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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)....
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2023
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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. |
format | Online Article Text |
id | pubmed-10408702 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
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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