Consensus statement: Virus taxonomy in the age of metagenomics
The number and diversity of viral sequences that are identified in metagenomic data far exceeds that of experimentally characterized virus isolates. In a recent workshop, a panel of experts discussed the proposal that, with appropriate quality control, viruses that are known only from metagenomic da...
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| Veröffentlicht in: | Nature reviews. Microbiology Jg. 15; H. 3; S. 161 - 168 |
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| Format: | Journal Article |
| Sprache: | Englisch |
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01.03.2017
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| Abstract | The number and diversity of viral sequences that are identified in metagenomic data far exceeds that of experimentally characterized virus isolates. In a recent workshop, a panel of experts discussed the proposal that, with appropriate quality control, viruses that are known only from metagenomic data can, and should be, incorporated into the official classification scheme of the International Committee on Taxonomy of Viruses (ICTV). Although a taxonomy that is based on metagenomic sequence data alone represents a substantial departure from the traditional reliance on phenotypic properties, the development of a robust framework for sequence-based virus taxonomy is indispensable for the comprehensive characterization of the global virome. In this Consensus Statement article, we consider the rationale for why metagenomic sequence data should, and how it can, be incorporated into the ICTV taxonomy, and present proposals that have been endorsed by the Executive Committee of the ICTV. |
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| AbstractList | The number and diversity of viral sequences that are identified in metagenomic data far exceeds that of experimentally characterized virus isolates. In a recent workshop, a panel of experts discussed the proposal that, with appropriate quality control, viruses that are known only from metagenomic data can, and should be, incorporated into the official classification scheme of the International Committee on Taxonomy of Viruses (ICTV). Although a taxonomy that is based on metagenomic sequence data alone represents a substantial departure from the traditional reliance on phenotypic properties, the development of a robust framework for sequence-based virus taxonomy is indispensable for the comprehensive characterization of the global virome. In this Consensus Statement article, we consider the rationale for why metagenomic sequence data should, and how it can, be incorporated into the ICTV taxonomy, and present proposals that have been endorsed by the Executive Committee of the ICTV. The number and diversity of viral sequences that are identified in metagenomic data far exceeds that of experimentally characterized virus isolates. In a recent workshop, a panel of experts discussed the proposal that, with appropriate quality control, viruses that are known only from metagenomic data can, and should be, incorporated into the official classification scheme of the International Committee on Taxonomy of Viruses (ICTV). Although a taxonomy that is based on metagenomic sequence data alone represents a substantial departure from the traditional reliance on phenotypic properties, the development of a robust framework for sequence-based virus taxonomy is indispensable for the comprehensive characterization of the global virome. In this Consensus Statement article, we consider the rationale for why metagenomic sequence data should, and how it can, be incorporated into the ICTV taxonomy, and present proposals that have been endorsed by the Executive Committee of the ICTV.The number and diversity of viral sequences that are identified in metagenomic data far exceeds that of experimentally characterized virus isolates. In a recent workshop, a panel of experts discussed the proposal that, with appropriate quality control, viruses that are known only from metagenomic data can, and should be, incorporated into the official classification scheme of the International Committee on Taxonomy of Viruses (ICTV). Although a taxonomy that is based on metagenomic sequence data alone represents a substantial departure from the traditional reliance on phenotypic properties, the development of a robust framework for sequence-based virus taxonomy is indispensable for the comprehensive characterization of the global virome. In this Consensus Statement article, we consider the rationale for why metagenomic sequence data should, and how it can, be incorporated into the ICTV taxonomy, and present proposals that have been endorsed by the Executive Committee of the ICTV. |
| Author | Suttle, Curtis A Koonin, Eugene V Breitbart, Mya Orton, Richard Zerbini, F Murilo King, Andrew M Q Tesh, Robert B Delwart, Eric Simmonds, Peter Carstens, Eric B Krupovic, Mart Sullivan, Matthew B Brister, J Rodney Kuhn, Jens H Davison, Andrew J Roossinck, Marilyn J Gorbalenya, Alexander E Varsani, Arvind van der Vlugt, René A Hull, Roger Nibert, Max L Lefkowitz, Elliot J Adams, Mike J Harrach, Balázs Sabanadzovic, Sead Benkő, Mária |
