ArticlemBio2020
A Genus Definition for
Article in mBio, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 172 papers, 1 of them a synthesis that pooled it.
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Who cites it
172 citing papers in PubMed, 1 synthesis or guideline pooled it, 341 citations in OpenAlex.
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- Integrative Approaches to Gut Microbiota: Biomarkers, Dysbiosis, and Therapeutic Potential.Saudi medical journal · 2026Review
- Taxonomic description of a novel genus,International journal of systematic and evolutionary microbiology · 2026Article
- Kamagatella elastica gen. nov., sp. nov., an anaerobic bacterium representing the family Kamagatellaceae fam. nov. within the order Tissierellales, isolated from a xenic culture of an anaerobic bacterivorous protist.Antonie van Leeuwenhoek · 2026Article
- Genome-Informed Identification of Species-Specific Diagnostic Markers for Listeria Using Pangenome Analysis.Pathogens (Basel, Switzerland) · 2026Article
- Genome-Based Reclassification ofMicroorganisms · 2026Article
- MIrROR release 02: Expanded and refined 16S-ITS-23S rRNA operon dataset.Scientific data · 2026Article
- Clostridium zhoujianii sp. nov., a novel gram-negative species isolated from bat feces and its genetic characteristics.BMC microbiology · 2026Article
- Cryogenic electron tomography by the numbers: Charting underexplored lineages in structural cell biology.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Uncovering the Prokaryotic Diversity of Hypersaline Soils of Odiel Saltmarshes Natural Area Through Metagenome-Assembled Genomes.Microorganisms · 2026Article
- Integrated genome mining and phytohormone profiling of six plant growth-promoting elite bacterial strains.Archives of microbiology · 2026Article
- Uncovering hidden phylo- and ecogenomic diversity of the widespread methanotrophic genus Methylobacter.FEMS microbiology ecology · 2026Article
- Phylum-wide propionate degradation and its potential connection to poly-gamma-glutamate biosynthesis in Candidatus Cloacimonadota phylum.The ISME journal · 2026Article
- Genome-based reassessment ofCurrent research in microbial sciences · 2026Article
112 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 4 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genus assignment is fundamental in the characterization of microbes, yet there is currently no unambiguous way to demarcate genera solely using standard genomic relatedness indices. Here, we propose an approach to demarcate genera that relies on the combined use of the average nucleotide identity, genome alignment fraction, and the distinction between type- and non-type species. More than 3,500 genomes representing type strains of species from >850 genera of either bacterial or archaeal lineages were tested. Over 140 genera were analyzed in detail within the taxonomic context of order/family. Significant genomic differences between members of a genus and type species of other genera in the same order/family were conserved in 94% of the cases. Nearly 90% (92% if polyphyletic genera are excluded) of the type strains were classified in agreement with current taxonomy. The 448 type strains that need reclassification directly impact 33% of the genera analyzed in detail. The results provide a first line of evidence that the combination of genomic indices provides added resolution to effectively demarcate genera within the taxonomic framework that is currently based on the 16S rRNA gene. We also identify the emergence of natural breakpoints at the genome level that can further help in the circumscription of taxa, increasing the proportion of directly impacted genera to at least 43% and pointing at inaccuracies on the use of the 16S rRNA gene as a taxonomic marker, despite its precision. Altogether, these results suggest that genomic coherence is an emergent property of genera in
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.