Roadmap for naming uncultivated Archaea and Bacteria

Autor: William P. Inskeep, Iain C. Sutcliffe, Roland Hatzenpichler, Takuro Nunoura, William B. Whitman, Paul Carini, Alison E. Murray, Kristen M. DeAngelis, Carlos Pedrós-Alió, Daniel R. Colman, Stephanus N. Venter, Rudolf Amann, Karen G. Lloyd, David R. Emerson, Donovan H. Parks, Simonetta Gribaldo, Roman A. Barco, Jonathan A. Eisen, Duane P. Moser, Andrew D. Steen, Elena P. Ivanova, Damien Eveillard, Laura A. Hug, Konstantinos T. Konstantinidis, Hans-Peter Klenk, J. Cameron Thrash, Alexander J. Probst, Brett J. Baker, Anja Spang, Fengping Wang, Paulina Estrada-de los Santos, Peter R. Girguis, Ramon Rosselló-Móra, Anna-Louise Reysenbach, Maria Asuncion de los Rios, Jean Armengaud, R. Thane Papke, Emma Theodora Steenkamp, Theo H. M. Smits, Ute Hentschel, John V. Freudenstein, Frank E. Löffler, Victor Parro, Peter Kämpfer, Wen-Jun Li, Frank J. Stewart, Christopher A. Dunlap, Karthik Anantharaman, Thulani P. Makhalanyane, Christopher E. Lane, Helge B. Bode, Philip Hugenholtz, Eric S. Boyd, Carrie Brady, Marike Palmer, Matthew B. Stott, Michael Wagner, Thisjs J. G. Ettema, James M. Tiedje, Brian P. Hedlund, Patrick S. G. Chain, Pablo Yarza, James T. Hollibaugh, Silvia G. Acinas, Peter Vandamme
Přispěvatelé: Desert Research Institute (DRI), Ecology and Organismal Biology, Ohio State University [Columbus] (OSU), Biologie Evolutive de la Cellule Microbienne - Evolutionary Biology of the Microbial Cell, Institut Pasteur [Paris] (IP)-Centre National de la Recherche Scientifique (CNRS), Montana State University (MSU), University of Queensland [Brisbane], Justus-Liebig-Universität Gießen = Justus Liebig University (JLU), Botanical and Environmental Consultant, Institute of Marine Sciences / Institut de Ciències del Mar [Barcelona] (ICM), Consejo Superior de Investigaciones Científicas [Madrid] (CSIC), Laboratoire Environnement Profond (LEP), Etudes des Ecosystèmes Profonds (EEP), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Laboratoire de Biochimie des Systèmes Perturbés (LBSP), Commissariat à l'énergie atomique et aux énergies alternatives (CEA), University of Texas at Austin [Austin], Buchmann Institute for Molecular Life Sciences [Frankfurt am Main] (BMLS), Goethe-Universität Frankfurt am Main, Istituto delle Scienze dell' Atmosfera e dell'Oceano [Bologna] (ISAO), National Research Council of Italy | Consiglio Nazionale delle Ricerche (CNR), Universidad Nacional Autónoma de México = National Autonomous University of Mexico (UNAM), Bigelow Laboratory for Ocean Sciences, Uppsala University, Laboratoire des Sciences du Numérique de Nantes (LS2N), Université de Nantes - UFR des Sciences et des Techniques (UN UFR ST), Université de Nantes (UN)-Université de Nantes (UN)-École Centrale de Nantes (ECN)-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT), Combinatoire et Bioinformatique (LS2N - équipe COMBI), Institut Mines-Télécom [Paris] (IMT)-Institut Mines-Télécom [Paris] (IMT)-Université de Nantes - UFR des Sciences et des Techniques (UN UFR ST), Institut méditerranéen de biodiversité et d'écologie marine et continentale (IMBE), Avignon Université (AU)-Aix Marseille Université (AMU)-Institut de recherche pour le développement [IRD] : UMR237-Centre National de la Recherche Scientifique (CNRS), Department of Theoretical Mechanics, St. Petersburg State Polytechnical University, Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH / Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures (DSMZ), Sun Yat-Sen University [Guangzhou] (SYSU), Physikalisch-Technische Bundesanstalt [Braunschweig] (PTB), Japan Agency for Marine-Earth Science and Technology (JAMSTEC), Department of Earth and Planetary Science [UC Berkeley] (EPS), University of California [Berkeley] (UC Berkeley), University of California (UC)-University of California (UC), The Center for Microbial Ecology, Department of Microbiology and Molecular Genetics, Michigan State University [East Lansing], Michigan State University System-Michigan State University System, Universiteit Gent = Ghent University (UGENT), SANOFI (Research and Development), Research and Development, Support for this effort was provided by the National Science Foundation (grant no. DEB-1841658), We extend deep appreciation to all who attended the Microbial Taxonomy 2018 seminars, the Microbial Systematics for the Next Decade workshop held in Hood River, Oregon, USA, in October 2018, and those that participated in subsequent discussions and provided comments to mature the concept communicated here., Institut Pasteur [Paris]-Centre National de la Recherche Scientifique (CNRS), Justus-Liebig-Universität Gießen (JLU), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Consiglio Nazionale delle Ricerche (CNR), Universidad Nacional Autónoma de México (UNAM), Université de Nantes (UN)-Université de Nantes (UN)-École Centrale de Nantes (ECN)-Centre National de la Recherche Scientifique (CNRS)-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique), Combinatoire et Bioinformatique (COMBI), Centre National de la Recherche Scientifique (CNRS)-Institut de recherche pour le développement [IRD] : UMR237-Aix Marseille Université (AMU)-Avignon Université (AU), University of California [Berkeley], University of California-University of California, Universiteit Gent = Ghent University [Belgium] (UGENT), Unidad de Excelencia Científica María de Maeztu Centro de Astrobiología del Instituto Nacional de Técnica Aeroespacial y CSIC, MDM-2017-0737, Murray, A. E. [0000-0001-5790-7584], Gribaldo, S. [0000-0002-7662-021X], Hatzenpichler, R. [0000-0002-5489-3444], Hugenholtz, P. [0000-0001-5386-7925], Lane, C. [0000-0003-2558-2767], Parks, D. H. [0000-0001-6662-9010], Stott, M. B. [0000-0002-2082-9460], Thrash, J. C. [0000-0003-0896-9986], Anantharaman, K. [0000-0002-9584-2491], Armegaud, J. [0000-0003-1589-445X], Bode, H. B. [0000-0001-6048-5909], De Angelis, K. M. [0000-0002-5585-4551], De los Santos, P. E. [0000-0003-2407-0284], Eisen, J. A. [0000-0002-0159-2197], Ettema, T. J. G. [0000-0002-6898-6377], Eveillard, D. [0000-0002-8162-7360], Hentschel, U. [0000-0003-0596-790X], Inskeep, W. P. [0000-0002-5203-817X], Klenk, H. P. [0000-0001-6758-8150], Palmer, M. [0000-0001-8395-8465], Probst, A. [0000-0002-9392-6544], Smits, T. H. M. [0000-0002-1237-235X], Steen, A. D. [0000-0003-4297-4332], Spang, A. [0000-0002-6518-8556], Wang, F. [0000-0002-3429-8410], Hedlund, B. [0000-0001-8530-0448], Reysenbach, A. L. [0000-0001-9130-7750], Amann, R. [0000-0002-0846-7372], National Science Foundation (NSF), National Science Foundation, DEB-1841658, National Science Foundation (US), Agencia Estatal de Investigación (España)
Jazyk: angličtina
Rok vydání: 2020
Předmět:
[INFO.INFO-OH]Computer Science [cs]/Other [cs.OH]
Applied Microbiology and Biotechnology
Genome
Microbiologie
Nomenclature
Phylogeny
ComputingMilieux_MISCELLANEOUS
0303 health sciences
Environmental microbiology
Bacterial
C500
[SDV.BIBS]Life Sciences [q-bio]/Quantitative Methods [q-bio.QM]
Microbes
Medical Microbiology
Taxonomy (biology)
Biologie
Sequence Analysis
Microbiology (medical)
DNA
Bacterial
Immunology
Chemie
Computational biology
Biology
Microbiology
DNA sequencing
03 medical and health sciences
Type (biology)
Microbial ecology
Terminology as Topic
Genetics
Life Science
Author Correction
030304 developmental biology
Taxonomy
WIMEK
Bacteria
030306 microbiology
Consensus Statement
Biology and Life Sciences
NEED
Cell Biology
DNA
Sequence Analysis
DNA
570: Biologie
Archaea
Mikrobiologi
Taxon
Prokaryotic Cells
Metagenomics
AD-HOC COMMITTEE
Metagenome
[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM]
[SDV.EE.IEO]Life Sciences [q-bio]/Ecology
environment/Symbiosis
Zdroj: Nature Microbiology
Nature Microbiology, 2020, 5 (8), pp.987-994. ⟨10.1038/s41564-020-0733-x⟩
Nature Microbiology, Nature Publishing Group, 2020, 5 (8), pp.987-994. ⟨10.1038/s41564-020-0733-x⟩
DIGITAL.INTA Repositorio Digital del Instituto Nacional de Técnica Aeroespacial
instname
Nature microbiology, vol 5, iss 8
Instituto Nacional de Técnica Aeroespacial (INTA)
Nature Microbiology 5 (2020)
NATURE MICROBIOLOGY
Digital.CSIC. Repositorio Institucional del CSIC
Nature Microbiology, 5, 987-994
ISSN: 2058-5276
DOI: 10.1038/s41564-020-0733-x⟩
Popis: 8 pages, 2 figures, 1 table, 2 boxes, supplementary information https://doi.org/10.1038/s41564-020-0733-x.-- Author Correction: Roadmap for naming uncultivated Archaea and Bacteria: n the version of this Consensus Statement originally published, Pablo Yarza was mistakenly not included in the author list. Also, in Supplementary Table 1, Alexander Jaffe was missing from the list of endorsees. These errors have now been corrected and the updated Supplementary Table 1 is available online
The assembly of single-amplified genomes (SAGs) and metagenome-assembled genomes (MAGs) has led to a surge in genome-based discoveries of members affiliated with Archaea and Bacteria, bringing with it a need to develop guidelines for nomenclature of uncultivated microorganisms. The International Code of Nomenclature of Prokaryotes (ICNP) only recognizes cultures as ‘type material’, thereby preventing the naming of uncultivated organisms. In this Consensus Statement, we propose two potential paths to solve this nomenclatural conundrum. One option is the adoption of previously proposed modifications to the ICNP to recognize DNA sequences as acceptable type material; the other option creates a nomenclatural code for uncultivated Archaea and Bacteria that could eventually be merged with the ICNP in the future. Regardless of the path taken, we believe that action is needed now within the scientific community to develop consistent rules for nomenclature of uncultivated taxa in order to provide clarity and stability, and to effectively communicate microbial diversity
Support for this effort was provided by the National Science Foundation (grant no. DEB-1841658). We extend deep appreciation to all who attended the Microbial Taxonomy 2018 seminars, the Microbial Systematics for the Next Decade workshop held in Hood River, Oregon, USA, in October 2018, and those that participated in subsequent
With the funding support of the ‘Severo Ochoa Centre of Excellence’ accreditation (CEX2019-000928-S), of the Spanish Research Agency (AEI)
Databáze: OpenAIRE
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