| Author_xml | – sequence: 1 givenname: Peter surname: Simmonds fullname: Simmonds, Peter organization: Nuffield Department of Medicine, University of Oxford, South Parks Road, Oxford OX1 3SY, UK – sequence: 2 givenname: Mike J surname: Adams fullname: Adams, Mike J – sequence: 3 givenname: Mária surname: Benkő fullname: Benkő, Mária organization: Institute for Veterinary Medical Research, Centre for Agricultural Research, Hungarian Academy of Sciences, 21 Hungária krt., Budapest H-1143, Hungary – sequence: 4 givenname: Mya surname: Breitbart fullname: Breitbart, Mya organization: University of South Florida, College of Marine Science, 140 7th Avenue South, Saint Petersburg, Florida 33701, USA – sequence: 5 givenname: J Rodney surname: Brister fullname: Brister, J Rodney organization: National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA – sequence: 6 givenname: Eric B surname: Carstens fullname: Carstens, Eric B organization: Department of Biomedical and Molecular Sciences, Queen's University, 18 Stuart Street, Kingston, Ontario K7L 3N6, Canada – sequence: 7 givenname: Andrew J surname: Davison fullname: Davison, Andrew J organization: UK Medical Research Council (MRC)-University of Glasgow Centre for Virus Research, Sir Michael Stoker Building, 464 Bearsden Road, Glasgow G61 1QH, UK – sequence: 8 givenname: Eric surname: Delwart fullname: Delwart, Eric organization: Department of Laboratory Medicine, 521 Parnassus Avenue, University of California, San Francisco, California 94118, USA – sequence: 9 givenname: Alexander E surname: Gorbalenya fullname: Gorbalenya, Alexander E organization: Faculty of Bioengineering and Bioinformatics, Lomonosov Moscow State University, 119899 Moscow, Russia – sequence: 10 givenname: Balázs surname: Harrach fullname: Harrach, Balázs organization: Institute for Veterinary Medical Research, Centre for Agricultural Research, Hungarian Academy of Sciences, 21 Hungária krt., Budapest H-1143, Hungary – sequence: 11 givenname: Roger surname: Hull fullname: Hull, Roger organization: The John Innes Centre, Norwich, Norfolk, UK – sequence: 12 givenname: Andrew M Q surname: King fullname: King, Andrew M Q organization: The Pirbright Institute, Ash Road, Pirbright, Woking, Surrey GU24 0NF, UK – sequence: 13 givenname: Eugene V surname: Koonin fullname: Koonin, Eugene V organization: National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland 20894, USA – sequence: 14 givenname: Mart surname: Krupovic fullname: Krupovic, Mart organization: Department of Microbiology, Institut Pasteur, 25 Rue du Dr Roux, 75015 Paris, France – sequence: 15 givenname: Jens H surname: Kuhn fullname: Kuhn, Jens H organization: National Institute of Allergy and Infectious Diseases (NIAID), Integrated Research Facility at Fort Detrick (IRF-Frederick), B-8200 Research Plaza, Fort Detrick, Frederick, Maryland 21702, USA – sequence: 16 givenname: Elliot J surname: Lefkowitz fullname: Lefkowitz, Elliot J organization: Department of Microbiology, University of Alabama at Birmingham (UAB), Bevill Biomedical Research Building (BBRB) Suite 276, 845 19th Street South, Birmingham, Alabama 35294-2170, USA – sequence: 17 givenname: Max L surname: Nibert fullname: Nibert, Max L organization: Department of Microbiology and Immunobiology, Harvard Medical School, 77 Avenue Louis Pasteur, Boston, Massachusetts 02115, USA – sequence: 18 givenname: Richard surname: Orton fullname: Orton, Richard organization: UK Medical Research Council (MRC)-University of Glasgow Centre for Virus Research, Sir Michael Stoker Building, 464 Bearsden Road, Glasgow G61 1QH, UK – sequence: 19 givenname: Marilyn J surname: Roossinck fullname: Roossinck, Marilyn J organization: Department of Plant Pathology and Environmental Microbiology, Center for Infectious Disease Dynamics, Pennsylvania State University, University Park, Pennsylvania 16802, USA – sequence: 20 givenname: Sead surname: Sabanadzovic fullname: Sabanadzovic, Sead organization: Department of Biochemistry, Molecular Biology, Entomology and Plant Pathology, Mississippi State University, 100 Old Highway 12 Mail Stop 9775, Mississippi State, Mississippi 39762, USA – sequence: 21 givenname: Matthew B surname: Sullivan fullname: Sullivan, Matthew B organization: Departments of Microbiology and Civil, Environmental and Geodetic Engineering, Ohio State University, Columbus, Ohio 43210, USA – sequence: 22 givenname: Curtis A surname: Suttle fullname: Suttle, Curtis A organization: Canadian Institute for Advanced Research (CIFAR), 180 Dundas Street West, Toronto, Ontario M5G 1Z8, Canada – sequence: 23 givenname: Robert B surname: Tesh fullname: Tesh, Robert B organization: Department of Pathology and Center for Biodefense and Emerging Infectious Diseases, University of Texas Medical Branch, 301 University Boulevard, Galveston, Texas 77555-0609, USA – sequence: 24 givenname: René A surname: van der Vlugt fullname: van der Vlugt, René A organization: Wageningen Plant Research, Wageningen University and Research Centre (WUR-PRI), Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands – sequence: 25 givenname: Arvind surname: Varsani fullname: Varsani, Arvind organization: The Center for Fundamental and Applied Microbiomics, The Biodesign Institute and School of Life Sciences, Arizona State University, 1001 South McAllister Avenue, Tempe, Arizona 85281-2115, USA – sequence: 26 givenname: F Murilo surname: Zerbini fullname: Zerbini, F Murilo organization: Departamento de Fitopatologia/BIOAGRO, Universidade Federal de Viçosa, Viçosa, Minas Gerais 36570-900, Brazil |
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| Snippet | The number and diversity of viral sequences that are identified in metagenomic data far exceeds that of experimentally characterized virus isolates. In a... |
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| SubjectTerms | Base Sequence Base Sequence - genetics Biodiversity Biointeractions and Plant Health Genomes High-Throughput Nucleotide Sequencing Laboratorium voor Virologie Laboratory of Virology Life Sciences Metagenomics Microbiology and Parasitology PE&RC PPO/PRI Biointeracties en plantgezondheid PPO/PRI Biointeractions and Plant Health Quality control Systematics, Phylogenetics and taxonomy Taxonomy Virology Viruses Viruses - classification Viruses - genetics |
| Title | Consensus statement: Virus taxonomy in the age of metagenomics |
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