ArticleMicrobial genomics2024
Delineating bacterial genera based on gene content analysis: a case study of the
Article in Microbial genomics, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed.
- Species-Specific Bacterial Associations Emerge From Stochastically Assembled Microbiomes in Northeastern American Fireflies.Molecular ecology · 2026Article
- Advancing standardization of diagnostics and antimicrobial susceptibility testing for pathogenic mycoplasmas of livestock origin: insights from the MyMIC network.BMC veterinary research · 2025Article
- Molecular Characterization and Clinicopathological Findings ofAnimals : an open access journal from MDPI · 2025Article
- Molecular, Phylogenetic and Immunohistochemical Detection of Bovine Mycoplasmosis in Clinical and Subclinical Mastitic Cows in Wasit Province, Iraq.Veterinary medicine and science · 2025Article
- Identifying Infectious Agents in Snakes (Boidae and Pythonidae) with and Without Respiratory Disease.Animals : an open access journal from MDPI · 2025Article
- Article
- Diverse toxin repertoire but limited metabolic capacities inferred from the draft genome assemblies of threeMicrobial genomics · 2025Article
- Effects of neutral detergent fiber levels on apparent nutrient digestibility and intestinal microbiota composition and function in forest musk deer.Frontiers in veterinary science · 2025Article
Corrections and comments
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genome-based analysis allows for large-scale classification of diverse bacteria and has been widely adopted for delineating species. Unfortunately, for higher taxonomic ranks such as genus, establishing a generally accepted approach based on genome analysis is challenging. While core-genome phylogenies depict the evolutionary relationships among species, determining the correspondence between clades and genera may not be straightforward. For genotypic divergence, the percentage of conserved proteins and genome-wide average amino acid identity are commonly used, but often do not provide a clear threshold for classification. In this work, we investigated the utility of global comparisons and data visualization in identifying clusters of species based on their overall gene content and rationalized that such patterns can be integrated with phylogeny and other information such as phenotypes for improving taxonomy. As a proof of concept, we selected 177 representative genome sequences from the
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Registered trials
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