Abstract
A genomic database of all Earth’s eukaryotic species could contribute to many scientific discoveries; however, only a tiny fraction of species have genomic information available. In 2018, scientists across the world united under the Earth BioGenome Project (EBP), aiming to produce a database of highquality reference genomes containing all ~1.5 million recognized eukaryotic species. As the European node of the EBP, the European Reference Genome Atlas (ERGA) sought to implement a new decentralised, equitable and inclusive model for producing reference genomes. For this, ERGA launched a Pilot Project establishing the first distributed reference genome production infrastructure and testing it on 98 eukaryotic species from 33 European countries. Here we outline the infrastructure and explore its effectiveness for scaling high-quality reference genome production, whilst considering equity and inclusion. The outcomes and lessons learned provide a solid foundation for ERGA while offering key learnings to other transnational, national genomic resource projects and the EBP.
| Original language | English |
|---|---|
| Article number | 28 |
| Journal | NPJ Biodiversity |
| Volume | 3 |
| Issue number | 1 |
| DOIs | |
| Publication status | Published - 2024 |
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In: NPJ Biodiversity, Vol. 3, No. 1, 28, 2024.
Research output: Contribution to journal › Article › peer-review
TY - JOUR
T1 - The European Reference Genome Atlas
T2 - piloting a decentralised approach to equitable biodiversity genomics
AU - Mc Cartney, Ann M.
AU - Formenti, Giulio
AU - Mouton, Alice
AU - De Panis, Diego
AU - Marins, Luísa S.
AU - Leitão, Henrique G.
AU - Diedericks, Genevieve
AU - Kirangwa, Joseph
AU - Morselli, Marco
AU - Salces-Ortiz, Judit
AU - Escudero, Nuria
AU - Iannucci, Alessio
AU - Natali, Chiara
AU - Svardal, Hannes
AU - Fernández, Rosa
AU - De Pooter, Tim
AU - Joris, Geert
AU - Strazisar, Mojca
AU - Wood, Jonathan M.D.
AU - Herron, Katie E.
AU - Seehausen, Ole
AU - Watts, Phillip C.
AU - Shaw, Felix
AU - Davey, Robert P.
AU - Minotto, Alice
AU - Fernández, José M.
AU - Böhne, Astrid
AU - Alegria, Carla
AU - Alioto, Tyler
AU - Alves, Paulo C.
AU - Amorim, Isabel R.
AU - Aury, Jean Marc
AU - Backstrom, Niclas
AU - Baldrian, Petr
AU - Baltrunaite, Laima
AU - Barta, Endre
AU - Bedhom, Bertrand
AU - Belser, Caroline
AU - Bergsten, Johannes
AU - Bertrand, Laurie
AU - Bilandija, Helena
AU - Binzer-Panchal, Mahesh
AU - Bista, Iliana
AU - Blaxter, Mark
AU - Borges, Paulo A.V.
AU - Dias, Guilherme Borges
AU - Bosse, Mirte
AU - Brown, Tom
AU - Bruggmann, Rémy
AU - Buena-Atienza, Elena
AU - Burgin, Josephine
AU - Buzan, Elena
AU - Cariani, Alessia
AU - Casadei, Nicolas
AU - Chiara, Matteo
AU - Chozas, Sergio
AU - Jr, Fedor Čiampor
AU - Crottini, Angelica
AU - Cruaud, Corinne
AU - Cruz, Fernando
AU - Dalen, Love
AU - Biase, Alessiode
AU - Delcampo, Javier
AU - Delic, Teo
AU - Dennis, Aliceb
AU - Derks, Martijn F.L.
AU - Diroma, Maria Angela
AU - Djan, Mihajla
AU - Duprat, Simone
AU - Eleftheriadi, Klara
AU - Feulner, Philine G.D.
AU - Flot, Jean François
AU - Forni, Giobbe
AU - Fosso, Bruno
AU - Fournier, Pascal
AU - Fournier-Chambrillon, Christine
AU - Gabaldon, Toni
AU - Garg, Shilpa
AU - Gissi, Carmela
AU - Giupponi, Luca
AU - Gomez-Garrido, Jessica
AU - González, Josefa
AU - Grilo, Miguel L.
AU - Grüning, Björn
AU - Guerin, Thomas
AU - Guiglielmoni, Nadege
AU - Gut, Marta
AU - Haesler, Marcel P.
AU - Hahn, Christoph
AU - Halpern, Balint
AU - Harrison, Peter W.
AU - Heintz, Julia
AU - Hindrikson, Maris
AU - Höglund, Jacob
AU - Howe, Kerstin
AU - Hughes, Graham M.
AU - Istace, Benjamin
AU - Cock, Mark J.
AU - Janžekovič, Franc
AU - Jonsson, Zophonias O.
AU - Joye-Dind, Sagane
AU - Koskimäki, Janne J.
AU - Krystufek, Boris
AU - Kubacka, Justyna
AU - Kuhl, Heiner
AU - Kusza, Szilvia
AU - Labadie, Karine
AU - Lähteenaro, Meri
AU - Lantz, Henrik
AU - Lavrinienko, Anton
AU - Leclère, Lucas
AU - Lopes, Ricardo Jorge
AU - Madsen, Ole
AU - Magdelenat, Ghislaine
AU - Magoga, Giulia
AU - Manousaki, Tereza
AU - Mappes, Tapio
AU - Marques, Joao Pedro
AU - Redondo, Gemma I.Martinez
AU - Maumus, Florian
AU - McCarthy, Shane A.
