Proposal of <i>Patescibacterium danicum</i> gen. nov., sp. nov. in the ubiquitous bacterial phylum <i>Patescibacteriota</i> phyl. nov.
<i>Candidatus</i> Patescibacteria is a diverse bacterial phylum that is notable for members with ultrasmall cell size, reduced genomes, limited metabolic capabilities, and dependence on other prokaryotic hosts. Despite the prevalence of the name <i>Ca</i>. Patescibacteria in the scientific literature, it is not officially recognized under the International Code of Nomenclature of Prokaryotes and lacks a nomenclatural type. Here, we rectify this situation by describing two closely related circular metagenome-assembled genomes and by proposing one of them (ABY1<sup>TS</sup>) to serve as the nomenclatural type for the species <i>Patescibacterium danicum</i> <sup>TS</sup> gen. nov., sp. nov. according to the rules of the SeqCode. Rank-normalized phylogenomic inference confirmed the stable placement of <i>P. danicum</i> <sup>TS</sup> in the <i>Ca.</i> Patescibacteria class ABY1. Based on these results, we propose <i>Patescibacterium</i> gen. nov. to serve as the type genus for associated higher taxa, including the phylum <i>Patescibacteriota</i> phyl. nov. We complement our proposal with a genomic characterization, metabolic reconstruction, and biogeographical analysis of <i>Patescibacterium</i>. Our results confirm small genome sizes (<1 Mbp), low GC content (>36%), and the occurrence of long gene coding insertions in the 23S rRNA sequences, along with reduced metabolic potential, inferred symbiotic lifestyle, and a global distribution. In summary, our proposal will provide nomenclatural stability to the fourth-largest phylum in the bacterial domain.
Authors
- Maria Chuvochina (ORCID: https://orcid.org/0000-0002-3977-6012)
- Tanja Woyke (ORCID: https://orcid.org/0000-0002-9485-5637)
- Caitlin M. Singleton (ORCID: https://orcid.org/0000-0001-9688-8208)
- Juan C. Villada (ORCID: https://orcid.org/0000-0003-2216-4279)
- Mads Albertsen (ORCID: https://orcid.org/0000-0002-6151-190X)
- Per Halkjær Nielsen (ORCID: https://orcid.org/0000-0002-6402-1877)
- Frederik Schulz (ORCID: https://orcid.org/0000-0002-4932-4677)
- Mantas Sereika (ORCID: https://orcid.org/0000-0001-7568-1080)
- Philip Hugenholtz (ORCID: https://orcid.org/0000-0001-5386-7925)
- Aaron J. Mussig (ORCID: https://orcid.org/0000-0002-9988-0866)
- Christian Rinke
- Zuzanna Dutkiewicz
Institutions
- Lawrence Berkeley National Laboratory (US)
- The University of Queensland (AU)
- Universität Innsbruck (AT)
- Joint Genome Institute (US)
- Ecogenomics (Japan) (JP)
- Aalborg University (DK)
Publication Details
- Journal
- ISME Communications
- Published
- 2024-11-18
- DOI
- https://doi.org/10.1093/ismeco/ycae147
- Citations
- 10
- Primary Topic
- Genomics and Phylogenetic Studies
- Type
- article
- Field-Weighted Citation Impact
- 2.34
Funders
- U.S. Department of Energy
- Villum Fonden
- Joint Genome Institute
- Universität Innsbruck
- Office of Science