A Long-Term Ecological Research Data Set From the Marine Genetic Monitoring Program ARMS-MBON 2018–2020

Nauras Daraghmeh; Katrina Exter; Justine Pagnier; Piotr Balazy; Ibon Cancio; Giorgos Chatzigeorgiou; Eva Chatzinikolaou; Maciej Chelchowski; Nathan Alexis Mitchell Chrismas; Thierry Comtet; Thanos Dailianis; Klaas Deneudt; Oihane Diaz de Cerio; Markos Digenis; Vasilis Gerovasileiou; José González; Laura Kauppi; Jon Bent Kristoffersen; Piotr Kukliński; Rafał Lasota; Liraz Levy; Magdalena Małachowicz; Borut Mavrič; Jonas Mortelmans; Estefania Paredes; Anita Poćwierz-Kotus; Henning Reiss; Ioulia Santi; Georgia Sarafidou; Grigorios Skouradakis; Jostein Solbakken; Peter A.U. Staehr; Javier Tajadura; Jakob Thyrring; Jesus S. Troncoso; Emmanouela Vernadou; Frederique Viard; Haris Zafeiropoulos; Małgorzata Zbawicka; Christina Pavloudi; Matthias Obst

doi:10.1111/1755-0998.14073

A Long-Term Ecological Research Data Set From the Marine Genetic Monitoring Program ARMS-MBON 2018–2020

Nauras Daraghmeh, Katrina Exter, Justine Pagnier, Piotr Balazy, Ibon Cancio, Giorgos Chatzigeorgiou, Eva Chatzinikolaou, Maciej Chelchowski, Nathan Alexis Mitchell Chrismas, Thierry Comtet, Thanos Dailianis, Klaas Deneudt, Oihane Diaz de Cerio, Markos Digenis, Vasilis Gerovasileiou, José González, Laura Kauppi, Jon Bent Kristoffersen, Piotr Kukliński, Rafał LasotaLiraz Levy, Magdalena Małachowicz, Borut Mavrič, Jonas Mortelmans, Estefania Paredes, Anita Poćwierz-Kotus, Henning Reiss, Ioulia Santi, Georgia Sarafidou, Grigorios Skouradakis, Jostein Solbakken, Peter A.U. Staehr, Javier Tajadura, Jakob Thyrring, Jesus S. Troncoso, Emmanouela Vernadou, Frederique Viard, Haris Zafeiropoulos, Małgorzata Zbawicka, Christina Pavloudi, Matthias Obst^*

^*Corresponding author af dette arbejde

Publikation: Bidrag til tidsskrift/Konferencebidrag i tidsskrift /Bidrag til avis › Tidsskriftartikel › Forskning › peer review

Abstract

Molecular methods such as DNA/eDNA metabarcoding have emerged as useful tools to document the biodiversity of complex communities over large spatio-temporal scales. We established an international Marine Biodiversity Observation Network (ARMS-MBON) combining standardised sampling using autonomous reef monitoring structures (ARMS) with metabarcoding for genetic monitoring of marine hard-bottom benthic communities. Here, we present the data of our first sampling campaign comprising 56 ARMS units deployed in 2018–2019 and retrieved in 2018–2020 across 15 observatories along the coasts of Europe and adjacent regions. We describe the open-access data set (image, genetic and metadata) and explore the genetic data to show its potential for marine biodiversity monitoring and ecological research. Our analysis shows that ARMS recovered more than 60 eukaryotic phyla capturing diversity of up to ~5500 amplicon sequence variants and ~1800 operational taxonomic units, and up to ~250 and ~50 species per observatory using the cytochrome c oxidase subunit I (COI) and 18S rRNA marker genes, respectively. Further, ARMS detected threatened, vulnerable and non-indigenous species often targeted in biological monitoring. We show that while deployment duration does not drive diversity estimates, sampling effort and sequencing depth across observatories do. We recommend that ARMS should be deployed for at least 3–6 months during the main growth season to use resources as efficiently as possible and that post-sequencing curation is applied to enable statistical comparison of spatio-temporal entities. We suggest that ARMS should be used in biological monitoring programs and long-term ecological research and encourage the adoption of our ARMS-MBON protocols.

Originalsprog	Engelsk
Tidsskrift	Molecular Ecology Resources
ISSN	1755-098X
DOI	https://doi.org/10.1111/1755-0998.14073
Status	E-pub / Early view - 2025

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10.1111/1755-0998.14073Licens: CC BY

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Daraghmeh, N., Exter, K., Pagnier, J., Balazy, P., Cancio, I., Chatzigeorgiou, G., Chatzinikolaou, E., Chelchowski, M., Chrismas, N. A. M., Comtet, T., Dailianis, T., Deneudt, K., Diaz de Cerio, O., Digenis, M., Gerovasileiou, V., González, J., Kauppi, L., Kristoffersen, J. B., Kukliński, P., ... Obst, M. (2025). A Long-Term Ecological Research Data Set From the Marine Genetic Monitoring Program ARMS-MBON 2018–2020. Molecular Ecology Resources. Advance online publication. https://doi.org/10.1111/1755-0998.14073

