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

被引：6

作者：

Ann M. Mc Cartney ^{[1
]}

Giulio Formenti ^{[2
]}

Alice Mouton ^{[3
]}

Diego De Panis ^{[3
]}

Luísa S. Marins ^{[4
]}

Henrique G. Leitão ^{[5
]}

Genevieve Diedericks ^{[6
]}

Joseph Kirangwa ^{[5
]}

Marco Morselli ^{[6
]}

Judit Salces-Ortiz ^{[7
]}

Nuria Escudero ^{[7
]}

Alessio Iannucci ^{[8
]}

Chiara Natali ^{[9
]}

Hannes Svardal ^{[10
]}

Rosa Fernández ^{[10
]}

Tim De Pooter ^{[3
]}

Geert Joris ^{[3
]}

Mojca Strazisar ^{[7
]}

Jonathan M. D. Wood ^{[11
]}

Katie E. Herron ^{[10
]}

Ole Seehausen ^{[12
]}

Phillip C. Watts ^{[13
]}

Felix Shaw ^{[12
]}

Robert P. Davey ^{[13
]}

Alice Minotto ^{[12
]}

José M. Fernández ^{[13
]}

Astrid Böhne ^{[14
]}

Carla Alegria ^{[15
]}

Tyler Alioto ^{[16
]}

Paulo C. Alves ^{[17
]}

Isabel R. Amorim ^{[18
]}

Jean-Marc Aury ^{[19
]}

Niclas Backstrom ^{[19
]}

Petr Baldrian ^{[20
]}

Laima Baltrunaite ^{[21
]}

Endre Barta ^{[22
]}

Bertrand BedHom ^{[23
]}

Caroline Belser ^{[24
]}

Johannes Bergsten ^{[25
]}

Laurie Bertrand ^{[26
]}

Helena Bilandija ^{[27
]}

Mahesh Binzer-Panchal ^{[28
]}

Iliana Bista ^{[29
]}

Mark Blaxter ^{[30
]}

Paulo A. V. Borges ^{[31
]}

Guilherme Borges Dias ^{[32
]}

Mirte Bosse ^{[33
]}

Tom Brown ^{[34
]}

Rémy Bruggmann ^{[35
]}

Elena Buena-Atienza ^{[30
]}

机构：

[1] Genomics Institute, University of California, SantaCruz, CA

[2] TheVertebrate Genome Laboratory, The Rockefeller University, NewYork, NY

[3] Department of Biology, University of Florence, Sesto Fiorentino

[4] InBios-Conservation Genetics Laboratory, University of Liege, Liege

[5] Leibniz Institut für Zoo und Wildtierforschung, Berlin

[6] Berlin Center for Genomics in Biodiversity Research, Berlin

[7] Department of Biology, University of Antwerp, Antwerp

[8] Institute of Zoology, University of Cologne, Cologne

[9] Department of Chemistry, Life Sciences and Environmental Sustainability, University of Parma, Parma

[10] Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra, Barcelona

[11] Naturalis Biodiversity Center, Leiden

[12] Neuromics Support Facility, VIB Center for Molecular Neurology, VIB, Antwerp

[13] Neuromics Support Facility, Department of Biomedical Sciences,University ofAntwerp, Antwerp

[14] Tree of Life, WellcomeSanger Institute, Cambridge, Hinxton

[15] School of Biology and Environmental Science, University College Dublin, Belfield

[16] Aquatic Ecology & Evolution, Institute of Ecology & Evolution, University of Bern, Bern

[17] Department of Fish Ecology & Evolution, Eawag, Kastanienbaum

[18] Department of Biological and Environmental Science, University of Jyvaskyla, Jyvaskyla

[19] The EarlhamInstitute, NorwichResearchPark, Norwich

[20] Digital Science, London

[21] Spanish National Bioinformatics Institute, ELIXIR Spain, Getafe

[22] Leibniz Institute for the Analysis of Biodiversity Change, Museum Koenig Bonn, Bonn

[23] CE3C—Centre for Ecology, Evolution and Environmental Changes & CHANGE—Global Change and Sustainability Institute, Faculdade de Ciências, Universidade de Lisboa, Campo Grande, Lisboa

[24] Centro Nacional de Análisis Genómico (CNAG), Barcelona

[25] Universitat de Barcelona (UB), Barcelona

[26] CIBIO, Centro de Investigacao em Biodiversidade e Recursos Geneticos, InBIO Laboratorio Associado, Universidade do Porto, Vairao

[27] Departamento de Biologia, Faculdade de Ciencias, Universidade do Porto, Porto

[28] BIOPOLIS Program in Genomics, Biodiversity and Land Planning, CIBIO, Campus de Vairao, Vairao

[29] University of theAzores, cE3c—Centre for Ecology, Evolution and Environmental Changes, Azorean Biodiversity Group, CHANGE—Global Change and Sustainability Institute, RuaCapitão João d´Ávila, Pico da Urze,AngradoHeroísmo

[30] GénomiqueMétabolique,Genoscope, Institut François Jacob, CEA, CNRS, Univ Evry, Université Paris-Saclay, Evry

[31] Evolutionary Biology Program, Department of Ecology and Genetics, Uppsala University, Uppsala

[32] Institute of Microbiology of the Czech Academy of Sciences, Praha

[33] Nature Research Centre, Debrecen

[34] Institute of Biochemistry and Molecular Biology, Faculty of Medicine, University of Debrecen, Debrecen

[35] Institut de Systematique, Evolution, Biodiversite, Museum National d Histoire Naturelle, CNRS, Sorbonne Université, EPHE, Université des Antilles, Paris

[36] Department of Zoology, Swedish Museum of Natural History, Stockholm

[37] Department of Zoology, Faculty of Science, Stockholm University, Stockholm

[38] Genoscope, Institut François Jacob, CEA, Université Paris-Saclay, Evry

[39] Ruder Boskovic Institute, Zagreb

[40] SciLifeLab, Solna

[41] Uppsala University, Uppsala

[42] National Bioinformatics Infrastructure Sweden, Uppsala

[43] Senckenberg Research Institute, Frankfurt

[44] LOEWE Centre for Translational Biodiversity Genomics, Frankfurt

[45] WellcomeCRUKGurdon Institute, University of Cambridge, Cambridge

[46] VU University Amsterdam, Amsterdam

[47] Animal Breeding&Genomics, Wageningen University&Research, Wageningen

[48] WageningenUniversity&Research, Wageningen

[49] Max Planck Institute of Molecular CellBiology and Genetics, Dresden

[50] DRESDEN concept Genome Center, Dresden

来源：

npj Biodiversity | / 3卷 / 1期

关键词：

D O I：

10.1038/s44185-024-00054-6

中图分类号：

学科分类号：

摘要：

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. © The Author(s) 2024, corrected publication 2024.

引用

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