A roadmap for equitable reuse of public microbiome data
Nature Microbiology, vol. 10, pp. 2384–2395
Abstract
Science benefits from rapid open data sharing, but current guidelines for data reuse were established two decades ago, when databases were several million times smaller than they are today. These guidelines are largely unfamiliar to the scientific community, and, owing to the rapid increase in biological data generated in the past decade, they are also outdated. As a result, there is a lack of community standards suited to the current landscape and inconsistent implementation of data sharing policies across institutions. Here we discuss current sequence data sharing policies and their benefits and drawbacks, and present a roadmap to establish guidelines for equitable sequence data reuse, developed in consultation with a data consortium of 167 microbiome scientists. We propose the use of a Data Reuse Information (DRI) tag for public sequence data, which will be associated with at least one Open Researcher and Contributor ID (ORCID) account. The machine-readable DRI tag indicates that the data creators prefer to be contacted before data reuse, and simultaneously provides data consumers with a mechanism to get in touch with the data creators. The DRI aims to facilitate and foster collaborations, and serve as a guideline that can be expanded to other data types.
Authors 85
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Affiliation as printed
Department of Biology, University of Waterloo, Waterloo, Ontario, Canada
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Affiliation as printed
Center for Biofilm Engineering, Montana State University, Bozeman, MT, USA
Department of Chemistry and Biochemistry, Thermal Biology Institute, Montana State University, Bozeman, MO, USA
Department of Microbiology and Cell Biology, Thermal Biology Institute, Montana State University, Bozeman, MT, USA
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Affiliation as printed
Environmental Metagenomics, Research Center One Health Ruhr, University Alliance Ruhr, Faculty of Chemistry, University of Duisburg-Essen, Essen, Germany
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Affiliation as printed
Centre for Water and Environmental Research (ZWU), University of Duisburg-Essen, Essen, Germany
Environmental Metagenomics, Research Center One Health Ruhr, University Alliance Ruhr, Faculty of Chemistry, University of Duisburg-Essen, Essen, Germany
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Essen University Hospital · University of Duisburg-Essen
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Department of Computer Science, University of Duisburg-Essen, Essen, Germany
Institute for AI in Medicine, University Hospital Essen, University of Duisburg-Essen, Essen, Germany
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Department of Psychology, Ruhr University Bochum, Bochum, Germany
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Misr University for Science and Technology
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Department of Bioinformatics and Genomics, College of Biotechnology, Misr University for Science and Technology, Giza, Egypt
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Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement · Interactions Arbres-Microorganismes · Université de Lorraine
Affiliation as printed
Université de Lorraine, INRAE, IAM, Nancy, France
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Leibniz Institute of Freshwater Ecology and Inland Fisheries
Affiliation as printed
Department of Plankton and Microbial Ecology, Leibniz Institute of Freshwater Ecology and Inland Fisheries (IGB), Berlin, Germany
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University of Medical Sciences, Ondo
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Department of Environmental and Occupational Health, School of Public Health, University of Medical Sciences, Ondo, Nigeria
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Austrian Competence Centre for Feed and Food Quality, Safety & Innovation (Austria)
Affiliation as printed
Austrian Competence Centre for Feed and Food Quality, Safety and Innovation, FFoQSI GmbH, Tulln an der Donau, Austria
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University of Wisconsin–Madison
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Department of Bacteriology, University of Wisconsin-Madison, Madison, WI, USA
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Carleton College, Northfield, MN, USA
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Universidad Católica del Norte · Clemson University
Affiliation as printed
Departamento de Biologia Marina, Universidad Catolica del Norte, Coquimbo, Chile
Department of Biological Sciences, Clemson University, Clemson, SC, USA
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AIT Austrian Institute of Technology GmbH
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Austrian Institute of Technology, Wien, Austria
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The University of Texas at Austin
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The University of Texas at Austin, Austin, TX, USA
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GFZ Helmholtz Centre for Geosciences
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GFZ Helmholtz Centre for Geosciences, Potsdam, Germany
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Consejo Nacional de Investigaciones Científicas y Técnicas
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CONICET, Buenos Aires, Argentina
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University of Delaware, Newark, DE, USA
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Commonwealth Scientific and Industrial Research Organisation
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CSIRO, Canberra, Australian Capital Territory, Australia
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North Carolina State University
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Department of Plant and Microbial Biology, North Carolina State University, Raleigh, NC, USA
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Leibniz Institute DSMZ – German Collection of Microorganisms and Cell Cultures
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Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany
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Agroscope, Zurich, Switzerland
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Affiliation as printed
Centre for Water and Environmental Research (ZWU), University of Duisburg-Essen, Essen, Germany
Environmental Metagenomics, Research Center One Health Ruhr, University Alliance Ruhr, Faculty of Chemistry, University of Duisburg-Essen, Essen, Germany
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Affiliation as printed
Aquatic Microbiology, Environmental Microbiology and Biotechnology, Faculty of Chemistry, University of Duisburg-Essen, Essen, Germany
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School of Biological Sciences, University of Utah, Salt Lake City, UT, USA
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Evonik Operations GmbH, RD&I Biotechnology, Halle, Germany
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Institut polytechnique de Grenoble · Centre National de la Recherche Scientifique · VetAgro Sup · Translational Innovation in Medicine and Complexity
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CNRS, UMR 5525, VetAgro Sup, Grenoble INP, TIMC, Univ. Grenoble Alpes, Grenoble, France
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University of Tennessee at Knoxville
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University of Tennessee, Knoxville, TN, USA
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Department of Biology, University of York, York, UK
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Department of Biological Sciences, Northern Arizona University, Flagstaff, AZ, USA
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School of Biological Sciences, Faculty of Environmental and Life Sciences, University of Southampton, Southampton, UK
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Technical University of Denmark
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Department of Biotechnology and Biomedicine, Technical University of Denmark, Kongens Lyngby, Denmark
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University of Lisbon · Instituto Superior Técnico
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Department of Bioengineering, Instituto Superior Técnico, University of Lisbon, Lisbon, Portugal
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Affiliation as printed
Department of Biochemistry and Biomedical Sciences, M.G. DeGroote Institute for Infectious Disease Research, McMaster University, Hamilton, Ontario, Canada
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Institute of Soil Biology · Czech Academy of Sciences, Biology Centre
