Development of the SeqCode: A proposed nomenclatural code for uncultivated prokaryotes with DNA sequences as type |
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| Affiliation: | 1. Department of Microbiology, University of Georgia, Athens, GA, USA;2. The University of Queensland, School of Chemistry and Molecular Biosciences, Australian Centre for Ecogenomics, Australia;3. School of Life Sciences, University of Nevada, Las Vegas, NV, USA;4. School of Civil and Environmental Engineering, Georgia Tech, Atlanta, GA, USA;5. Division of Earth and Ecosystem Sciences, Desert Research Institute, Reno, NV, USA;6. Department of Chemistry, Environmental Microbiology and Biotechnology (EMB), Group for Aquatic Microbial Ecology and Centre of Water and Environmental Research (ZWU), University of Duisburg-Essen, Essen, Germany;7. Biology Department, Portland State University, Portland, OR, USA;8. Department of Microbiology and Digital Science Center (DiSC), University of Innsbruck, Innrain 15 / 01-05, Innsbruck 6020, Austria;9. Marine Microbiology Group, Department of Animal and Microbial Diversity, Mediterranean Institute of Advanced Studies (CSIC-UIB), Esporles, Illes Balears, Spain;10. Faculty of Health & Life Sciences, Northumbria University, Newcastle upon Tyne, UK;11. Department of Biochemistry, Genetics and Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria, South Africa |
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| Abstract: | Over the last fifteen years, genomics has become fully integrated into prokaryotic systematics. The genomes of most type strains have been sequenced, genome sequence similarity is widely used for delineation of species, and phylogenomic methods are commonly used for classification of higher taxonomic ranks. Additionally, environmental genomics has revealed a vast diversity of as-yet-uncultivated taxa. In response to these developments, a new code of nomenclature, the Code of Nomenclature of Prokaryotes Described from Sequence Data (SeqCode), has been developed over the last two years to allow naming of Archaea and Bacteria using DNA sequences as the nomenclatural types. The SeqCode also allows naming of cultured organisms, including fastidious prokaryotes that cannot be deposited into culture collections. Several simplifications relative to the International Code of Nomenclature of Prokaryotes (ICNP) are implemented to make nomenclature more accessible, easier to apply and more readily communicated. By simplifying nomenclature with the goal of a unified classification, inclusive of both cultured and uncultured taxa, the SeqCode will facilitate the naming of taxa in every biome on Earth, encourage the isolation and characterization of as-yet-uncultivated taxa, and promote synergies between the ecological, environmental, physiological, biochemical, and molecular biological disciplines to more fully describe prokaryotes. |
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| Keywords: | Nomenclatural type Metagenome SeqCode Nomenclatural code Candidatus |
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