Roadmap for naming uncultivated archaea and bacteria

Murray, Alison E.; Freudenstein, John; Gribaldo, Simonetta; Hatzenpichler, Roland; Hugenholtz, Philip; Kämpfer, Peter; Konstantinidis, Konstantinos T.; Lane, Christopher E.; Papke, R. Thane; Parks, Donovan H.; Rossello-Mora, Ramon; Stott, Matthew B.; Sutcliffe, Iain C.; Thrash, J. Cameron; Venter, Stephanus N.; Whitman, William B.; Acinas, Silvia G.; Amann, Rudolf I.; Anantharaman, Karthik; Armengaud, Jean; Baker, Brett J.; Barco, Roman A.; Bode, Helge B.; Boyd, Eric S.; Brady, Carrie L.; Carini, Paul; Chain, Patrick S. G.; Colman, Daniel R.; DeAngelis, Kristen M.; de los Rios, Maria Asuncion; Estrada-de los Santos, Paulina; Dunlap, Christopher A.; Eisen, Jonathan A.; Emerson, David; Ettema, Thijs J. G.; Eveillard, Damien; Girguis, Peter R.; Hentschel, Ute; Hollibaugh, James T.; Hug, Laura A.; Inskeep, William P.; Ivanova, Elena P.; Klenk, Hans-Peter; Li, Wen-Jun; Lloyd, Karen G.; Löffler, Frank E.; Makhalanyane, Thulani P.; Moser, Duane P.; Nunoura, Takuro; Palmer, Marike; Parro, Victor; Pedrós-Alió, Carlos; Probst, Alexander J.; Smits, Theo H.M.; Steen, Andrew D.; Steenkamp, Emma T.; Spang, Anja; Stewart, Frank J.; Tiedje, James M.; Vandamme, Peter; Wagner, Michael; Wang, Feng-Ping; Hedlund, Brian P.; Reysenbach, Anna-Louise

doi:10.1038/s41564-020-0733-x

Please use this identifier to cite or link to this item: https://doi.org/10.21256/zhaw-20148

Publication type:	Article in scientific journal
Type of review:	Peer review (publication)
Title:	Roadmap for naming uncultivated archaea and bacteria
Authors:	Murray, Alison E. Freudenstein, John Gribaldo, Simonetta Hatzenpichler, Roland Hugenholtz, Philip Kämpfer, Peter Konstantinidis, Konstantinos T. Lane, Christopher E. Papke, R. Thane Parks, Donovan H. Rossello-Mora, Ramon Stott, Matthew B. Sutcliffe, Iain C. Thrash, J. Cameron Venter, Stephanus N. Whitman, William B. Acinas, Silvia G. Amann, Rudolf I. Anantharaman, Karthik Armengaud, Jean Baker, Brett J. Barco, Roman A. Bode, Helge B. Boyd, Eric S. Brady, Carrie L. Carini, Paul Chain, Patrick S. G. Colman, Daniel R. DeAngelis, Kristen M. de los Rios, Maria Asuncion Estrada-de los Santos, Paulina Dunlap, Christopher A. Eisen, Jonathan A. Emerson, David Ettema, Thijs J. G. Eveillard, Damien Girguis, Peter R. Hentschel, Ute Hollibaugh, James T. Hug, Laura A. Inskeep, William P. Ivanova, Elena P. Klenk, Hans-Peter Li, Wen-Jun Lloyd, Karen G. Löffler, Frank E. Makhalanyane, Thulani P. Moser, Duane P. Nunoura, Takuro Palmer, Marike Parro, Victor Pedrós-Alió, Carlos Probst, Alexander J. Smits, Theo H.M. Steen, Andrew D. Steenkamp, Emma T. Spang, Anja Stewart, Frank J. Tiedje, James M. Vandamme, Peter Wagner, Michael Wang, Feng-Ping Hedlund, Brian P. Reysenbach, Anna-Louise
et. al:	No
DOI:	10.1038/s41564-020-0733-x 10.21256/zhaw-20148
Published in:	Nature Microbiology
Volume(Issue):	5
Issue:	8
Page(s):	987
Pages to:	994
Issue Date:	8-Jun-2020
Publisher / Ed. Institution:	Nature Publishing Group
ISSN:	2058-5276
Language:	English
Subjects:	Consensus statement
Subject (DDC):	570: Biology
Abstract:	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.
Further description:	Author correction: https://doi.org/10.1038/s41564-020-00827-2 / https://doi.org/10.21256/zhaw-21146
URI:	https://digitalcollection.zhaw.ch/handle/11475/20148
Fulltext version:	Published version
License (according to publishing contract):	CC BY 4.0: Attribution 4.0 International
Departement:	Life Sciences and Facility Management
Organisational Unit:	Institute of Natural Resource Sciences (IUNR)
Appears in collections:	Publikationen Life Sciences und Facility Management