@article{95e3a408003242a48c1bf4c6bde718d9,

title = "A Long-Term Ecological Research Data Set From the Marine Genetic Monitoring Program ARMS-MBON 2018–2020",

abstract = "Molecular methods such as DNA/eDNA metabarcoding have emerged as useful tools to document the biodiversity of complex communities over large spatio-temporal scales. We established an international Marine Biodiversity Observation Network (ARMS-MBON) combining standardised sampling using autonomous reef monitoring structures (ARMS) with metabarcoding for genetic monitoring of marine hard-bottom benthic communities. Here, we present the data of our first sampling campaign comprising 56 ARMS units deployed in 2018–2019 and retrieved in 2018–2020 across 15 observatories along the coasts of Europe and adjacent regions. We describe the open-access data set (image, genetic and metadata) and explore the genetic data to show its potential for marine biodiversity monitoring and ecological research. Our analysis shows that ARMS recovered more than 60 eukaryotic phyla capturing diversity of up to ~5500 amplicon sequence variants and ~1800 operational taxonomic units, and up to ~250 and ~50 species per observatory using the cytochrome c oxidase subunit I (COI) and 18S rRNA marker genes, respectively. Further, ARMS detected threatened, vulnerable and non-indigenous species often targeted in biological monitoring. We show that while deployment duration does not drive diversity estimates, sampling effort and sequencing depth across observatories do. We recommend that ARMS should be deployed for at least 3–6 months during the main growth season to use resources as efficiently as possible and that post-sequencing curation is applied to enable statistical comparison of spatio-temporal entities. We suggest that ARMS should be used in biological monitoring programs and long-term ecological research and encourage the adoption of our ARMS-MBON protocols.",

keywords = "18S rRNA, COI, Essential biodiversity variables, European marine omics biodiversity observation network, genetic monitoring, invasive species, ITS",

author = "Nauras Daraghmeh and Katrina Exter and Justine Pagnier and Piotr Balazy and Ibon Cancio and Giorgos Chatzigeorgiou and Eva Chatzinikolaou and Maciej Chelchowski and Chrismas, {Nathan Alexis Mitchell} and Thierry Comtet and Thanos Dailianis and Klaas Deneudt and {Diaz de Cerio}, Oihane and Markos Digenis and Vasilis Gerovasileiou and Jos{\'e} Gonz{\'a}lez and Laura Kauppi and Kristoffersen, {Jon Bent} and Piotr Kukli{\'n}ski and Rafa{\l} Lasota and Liraz Levy and Magdalena Ma{\l}achowicz and Borut Mavri{\v c} and Jonas Mortelmans and Estefania Paredes and Anita Po{\'c}wierz-Kotus and Henning Reiss and Ioulia Santi and Georgia Sarafidou and Grigorios Skouradakis and Jostein Solbakken and Staehr, {Peter A.U.} and Javier Tajadura and Jakob Thyrring and Troncoso, {Jesus S.} and Emmanouela Vernadou and Frederique Viard and Haris Zafeiropoulos and Ma{\l}gorzata Zbawicka and Christina Pavloudi and Matthias Obst",

note = "Publisher Copyright: {\textcopyright} 2025 The Author(s). Molecular Ecology Resources published by John Wiley & Sons Ltd.",

year = "2025",

doi = "10.1111/1755-0998.14073",

language = "English",

journal = "Molecular Ecology Resources",

issn = "1755-098X",

publisher = "Wiley-Blackwell Publishing Ltd",

}

Daraghmeh, N, Exter, K, Pagnier, J, Balazy, P, Cancio, I, Chatzigeorgiou, G, Chatzinikolaou, E, Chelchowski, M, Chrismas, NAM, Comtet, T, Dailianis, T, Deneudt, K, Diaz de Cerio, O, Digenis, M, Gerovasileiou, V, González, J, Kauppi, L, Kristoffersen, JB, Kukliński, P, Lasota, R, Levy, L, Małachowicz, M, Mavrič, B, Mortelmans, J, Paredes, E, Poćwierz-Kotus, A, Reiss, H, Santi, I, Sarafidou, G, Skouradakis, G, Solbakken, J, Staehr, PAU, Tajadura, J, Thyrring, J, Troncoso, JS, Vernadou, E, Viard, F, Zafeiropoulos, H, Zbawicka, M, Pavloudi, C & Obst, M 2025, 'A Long-Term Ecological Research Data Set From the Marine Genetic Monitoring Program ARMS-MBON 2018–2020', Molecular Ecology Resources. https://doi.org/10.1111/1755-0998.14073

TY - JOUR

T1 - A Long-Term Ecological Research Data Set From the Marine Genetic Monitoring Program ARMS-MBON 2018–2020

