ArticleProceedings of the National Academy of Sciences of the United States of America2022
Standards recommendations for the Earth BioGenome Project.
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Article in Proceedings of the National Academy of Sciences of the United States of America, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 59 papers.
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59citing papers in PubMed
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59 citing papers in PubMed.
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- MGA: a tool for haplotype-mixed assembly of long and accurate reads.Genome biology · 2026Article
- Snail plots are badges of genome assembly quality.G3 (Bethesda, Md.) · 2026Article
- Nine changes needed to deliver a radical transformation in biodiversity measurement.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- A trio-binning approach for genome assembly reveals extensive structural variation between two Cannabis cultivars: Punto Rojo and Cherry Pie.G3 (Bethesda, Md.) · 2026Article
- MicroFinder: conserved gene-set mapping and assembly ordering for manual curation of bird dot microchromosomes.GigaScience · 2026Article
- Pipeasm: a tool for automated large chromosome-scale genome assembly and evaluation.Bioinformatics advances · 2026Article
- Article
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- Whole Genome Sequencing Reveals How Plasticity and Genetic Differentiation Underlie Sympatric Morphs of Arctic Charr.Molecular ecology · 2025Article
- The Earth BioGenome Project Phase II: illuminating the eukaryotic tree of life.Frontiers in science · 2025Article
- Assembling genomes of non-model plants: A case study with evolutionary insights from Ranunculus (Ranunculaceae).The Plant journal : for cell and molecular biology · 2025Article
- Chromosome-level genome assembly of Protandrena (Anthemurgus) passiflorae (Hymenoptera: Andrenidae), a host-plant specialist bee.G3 (Bethesda, Md.) · 2025Article
- Annotation of protein-coding genes in 49 diatom genomes from the Bacillariophyta clade.Scientific data · 2025Article
- Establishing genome sequencing and assembly for non-model and emerging model organisms: a brief guide.Frontiers in zoology · 2025Review
- Notable challenges posed by long-read sequencing for the study of transcriptional diversity and genome annotation.Genome research · 2025Review
- Chromosome-scale genomes of wild and cultivated Morinda officinalis.Scientific data · 2025Article
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Authors and funding
45 authors.
Mara K N LawniczakWellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.
Richard DurbinWellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.
Paul FlicekWellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.
Kerstin Lindblad-TohBroad Institute of MIT and Harvard, Cambridge, MA 02142.ORCID 0000-0001-8338-0253
Xiaofeng WeiChina National GeneBank, Shenzhen 518120, China.
John M ArchibaldDepartment of Biochemistry and Molecular Biology, Dalhousie University, Halifax, NS B3H 4R2, Canada.ORCID 0000-0001-7255-780X
William J BakerDepartment of Accelerated Taxonomy, Royal Botanic Gardens, Kew, Surrey TW9 3AE, United Kingdom.ORCID 0000-0001-6727-1831
Katherine BelovSchool of Life and Environmental Sciences, Faculty of Science, University of Sydney, Sydney, NSW 2006, Australia.
Mark L BlaxterWellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.
Tomas Marques BonetInstitute of Evolutionary Biology, Consejo Superior de Investigaciones Científicas-Universitat Pompeau Fabra, Parc de Rechercha Biomédica Barcelona 08003 Barcelona, Spain.ORCID 0000-0002-5597-3075
Anna K ChildersBee Research Laboratory, Beltsville Agricultural Research Center, US Department of Agriculture, Agricultural Research Service, Beltsville, MD 20705.ORCID 0000-0002-0747-8539
Jonathan A CoddingtonSmithsonian Institution, National Museum of Natural History, Washington, DC 20560-0105.ORCID 0000-0001-6004-7730
Keith A CrandallComputational Biology Institute and Department of Biostatistics & Bioinformatics, Milken Institute School of Public Health, The George Washington University, Washington, DC 20052.ORCID 0000-0002-0836-3389
Andrew J CrawfordDepartment of Biological Sciences, Universidad de los Andes 111711 Bogotá, Colombia.
Robert P DaveyEngineering Biology, Earlham Institute, Norwich Research Park, Norwich NR4 7UZ, United Kingdom.
Federica Di PalmaGenome British Columbia, Vancouver, BC V5Z 0C4, Canada.
Qi FangBGI-Shenzhen, Beishan Industrial Zone, Shenzhen 518083, China.ORCID 0000-0002-9181-8689
Wilfried HaertyEarlham Institute, Norwich Research Park, Norwich NR4 7UZ, United Kingdom.
Neil HallGenome British Columbia, Vancouver, BC V5Z 0C4, Canada.ORCID 0000-0003-2808-0009
Katharina J HoffInstitute of Mathematics and Computer Science, Center for Functional Genomics of Microbes, University of Greifswald 17489 Greifswald, Germany.ORCID 0000-0002-7333-8390
Kerstin HoweWellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.ORCID 0000-0003-2237-513X
Erich D JarvisVertebrate Genomes Lab, The Rockefeller University, New York, NY 10065.