AU - Megens, Hendrik Jan
AU - Melo-Ferreira, Jose
AU - Mendes, Sofia L.
AU - Montagna, Matteo
AU - Moreno, Joao
AU - Mosbech, Mai Britt
AU - Moura, Mónica
AU - Musilova, Zuzana
AU - Myers, Eugene
AU - Nash, Will J.
AU - Nater, Alexander
AU - Nicholson, Pamela
AU - Niell, Manuel
AU - Nijland, Reindert
AU - Noel, Benjamin
AU - Noren, Karin
AU - Oliveira, Pedro H.
AU - Olsen, Remi Andre
AU - Ometto, Lino
AU - Oomen, Rebekah A.
AU - Ossowski, Stephan
AU - Palinauskas, Vaidas
AU - Palsson, Snaebjorn
AU - Panibe, Jerome P.
AU - Pauperio, Joana
AU - Pavlek, Martina
AU - Payen, Emilie
AU - Pawlowska, Julia
AU - Pellicer, Jaume
AU - Pesole, Graziano
AU - Pimenta, Joao
AU - Pippel, Martin
AU - Pirttilä, Anna Maria
AU - Poulakakis, Nikos
AU - Rajan, Jeena
AU - Rego, Rúben M.C.
AU - Resendes, Roberto
AU - Resl, Philipp
AU - Riesgo, Ana
AU - Rodin-Morch, Patrik
AU - Soares, Andre E.R.
AU - Fernandes, Carlos Rodriguez
AU - Romeiras, Maria M.
AU - Roxo, Guilherme
AU - Rüber, Lukas
AU - Ruiz-Lopez, Mariajose
AU - Saarma, Urmas
AU - Dasilva, Luis P.
AU - Sim-Sim, Manuela
AU - Soler, Lucile
AU - Sousa, Vitor C.
AU - Santos, Carla Sousa
AU - Spada, Alberto
AU - Stefanovic, Milomir
AU - Steger, Viktor
AU - Stiller, Josefin
AU - Stöck, Matthias
AU - Struck, Torsten H.
AU - Sudasinghe, Hiranya
AU - Tapanainen, Riikka
AU - Tellgren-Roth, Christian
AU - Trindade, Helena
AU - Tukalenko, Yevhen
AU - Urso, Ilenia
AU - Vacherie, Benoit
AU - Van Belleghem, Steven M.
AU - Van Oers, Kees
AU - Vargas-Chavez, Carlos
AU - Velickovic, Nevena
AU - Vella, Noel
AU - Vella, Adriana
AU - Vernesi, Cristiano
AU - Vicente, Sara
AU - Villa, Sara
AU - Pettersson, Olga Vinnere
AU - Volckaert, Filip A.M.
AU - Voros, Judit
AU - Wincker, Patrick
AU - Winkler, Sylke
AU - Ciofi, Claudio
AU - Waterhouse, Robert M.
AU - Mazzoni, Camila J.
N1 - Publisher Copyright: © The Author(s) 2024, corrected publication 2024.
PY - 2024
Y1 - 2024
N2 - A genomic database of all Earth’s eukaryotic species could contribute to many scientific discoveries; however, only a tiny fraction of species have genomic information available. In 2018, scientists across the world united under the Earth BioGenome Project (EBP), aiming to produce a database of highquality reference genomes containing all ~1.5 million recognized eukaryotic species. As the European node of the EBP, the European Reference Genome Atlas (ERGA) sought to implement a new decentralised, equitable and inclusive model for producing reference genomes. For this, ERGA launched a Pilot Project establishing the first distributed reference genome production infrastructure and testing it on 98 eukaryotic species from 33 European countries. Here we outline the infrastructure and explore its effectiveness for scaling high-quality reference genome production, whilst considering equity and inclusion. The outcomes and lessons learned provide a solid foundation for ERGA while offering key learnings to other transnational, national genomic resource projects and the EBP.
AB - A genomic database of all Earth’s eukaryotic species could contribute to many scientific discoveries; however, only a tiny fraction of species have genomic information available. In 2018, scientists across the world united under the Earth BioGenome Project (EBP), aiming to produce a database of highquality reference genomes containing all ~1.5 million recognized eukaryotic species. As the European node of the EBP, the European Reference Genome Atlas (ERGA) sought to implement a new decentralised, equitable and inclusive model for producing reference genomes. For this, ERGA launched a Pilot Project establishing the first distributed reference genome production infrastructure and testing it on 98 eukaryotic species from 33 European countries. Here we outline the infrastructure and explore its effectiveness for scaling high-quality reference genome production, whilst considering equity and inclusion. The outcomes and lessons learned provide a solid foundation for ERGA while offering key learnings to other transnational, national genomic resource projects and the EBP.
UR - http://www.scopus.com/inward/record.url?scp=85207324789&partnerID=8YFLogxK
U2 - 10.1038/s44185-024-00054-6
DO - 10.1038/s44185-024-00054-6
M3 - Article
AN - SCOPUS:85207324789
SN - 2731-4243
VL - 3
JO - NPJ Biodiversity
JF - NPJ Biodiversity
IS - 1
M1 - 28
ER -