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Institute of Soil Biology and Biogeochemistry, Biology Centre CAS, České Budějovice, Czechia
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Department of Microbiology and Cell Sciences, Fort Lauderdale Research and Education Center, University of Florida, Fort Lauderdale, FL, USA
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Brazilian Agricultural Research Corporation
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Embrapa Cenargen, Brasília, Brazil
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Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA
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Station Biologique de Roscoff · Chimie Physique et Chimie du Vivant
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UMR8228, Station Biologique de Roscoff, Roscoff, France
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Ministry of Natural Resources · Third Institute of Oceanography
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Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, China
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Consejo Superior de Investigaciones Científicas · Universitat de València · Institute for Integrative Systems Biology
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Institute for Integrative Systems Biology (I2SysBio), University of Valencia and Spanish National Research Council, Valencia, Spain
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Aberystwyth University, Aberystwyth, UK
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Aberystwyth University · Flinders University
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Flinders University, Adelaide, South Australia, Australia
Aberystwyth University, Aberystwyth, UK
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Washington University in St. Louis
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Washington University at St. Louis, St. Louis, MO, USA
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Royal Netherlands Institute for Sea Research
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NIOZ—Royal Netherlands Institute for Sea Research, Den Burg, The Netherlands
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Wageningen University & Research
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The Laboratory of Microbiology, Wageningen University and Research, Wageningen, The Netherlands
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University of California, Riverside
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University of California, Riverside, CA, USA
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The University of Sydney · Westmead Institute for Medical Research
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Sydney Medical School, The University of Sydney, Sydney, New South Wales, Australia
Westmead Institute for Medical Research, Sydney, New South Wales, Australia
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Biology of Intracellular Bacteria Unit, Pasteur Institute, Paris, France
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University of Southern California
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University of Southern California, Los Angeles, CA, USA
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Wageningen University & Research
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The Laboratory of Microbiology, Wageningen University and Research, Wageningen, The Netherlands
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Embrapa Agricultura Digital, Campinas, Brazil
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Leibniz Institute of Freshwater Ecology and Inland Fisheries · Technische Universität Berlin
Affiliation as printed
Department of Plankton and Microbial Ecology, Leibniz Institute of Freshwater Ecology and Inland Fisheries (IGB), Berlin, Germany
Institute of Ecology, Berlin Institute of Technology (TUB), Berlin, Germany
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University of Naples Federico II
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Department of Biology, University of Naples Federico II, Naples, Italy
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Western University, London, Ontario, Canada
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Department of Biology, The Pennsylvania State University, University Park, PA, USA
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Massachusetts Institute of Technology
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Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
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Monash University, Melbourne, Victoria, Australia
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Massachusetts Institute of Technology
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Department of Civil and Environmental Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA
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University of Calgary, Calgary, Alberta, Canada
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University of Potsdam · Leibniz Institute of Freshwater Ecology and Inland Fisheries
Affiliation as printed
Department of Plankton and Microbial Ecology, Leibniz Institute of Freshwater Ecology and Inland Fisheries (IGB), Berlin, Germany
Institute of Biochemistry and Biology, Potsdam University, Potsdam, Germany
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Christian-Albrechts-Universität zu Kiel
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Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany
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Department of Biology, Faculty of Science, Kyushu University, Fukuoka, Japan
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Plant and Microbial Biology, University of Minnesota, Minneapolis, MN, USA
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Leibniz Institute for Baltic Sea Research Warnemünde
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Leibniz Institute for Baltic Sea Research Warnemünde (IOW), Rostock, Germany
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Royal Veterinary College, London, UK
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Department of Ecology & Evolutionary Biology, University of Toronto, Toronto, Ontario, Canada
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Otto-von-Guericke-Universität Magdeburg
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Otto-von-Guericke-University Magdeburg, Magdeburg, Germany
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Luxembourg Institute of Science and Technology
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Luxembourg Institute of Science and Technology, Esch-sur-Alzette, Luxembourg
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Plant and Microbial Biology, University of Minnesota, Minneapolis, MN, USA
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University of California, Davis
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University of California, Davis, CA, USA
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University of California, Davis
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University of California, Davis, CA, USA
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Thomas C. A. Hitch Aachen
Universitätsklinikum Aachen · RWTH Aachen University
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University Hospital of RWTH Aachen, Aachen, Germany
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Agharkar Research Institute, Pune, India
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University of Greifswald, Greifswald, Germany
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University of Mississippi, Oxford, MS, USA
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Southern University of Science and Technology
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Southern University of Science and Technology, Shenzhen, China
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Uppsala University, Uppsala, Sweden
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University of Oxford, Oxford, UK
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Department of Chemistry and Biochemistry, Thermal Biology Institute, Montana State University, Bozeman, MO, USA
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Lawrence Berkeley National Laboratory
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Lawrence Berkeley National Laboratory, United States Department of Energy, Berkeley, CA, USA
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Wageningen University & Research
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Wageningen University & Research, Wageningen, The Netherlands
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Durham University, Durham, UK
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Lawrence Berkeley National Laboratory · Joint Genome Institute
Affiliation as printed
US Department of Energy Joint Genome Institute, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
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