AU - Daraghmeh, Nauras

AU - Exter, Katrina

AU - Pagnier, Justine

AU - Balazy, Piotr

AU - Cancio, Ibon

AU - Chatzigeorgiou, Giorgos

AU - Chatzinikolaou, Eva

AU - Chelchowski, Maciej

AU - Chrismas, Nathan Alexis Mitchell

AU - Comtet, Thierry

AU - Dailianis, Thanos

AU - Deneudt, Klaas

AU - Diaz de Cerio, Oihane

AU - Digenis, Markos

AU - Gerovasileiou, Vasilis

AU - González, José

AU - Kauppi, Laura

AU - Kristoffersen, Jon Bent

AU - Kukliński, Piotr

AU - Lasota, Rafał

AU - Levy, Liraz

AU - Małachowicz, Magdalena

AU - Mavrič, Borut

AU - Mortelmans, Jonas

AU - Paredes, Estefania

AU - Poćwierz-Kotus, Anita

AU - Reiss, Henning

AU - Santi, Ioulia

AU - Sarafidou, Georgia

AU - Skouradakis, Grigorios

AU - Solbakken, Jostein

AU - Staehr, Peter A.U.

AU - Tajadura, Javier

AU - Thyrring, Jakob

AU - Troncoso, Jesus S.

AU - Vernadou, Emmanouela

AU - Viard, Frederique

AU - Zafeiropoulos, Haris

AU - Zbawicka, Małgorzata

AU - Pavloudi, Christina

AU - Obst, Matthias

PY - 2025

Y1 - 2025

N2 - Molecular methods such as DNA/eDNA metabarcoding have emerged as useful tools to document the biodiversity of complex communities over large spatio-temporal scales. We established an international Marine Biodiversity Observation Network (ARMS-MBON) combining standardised sampling using autonomous reef monitoring structures (ARMS) with metabarcoding for genetic monitoring of marine hard-bottom benthic communities. Here, we present the data of our first sampling campaign comprising 56 ARMS units deployed in 2018–2019 and retrieved in 2018–2020 across 15 observatories along the coasts of Europe and adjacent regions. We describe the open-access data set (image, genetic and metadata) and explore the genetic data to show its potential for marine biodiversity monitoring and ecological research. Our analysis shows that ARMS recovered more than 60 eukaryotic phyla capturing diversity of up to ~5500 amplicon sequence variants and ~1800 operational taxonomic units, and up to ~250 and ~50 species per observatory using the cytochrome c oxidase subunit I (COI) and 18S rRNA marker genes, respectively. Further, ARMS detected threatened, vulnerable and non-indigenous species often targeted in biological monitoring. We show that while deployment duration does not drive diversity estimates, sampling effort and sequencing depth across observatories do. We recommend that ARMS should be deployed for at least 3–6 months during the main growth season to use resources as efficiently as possible and that post-sequencing curation is applied to enable statistical comparison of spatio-temporal entities. We suggest that ARMS should be used in biological monitoring programs and long-term ecological research and encourage the adoption of our ARMS-MBON protocols.

AB - Molecular methods such as DNA/eDNA metabarcoding have emerged as useful tools to document the biodiversity of complex communities over large spatio-temporal scales. We established an international Marine Biodiversity Observation Network (ARMS-MBON) combining standardised sampling using autonomous reef monitoring structures (ARMS) with metabarcoding for genetic monitoring of marine hard-bottom benthic communities. Here, we present the data of our first sampling campaign comprising 56 ARMS units deployed in 2018–2019 and retrieved in 2018–2020 across 15 observatories along the coasts of Europe and adjacent regions. We describe the open-access data set (image, genetic and metadata) and explore the genetic data to show its potential for marine biodiversity monitoring and ecological research. Our analysis shows that ARMS recovered more than 60 eukaryotic phyla capturing diversity of up to ~5500 amplicon sequence variants and ~1800 operational taxonomic units, and up to ~250 and ~50 species per observatory using the cytochrome c oxidase subunit I (COI) and 18S rRNA marker genes, respectively. Further, ARMS detected threatened, vulnerable and non-indigenous species often targeted in biological monitoring. We show that while deployment duration does not drive diversity estimates, sampling effort and sequencing depth across observatories do. We recommend that ARMS should be deployed for at least 3–6 months during the main growth season to use resources as efficiently as possible and that post-sequencing curation is applied to enable statistical comparison of spatio-temporal entities. We suggest that ARMS should be used in biological monitoring programs and long-term ecological research and encourage the adoption of our ARMS-MBON protocols.

KW - 18S rRNA

KW - COI

KW - Essential biodiversity variables

KW - European marine omics biodiversity observation network

KW - genetic monitoring

KW - invasive species

KW - ITS

UR - http://www.scopus.com/inward/record.url?scp=85216483849&partnerID=8YFLogxK

U2 - 10.1111/1755-0998.14073

DO - 10.1111/1755-0998.14073

M3 - Journal article

C2 - 39887645

AN - SCOPUS:85216483849

SN - 1755-098X

JO - Molecular Ecology Resources

JF - Molecular Ecology Resources

ER -

A Long-Term Ecological Research Data Set From the Marine Genetic Monitoring Program ARMS-MBON 2018–2020

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