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Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes

The Genome Taxonomy Database (GTDB) is a taxonomic framework that defines prokaryotic taxa as monophyletic groups in concatenated protein reference trees according to systematic criteria. This has resulted in a substantial number of changes to existing classifications (https://gtdb.ecogenomic.org)....

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Autores principales: Chuvochina, Maria, Mussig, Aaron J, Chaumeil, Pierre-Alain, Skarshewski, Adam, Rinke, Christian, Parks, Donovan H, Hugenholtz, Philip
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10408702/
https://www.ncbi.nlm.nih.gov/pubmed/37480240
http://dx.doi.org/10.1093/femsle/fnad071
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author Chuvochina, Maria
Mussig, Aaron J
Chaumeil, Pierre-Alain
Skarshewski, Adam
Rinke, Christian
Parks, Donovan H
Hugenholtz, Philip
author_facet Chuvochina, Maria
Mussig, Aaron J
Chaumeil, Pierre-Alain
Skarshewski, Adam
Rinke, Christian
Parks, Donovan H
Hugenholtz, Philip
author_sort Chuvochina, Maria
collection PubMed
description The Genome Taxonomy Database (GTDB) is a taxonomic framework that defines prokaryotic taxa as monophyletic groups in concatenated protein reference trees according to systematic criteria. This has resulted in a substantial number of changes to existing classifications (https://gtdb.ecogenomic.org). In the case of union of taxa, GTDB names were applied based on the priority of publication. The division of taxa or change in rank led to the formation of new Latin names above the rank of genus that were only made publicly available via the GTDB website without associated published taxonomic descriptions. This has sometimes led to confusion in the literature and databases. A number of the provisional GTDB names were later published in other studies, while many still lack authorships. To reduce further confusion, here we propose names and descriptions for 329 GTDB-defined prokaryotic taxa, 223 of which are suitable for validation under the International Code of Nomenclature of Prokaryotes (ICNP) and 49 under the Code of Nomenclature of Prokaryotes described from Sequence Data (SeqCode). For the latter, we designated 23 genomes as type material. An additional 57 taxa that do not currently satisfy the validation criteria of either code are proposed as Candidatus.
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spelling pubmed-104087022023-08-09 Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes Chuvochina, Maria Mussig, Aaron J Chaumeil, Pierre-Alain Skarshewski, Adam Rinke, Christian Parks, Donovan H Hugenholtz, Philip FEMS Microbiol Lett Research Letter The Genome Taxonomy Database (GTDB) is a taxonomic framework that defines prokaryotic taxa as monophyletic groups in concatenated protein reference trees according to systematic criteria. This has resulted in a substantial number of changes to existing classifications (https://gtdb.ecogenomic.org). In the case of union of taxa, GTDB names were applied based on the priority of publication. The division of taxa or change in rank led to the formation of new Latin names above the rank of genus that were only made publicly available via the GTDB website without associated published taxonomic descriptions. This has sometimes led to confusion in the literature and databases. A number of the provisional GTDB names were later published in other studies, while many still lack authorships. To reduce further confusion, here we propose names and descriptions for 329 GTDB-defined prokaryotic taxa, 223 of which are suitable for validation under the International Code of Nomenclature of Prokaryotes (ICNP) and 49 under the Code of Nomenclature of Prokaryotes described from Sequence Data (SeqCode). For the latter, we designated 23 genomes as type material. An additional 57 taxa that do not currently satisfy the validation criteria of either code are proposed as Candidatus. Oxford University Press 2023-07-21 /pmc/articles/PMC10408702/ /pubmed/37480240 http://dx.doi.org/10.1093/femsle/fnad071 Text en © The Author(s) 2023. Published by Oxford University Press on behalf of FEMS. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Letter
Chuvochina, Maria
Mussig, Aaron J
Chaumeil, Pierre-Alain
Skarshewski, Adam
Rinke, Christian
Parks, Donovan H
Hugenholtz, Philip
Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes
title Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes
title_full Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes
title_fullStr Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes
title_full_unstemmed Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes
title_short Proposal of names for 329 higher rank taxa defined in the Genome Taxonomy Database under two prokaryotic codes
title_sort proposal of names for 329 higher rank taxa defined in the genome taxonomy database under two prokaryotic codes
topic Research Letter
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10408702/
https://www.ncbi.nlm.nih.gov/pubmed/37480240
http://dx.doi.org/10.1093/femsle/fnad071
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