The European Reference Genome Atlas: piloting a decentralised approach to equitable biodiversity genomics

作者：Ann M. Mc Cartney, Giulio Formenti, Alice Mouton, Diego De Panis, Luísa S. Marins, Henrique G. Leitão, Genevieve Diedericks, Joseph Kirangwa, Marco Morselli, Judit Salces-Ortiz, Nuria Escudero, Alessio Iannucci, Chiara Natali, Hannes Svardal, Rosa Fernández, Tim De Pooter, Geert Joris, Mojca Stražišar, Jonathan Wood, Katie E Herron, Ole Seehausen, Phillip C. Watts, Felix Shaw, Robert Davey, Alice Minotto, José M. Fernández, Astrid Böhne, Carla Alegria, Tyler Alioto, Paulo C. Alves, Isabel R. Amorim, Jean‐Marc Aury, Niclas Backström, Petr Baldrián, Loriano Ballarin, Laima Baltrūnaitė, Endre Barta, Bertrand Bed’Hom, Caroline Belser, Johannes Bergsten, Laurie Bertrand, Helena Bilandžija, Mahesh Panchal, Iliana Bista, Mark Blaxter, Paulo A. V. Borges, Guilherme Borges Dias, Mirte Bosse, Tom Brown, Rémy Bruggmann, Elena Buena‐Atienza, Josephine Burgin, Elena Bužan, Alessia Cariani, Nicolas Casadei, Matteo Chiara, Sérgio Chozas, Fedor Čiampor, Angelica Crottini, Corinne Cruaud, Fernando Cruz, Love Dalén, Alessio De Biase, Javier del Campo, Teo Delić, Alice B. Dennis, Martijn F. L. Derks, Maria Angela Diroma, Mihajla Djan, Simone Duprat, Klara Eleftheriadi, Philine G. D. Feulner, Jean‐François Flot, Giobbe Forni, Bruno Fosso, Pascal Fournier, Christine Fournier‐Chambrillon, Toni Gabaldón, Shilpa Garg, Carmela Gissi, Luca Giupponi, Jèssica Gómez‐Garrido, Josefa González, Miguel L. Grilo, Björn Grüning, Thomas Guérin, Nadège Guiglielmoni, Marta Gut, Marcel P. Haesler, Christoph Hahn, Bálint Halpern, Peter W. Harrison, Julia Heintz, Maris Hindrikson, ‎Jacob Höglund, Kerstin Howe, Graham M. Hughes, Benjamin Istace, J. Mark Cock, Franc Janžekovič, Zophonı́as O. Jónsson, Sagane Joye-Dind, Janne J. Koskimäki, Boris Kryštufek, Justyna Kubacka, Heiner Kuhl, Szilvia Kusza, Karine Labadie, Meri Lähteenaro, Henrik Lantz, Anton Lavrinienko, Lucas Leclère, Ricardo J. Lopes, Ole Madsen, Ghislaine Magdelenat, Giulia Magoga, Tereza Manousaki, Tapio Mappes, João Pedro Marques, Gemma I. Martínez‐Redondo, Florian Maumus, Shane McCarthy, Hendrik‐Jan Megens, José Melo‐Ferreira, Sofia L. Mendes, Matteo Montagna, João M. Moreno, Mai‐Britt Mosbech, Mónica Moura, Zuzana Musilová, Eugene W. Myers, Will Nash, Alexander Nater, Pamela Nicholson, Manel Niell, Reindert Nijland, Benjamin Noël, Karin Norén, Pedro H. Oliveira, Remi‐André Olsen, Lino Ometto, Rebekah A. Oomen, Stephan Ossowski, Vaidas Palinauskas, Snæbjörn Pálsson, Jerome P. Panibe, Joana Paupério, Martina Pavlek, Emilie Payen, Julia Pawłowska, Jaume Pellicer, Graziano Pesole, João Pimenta, Martin Pippel, Anna Maria Pirttilä, Nikos Poulakakis, Jeena Rajan, Rúben M. Correia Rego, Roberto Resendes, Philipp Resl, Ana Riesgo, Patrik Rödin‐Mörch, André E. R. Soares, Carlos Fernandes, María M. Romeiras, Guilherme Roxo, Lukas Rüber, María José Ruiz‐López, Urmas Saarma, Luís P. da Silva, Manuela Sim‐Sim, Lucile Solér, Vítor C. Sousa, Carla Sousa‐Santos, Alberto Spada, Milomir Stefanović, Viktor Stéger, Josefin Stiller, Matthias Stöck, Torsten H. Struck, Hiranya Sudasinghe, Riikka Tapanainen, Christian Tellgren‐Roth, Helena Trindade, Eugene Tukalenko, Ilenia Urso, Benoît Vacherie, Steven M. Van Belleghem, Kees van Oers, Carlos Vargas-Chávez, Nevena Veličković, Noel Vella, Adriana Vella, Cristiano Vernesi, Sara Vicente, Sara Villa, Olga Vinnere Pettersson, Filip Volckaert, Judit Vörös, Patrick Wincker, Sylke Winkler, Claúdio Ciofi, Robert M. Waterhouse, Camila J. Mazzoni · 发表于：bioRxiv (Cold Spring Harbor Laboratory) · 年份：2023 · DOI：10.1101/2023.09.25.559365 · 被引用次数：17 · 研究领域：Genomics and Phylogenetic Studies、Environmental DNA in Biodiversity Studies、Molecular Biology Techniques and Applications

A global genome database of all of Earth's species diversity could be a treasure trove of scientific discoveries. However, regardless of the major advances in genome sequencing technologies, only a tiny fraction of species have genomic information available. To contribute to a more complete planetary genomic database, scientists and institutions across the world have united under the Earth BioGenome Project (EBP), which plans to sequence and assemble high-quality reference genomes for all ~1.5 million recognized eukaryotic species through a stepwise phased approach. As the initiative transitions into Phase II, where 150,000 species are to be sequenced in just four years, worldwide participation in the project will be fundamental to success. As the European node of the EBP, the European Reference Genome Atlas (ERGA) seeks to implement a new decentralised, accessible, equitable and inclusive model for producing high-quality reference genomes, which will inform EBP as it scales. To embark on this mission, ERGA launched a Pilot Project to establish a network across Europe to develop and test the first infrastructure of its kind for the coordinated and distributed reference genome production on 98 European eukaryotic species from sample providers across 34 European countries. Here we outline the process and challenges faced during the development of a pilot infrastructure for the production of reference genome resources, and explore the effectiveness of this approach in terms of h...