter, Cécile FauvelotMiguel J. Frada, Pierre E. Galand, Laurence Garczarek, Jose González Fernández, Laure Guillou, Pascal I. Hablützel, Hanneloor Heynderickx, Céline Houbin, Anne Emmanuelle 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

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

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 amongst 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 standardised protocols at regular and specified intervals and sequenced in large six-monthly batches at a centralised sequencing facility. The use of standard operating procedures (SOPs) during data collection, library preparation and sequencing aims to provide uniformity amongst the data collected from the sites. Coupled with strict adherence to open and FAIR (Findable, Accessible, Interoperable, Reusable) data principles, this ensures maximum comparability amongst samples and enhances reusability and interoperability of the data with other data sources. The observatory network was launched in June 2021, when the first sampling campaign took place.

Original language	English
Article number	e143585
Journal	Biodiversity Data Journal
Volume	13
DOIs	https://doi.org/10.3897/BDJ.13.E143585
State	Published - 2025

Bibliographical note

Publisher Copyright:
© Pavloudi C et al. This is an open access article 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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10.3897/BDJ.13.E143585

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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. J., Daguin, C., de Cerio, O. D., Exter, K., ... Pade, N. (2025). First release of the European marine omics biodiversity observation network (EMO BON) shotgun metagenomics data from water and sediment samples. Biodiversity Data Journal, 13, Article e143585. https://doi.org/10.3897/BDJ.13.E143585

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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 amongst 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 standardised protocols at regular and specified intervals and sequenced in large six-monthly batches at a centralised sequencing facility. The use of standard operating procedures (SOPs) during data collection, library preparation and sequencing aims to provide uniformity amongst the data collected from the sites. Coupled with strict adherence to open and FAIR (Findable, Accessible, Interoperable, Reusable) data principles, this ensures maximum comparability amongst samples and enhances reusability and interoperability of the data with other data sources. The observatory network was launched in June 2021, when the first sampling campaign took place.",

author = "Christina Pavloudi and Ioulia Santi and I{\~n}igo Azua and Zuri{\~n}e Ba{\~n}a and Mauro Bastianini and Caroline Belser and Jone Bilbao and Julie Bitz-Thorsen and Caroline Broudin and Mathieu Camusat and Ibon Cancio and Louis Caray-Counil and Raffaella Casotti and Jade Castel and Thierry Comtet and Cox, {Cymon J.} and Claire Daguin and {de Cerio}, {Oihane D{\'i}az} and Katrina Exter and C{\'e}cile Fauvelot and Frada, {Miguel J.} and Galand, {Pierre E.} and Laurence Garczarek and Fern{\'a}ndez, {Jose Gonz{\'a}lez} and Laure Guillou and Habl{\"u}tzel, {Pascal I.} and Hanneloor Heynderickx and C{\'e}line Houbin and Kervella, {Anne Emmanuelle} and Apostolos Krystallas and Rune Lagaisse and Arnaud Laroquette and Lyvia Lescure and Eva Lopes and Melina Loulakaki and Bruno Louro and Catarina Magalhaes and Maria Maidanou and Francesca Margiotta and Marina Montresor and Fabrice Not and Estefan{\'i}a Paredes and Isabella Percopo and Erwan P{\'e}ru and Julie Poulain and Kim Pr{\ae}bel and Fabienne Rigaut-Jalabert and Sarah Romac and Melanthia Stavroulaki and Troncoso, {Jes{\'u}s Souza} and Eric Thi{\'e}baut and Wilfried Thomas and Andrzej Tkacz and Trano, {Anna Chiara} and Patrick Wincker and Nicolas Pade",

note = "Publisher Copyright: {\textcopyright} Pavloudi C et al. This is an open access article 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.",

year = "2025",

doi = "10.3897/BDJ.13.E143585",

language = "אנגלית",

volume = "13",

journal = "Biodiversity Data Journal",

issn = "1314-2836",

publisher = "Pensoft Publishers",

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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, CJ, Daguin, C, de Cerio, OD, Exter, K, Fauvelot, C, Frada, MJ, Galand, PE, Garczarek, L, Fernández, JG, Guillou, L, Hablützel, PI, Heynderickx, H, Houbin, C, Kervella, AE, 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, Troncoso, JS, 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', Biodiversity Data Journal, vol. 13, e143585. https://doi.org/10.3897/BDJ.13.E143585