Warren E JohnsonCenter for Species Survival, Smithsonian Conservation Biology Institute, National Zoological Park, Front Royal, VA 22630.
Rebecca N JohnsonSmithsonian Institution, National Museum of Natural History, Washington, DC 20560-0105.ORCID 0000-0003-3035-2827
Paul J KerseyEuropean Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge CB10 1SD, United Kingdom.ORCID 0000-0002-7054-800X
Xin LiuChina National GeneBank, Shenzhen 518120, China.
Jose Victor LopezHalmos College of Arts and Sciences, Guy Harvey Oceanographic Center, Nova Southeastern University, Dania Beach, FL 33004.ORCID 0000-0002-1637-4125
Eugene W MyersDepartment of Systems Biology, Max Planck Institute of Molecular Cell Biology and Genetics, Dresden 01307, Germany.ORCID 0000-0002-6580-7839
Olga Vinnere PetterssonScience for Life Laboratory in Uppsala, Uppsala University 75123 Uppsala, Sweden.ORCID 0000-0002-5597-1870
Adam M PhillippyGenome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, NIH, Bethesda, MD 20894.ORCID 0000-0003-2983-8934
Monica F PoelchauNational Agricultural Library, USDA Agricultural Research Service, Beltsville, MD 20705.ORCID 0000-0002-4584-6056
Kim D PruittNational Center for Biotechnology Information, National Library of Medicine, NIH, Bethesda, MD 20894.
Arang RhieGenome Informatics Section, Computational and Statistical Genomics Branch, National Human Genome Research Institute, NIH, Bethesda, MD 20894.ORCID 0000-0002-9809-8127
Juan Carlos Castilla-RubioSpacetime Ventures, São Paulo 05449-050, Brazil.
Sunil Kumar SahuChina National GeneBank, Shenzhen 518120, China.ORCID 0000-0002-4742-9870
Nicholas A SalmonWellcome Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, United Kingdom.
Pamela S SoltisFlorida Museum of Natural History, University of Florida, Gainesville, FL 32611.ORCID 0000-0001-9310-8659
David SwarbreckEarlham Institute, Norwich Research Park, Norwich NR4 7UZ, United Kingdom.ORCID 0000-0002-5453-1013
Françoise Thibaud-NissenNational Center for Biotechnology Information, National Library of Medicine, NIH, Bethesda, MD 20894.
Sibo WangChina National GeneBank, Shenzhen 518120, China.
Jill L WegrzynDepartment of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06269.ORCID 0000-0001-5923-0888
Guojie ZhangVillum Center for Biodiversity Genomics, Section for Ecology and Evolution, Department of Biology, University of Copenhagen 1165 Copenhagen, Denmark.ORCID 0000-0001-6860-1521
He ZhangBGI-Qingdao, BGI-Shenzhen 266555 Qingdao, China.
Harris A LewinUniversity of California Davis Genome Center, University of California, Davis, CA 95616.ORCID 0000-0002-1043-7287
Stephen RichardsUniversity of California Davis Genome Center, University of California, Davis, CA 95616; srichards@ucdavis.edu.ORCID 0000-0001-8959-5466
Funding
National Biomedical Information ServicesZIHLM200888 · NLM · NATIONAL LIBRARY OF MEDICINE · PI PALTOO, DINA · 2009 to 2025
$5200.7MSingle-molecule sequence assembly and analysisZIAHG200398 · NHGRI · NATIONAL HUMAN GENOME RESEARCH INSTITUTE · PI PHILLIPPY, ADAM · 2016 to 2025
$15.9MBiotechnology and Biological Sciences Research Council BBS/E/T/000PR9817Howard Hughes Medical InstituteWellcome Trust 207492/Z/17/ZWellcome Trust WT108749/Z/15/Z
Abstract
A global international initiative, such as the Earth BioGenome Project (EBP), requires both agreement and coordination on standards to ensure that the collective effort generates rapid progress toward its goals. To this end, the EBP initiated five technical standards committees comprising volunteer members from the global genomics scientific community: Sample Collection and Processing, Sequencing and Assembly, Annotation, Analysis, and IT and Informatics. The current versions of the resulting standards documents are available on the EBP website, with the recognition that opportunities, technologies, and challenges may improve or change in the future, requiring flexibility for the EBP to meet its goals. Here, we describe some highlights from the proposed standards, and areas where additional challenges will need to be met.
Indexed as
AnimalsBase SequenceBiodiversityEukaryotaGenomicsHumansReference StandardsReference ValuesSequence Analysis, DNAEarth BioGenome Projectethicsgenome assemblygenomics
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