ArticleGenome biology and evolution2015
Gene Loss Dominates As a Source of Genetic Variation within Clonal Pathogenic Bacterial Species.
Article in Genome biology and evolution, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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Who cites it
42 citing papers in PubMed.
- Ecology, global diversity and evolutionary mechanisms in the Mycobacterium tuberculosis complex.Nature reviews. Microbiology · 2025Review
- Interred mechanisms of resistance and host immune evasion revealed through network-connectivity analysis ofmSystems · 2025Article
- UniMap: Type-Level Integration Enhances Biological Preservation and Interpretability in Single-Cell Annotation.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- Persistent, Private, and Mobile Genes: A Model for Gene Dynamics in Evolving Pangenomes.Molecular biology and evolution · 2025Article
- PanBGC: a pangenome-inspired framework for comparative analysis of biosynthetic gene clusters.ISME communications · 2025Article
- Beyond H37Rv:Frontiers in microbiology · 2025Review
- Diversification of gene content in theMicrobiology spectrum · 2024Article
- Asymptomatic but infectious - The silent driver of pathogen transmission. A pragmatic review.Epidemics · 2023Review
- Gene loss during a transition to multicellularity.Scientific reports · 2023Article
- Features ofMicroorganisms · 2023Article
- Challenges and opportunities of strain diversity in gut microbiome research.Frontiers in microbiology · 2023Review
- The rate and role of pseudogenes of theMicrobial genomics · 2022Article
- Using Genomes and Evolutionary Analyses to Screen for Host-Specificity and Positive Selection in the Plant Pathogen Xylella fastidiosa.Applied and environmental microbiology · 2022Article
- Link Between Antibiotic Persistence and Antibiotic Resistance in Bacterial Pathogens.Frontiers in cellular and infection microbiology · 2022Review
- The open pan-genome architecture and virulence landscape ofMicrobial genomics · 2021Article
- Pandora: nucleotide-resolution bacterial pan-genomics with reference graphs.Genome biology · 2021Article
- Genome Mining and Comparative Genome Analysis Revealed Niche-Specific Genome Expansion in AntibacterialGenes · 2021Article
- Gene loss through pseudogenization contributes to the ecological diversification of a generalist Roseobacter lineage.The ISME journal · 2021Article
- A new nomenclature for the livestock-associatedOpen research Europe · 2021Article
- The incidence of antibiotic resistance within and beyond the agricultural ecosystem: A concern for public health.MicrobiologyOpen · 2020Review
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2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Some of the most dangerous pathogens such as Mycobacterium tuberculosis and Yersinia pestis evolve clonally. This means that little or no recombination occurs between strains belonging to these species. Paradoxically, although different members of these species show extreme sequence similarity of orthologous genes, some show considerable intraspecies phenotypic variation, the source of which remains elusive. To examine the possible sources of phenotypic variation within clonal pathogenic bacterial species, we carried out an extensive genomic and pan-genomic analysis of the sources of genetic variation available to a large collection of clonal and nonclonal pathogenic bacterial species. We show that while nonclonal species diversify through a combination of changes to gene sequences, gene loss and gene gain, gene loss completely dominates as a source of genetic variation within clonal species. Indeed, gene loss is so prevalent within clonal species as to lead to levels of gene content variation comparable to those found in some nonclonal species that are much more diverged in their gene sequences and that acquire a substantial number of genes horizontally. Gene loss therefore needs to be taken into account as a potential dominant source of phenotypic variation within clonal bacterial species.
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