TY - JOUR

T1 - First release of the European marine omics biodiversity observation network (EMO BON) shotgun metagenomics data from water and sediment samples

AU - Pavloudi, Christina

AU - Santi, Ioulia

AU - Azua, Iñigo

AU - Baña, Zuriñe

AU - Bastianini, Mauro

AU - Belser, Caroline

AU - Bilbao, Jone

AU - Bitz-Thorsen, Julie

AU - Broudin, Caroline

AU - Camusat, Mathieu

AU - Cancio, Ibon

AU - Caray-Counil, Louis

AU - Casotti, Raffaella

AU - Castel, Jade

AU - Comtet, Thierry

AU - Cox, Cymon J.

AU - Daguin, Claire

AU - de Cerio, Oihane Díaz

AU - Exter, Katrina

AU - Fauvelot, Cécile

AU - Frada, Miguel J.

AU - Galand, Pierre E.

AU - Garczarek, Laurence

AU - Fernández, Jose González

AU - Guillou, Laure

AU - Hablützel, Pascal I.

AU - Heynderickx, Hanneloor

AU - Houbin, Céline

AU - Kervella, Anne Emmanuelle

AU - Krystallas, Apostolos

AU - Lagaisse, Rune

AU - Laroquette, Arnaud

AU - Lescure, Lyvia

AU - Lopes, Eva

AU - Loulakaki, Melina

AU - Louro, Bruno

AU - Magalhaes, Catarina

AU - Maidanou, Maria

AU - Margiotta, Francesca

AU - Montresor, Marina

AU - Not, Fabrice

AU - Paredes, Estefanía

AU - Percopo, Isabella

AU - Péru, Erwan

AU - Poulain, Julie

AU - Præbel, Kim

AU - Rigaut-Jalabert, Fabienne

AU - Romac, Sarah

AU - Stavroulaki, Melanthia

AU - Troncoso, Jesús Souza

AU - Thiébaut, Eric

AU - Thomas, Wilfried

AU - Tkacz, Andrzej

AU - Trano, Anna Chiara

AU - Wincker, Patrick

AU - Pade, Nicolas

N1 - Publisher Copyright: © Pavloudi C et al. This is an open access article 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.

PY - 2025

Y1 - 2025

N2 - 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 amongst 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 standardised protocols at regular and specified intervals and sequenced in large six-monthly batches at a centralised sequencing facility. The use of standard operating procedures (SOPs) during data collection, library preparation and sequencing aims to provide uniformity amongst the data collected from the sites. Coupled with strict adherence to open and FAIR (Findable, Accessible, Interoperable, Reusable) data principles, this ensures maximum comparability amongst samples and enhances reusability and interoperability of the data with other data sources. The observatory network was launched in June 2021, when the first sampling campaign took place.

AB - 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 amongst 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 standardised protocols at regular and specified intervals and sequenced in large six-monthly batches at a centralised sequencing facility. The use of standard operating procedures (SOPs) during data collection, library preparation and sequencing aims to provide uniformity amongst the data collected from the sites. Coupled with strict adherence to open and FAIR (Findable, Accessible, Interoperable, Reusable) data principles, this ensures maximum comparability amongst samples and enhances reusability and interoperability of the data with other data sources. The observatory network was launched in June 2021, when the first sampling campaign took place.

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DO - 10.3897/BDJ.13.E143585

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AN - SCOPUS:105000807352

SN - 1314-2836

VL - 13

JO - Biodiversity Data Journal

JF - Biodiversity Data Journal

M1 - e143585

ER -

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

Abstract

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