ArticleGenome biology and evolution2018
Genetic Competence Drives Genome Diversity in Bacillus subtilis.
Article in Genome biology and evolution, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers, 1 of them a synthesis that pooled it.
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Who cites it
36 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Machine learning enables prediction of metabolic system evolution in bacteria.Science advances · 2023Pooled it
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- Systems-level genomic and functional characterization of lipopeptide biosurfactant pathways in Bacillus albus MITWPUB5.World journal of microbiology & biotechnology · 2026Article
- Comparative genomic analysis of poly-γ-glutamic acid producing Bacillus licheniformis strains isolated from dairy products.Journal, genetic engineering & biotechnology · 2026Article
- Genomic and functional landscape of antimicrobial peptides and lipopeptides from ginger honey-derived Bacillus subtilis.Molecular genetics and genomics : MGG · 2026Article
- Advances in genome-scale metabolic modeling of Bacillus subtilis.Biotechnology letters · 2026Review
- Characterization and genome mining ofHeliyon · 2024Article
- Comparative genomics reveals insights into the potential of Lysinibacillus irui as a plant growth promoter.Applied microbiology and biotechnology · 2024Article
- Comparative Genomics Unveils Functional Diversity, Pangenome Openness, and Underlying Biological Drivers amongMicroorganisms · 2024Article
- In Silico Safety Assessment ofInternational journal of molecular sciences · 2024Article
- Arbitrium communication controls phage lysogeny through non-lethal modulation of a host toxin-antitoxin defence system.Nature microbiology · 2024Article
- Article
- Genome-wide transformation reveals extensive exchange across closely related Bacillus species.Nucleic acids research · 2023Article
- Signatures of kin selection in a natural population of the bacteriaEvolution letters · 2023Article
- Cell-to-cell natural transformation in Bacillus subtilis facilitates large scale of genomic exchanges and the transfer of long continuous DNA regions.Nucleic acids research · 2023Article
- Greedy reduction of Bacillus subtilis genome yields emergent phenotypes of high resistance to a DNA damaging agent and low evolvability.Nucleic acids research · 2023Article
- Distribution of fitness effects of cross-species transformation reveals potential for fast adaptive evolution.The ISME journal · 2023Article
- Comprehensive genomic analysis ofComputational and structural biotechnology journal · 2023Article
- Phylogenomic characterization and pangenomic insights into the surfactin-producing bacteria Bacillus subtilis strain RI4914.Brazilian journal of microbiology : [publication of the Brazilian Society for Microbiology] · 2022Article
- Isolation, Purification, and Characterisation of a Phage Tail-Like Bacteriocin from the Insect Pathogenic BacteriumBiomolecules · 2022Article
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Prokaryote genomes are the result of a dynamic flux of genes, with increases achieved via horizontal gene transfer and reductions occurring through gene loss. The ecological and selective forces that drive this genomic flexibility vary across species. Bacillus subtilis is a naturally competent bacterium that occupies various environments, including plant-associated, soil, and marine niches, and the gut of both invertebrates and vertebrates. Here, we quantify the genomic diversity of B. subtilis and infer the genome dynamics that explain the high genetic and phenotypic diversity observed. Phylogenomic and comparative genomic analyses of 42 B. subtilis genomes uncover a remarkable genome diversity that translates into a core genome of 1,659 genes and an asymptotic pangenome growth rate of 57 new genes per new genome added. This diversity is due to a large proportion of low-frequency genes that are acquired from closely related species. We find no gene-loss bias among wild isolates, which explains why the cloud genome, 43% of the species pangenome, represents only a small proportion of each genome. We show that B. subtilis can acquire xenologous copies of core genes that propagate laterally among strains within a niche. While not excluding the contributions of other mechanisms, our results strongly suggest a process of gene acquisition that is largely driven by competence, where the long-term maintenance of acquired genes depends on local and global fitness effects. This competence-driven genomic diversity provides B. subtilis with its generalist character, enabling it to occupy a wide range of ecological niches and cycle through them.
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