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Murray, A. E., Freudenstein, J., Gribaldo, S., Hatzenpichler, R., Hugenholtz, P., Kämpfer, P., Konstantinidis, K. T., Lane, C. E., Papke, R. T., Parks, D. H., Rossello-Mora, R., Stott, M. B., Sutcliffe, I. C., Thrash, J. C., Venter, S. N., Whitman, W. B., Acinas, S. G., Amann, R. I., Anantharaman, K., et al. (2020). Roadmap for naming uncultivated archaea and bacteria. Nature Microbiology, 5(8), 987–994. https://doi.org/10.1038/s41564-020-0733-x

Murray, A.E. et al. (2020) ‘Roadmap for naming uncultivated archaea and bacteria’, Nature Microbiology, 5(8), pp. 987–994. Available at: https://doi.org/10.1038/s41564-020-0733-x.

A. E. Murray et al., “Roadmap for naming uncultivated archaea and bacteria,” Nature Microbiology, vol. 5, no. 8, pp. 987–994, Jun. 2020, doi: 10.1038/s41564-020-0733-x.

MURRAY, Alison E., John FREUDENSTEIN, Simonetta GRIBALDO, Roland HATZENPICHLER, Philip HUGENHOLTZ, Peter KÄMPFER, Konstantinos T. KONSTANTINIDIS, Christopher E. LANE, R. Thane PAPKE, Donovan H. PARKS, Ramon ROSSELLO-MORA, Matthew B. STOTT, Iain C. SUTCLIFFE, J. Cameron THRASH, Stephanus N. VENTER, William B. WHITMAN, Silvia G. ACINAS, Rudolf I. AMANN, Karthik ANANTHARAMAN, Jean ARMENGAUD, Brett J. BAKER, Roman A. BARCO, Helge B. BODE, Eric S. BOYD, Carrie L. BRADY, Paul CARINI, Patrick S. G. CHAIN, Daniel R. COLMAN, Kristen M. DEANGELIS, Maria Asuncion DE LOS RIOS, Paulina ESTRADA-DE LOS SANTOS, Christopher A. DUNLAP, Jonathan A. EISEN, David EMERSON, Thijs J. G. ETTEMA, Damien EVEILLARD, Peter R. GIRGUIS, Ute HENTSCHEL, James T. HOLLIBAUGH, Laura A. HUG, William P. INSKEEP, Elena P. IVANOVA, Hans-Peter KLENK, Wen-Jun LI, Karen G. LLOYD, Frank E. LÖFFLER, Thulani P. MAKHALANYANE, Duane P. MOSER, Takuro NUNOURA, Marike PALMER, Victor PARRO, Carlos PEDRÓS-ALIÓ, Alexander J. PROBST, Theo H.M. SMITS, Andrew D. STEEN, Emma T. STEENKAMP, Anja SPANG, Frank J. STEWART, James M. TIEDJE, Peter VANDAMME, Michael WAGNER, Feng-Ping WANG, Brian P. HEDLUND und Anna-Louise REYSENBACH, 2020. Roadmap for naming uncultivated archaea and bacteria. Nature Microbiology. 8 Juni 2020. Bd. 5, Nr. 8, S. 987–994. DOI 10.1038/s41564-020-0733-x

Murray, Alison E., John Freudenstein, Simonetta Gribaldo, Roland Hatzenpichler, Philip Hugenholtz, Peter Kämpfer, Konstantinos T. Konstantinidis, et al. 2020. “Roadmap for Naming Uncultivated Archaea and Bacteria.” Nature Microbiology 5 (8): 987–94. https://doi.org/10.1038/s41564-020-0733-x.

Murray, Alison E., et al. “Roadmap for Naming Uncultivated Archaea and Bacteria.” Nature Microbiology, vol. 5, no. 8, June 2020, pp. 987–94, https://doi.org/10.1038/s41564-020-0733-x.