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Cited by 41Bacterial Genetics and BiotechnologyAntibiotic Resistance in BacteriaGenomics and Phylogenetic Studies

Genetic exchanges are more frequent in bacteria encoding capsules

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Rendueles, Olaya, de Sousa, Jorge A. Moura, Bernheim, Aude, Touchon, Marie, Rocha, Eduardo P. C.·2018·PLOS Genetics
DOI 10.1371/journal.pgen.1007862PMC PMC6322790
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Abstract

Capsules allow bacteria to colonize novel environments, to withstand numerous stresses, and to resist antibiotics. Yet, even though genetic exchanges with other cells should be adaptive under such circumstances, it has been suggested that capsules lower the rates of homologous recombination and horizontal gene transfer. We analysed over one hundred pan-genomes and thousands of bacterial genomes for the evidence of an association between genetic exchanges (or lack thereof) and the presence of a capsule system. We found that bacteria encoding capsules have larger pan-genomes, higher rates of horizontal gene transfer, and higher rates of homologous recombination in their core genomes. Accordingly, genomes encoding capsules have more plasmids, conjugative elements, transposases, prophages, and integrons. Furthermore, capsular loci are frequent in plasmids, and can be found in prophages. These results are valid for Bacteria, independently of their ability to be naturally transformable. Since we have shown previously that capsules are commonly present in nosocomial pathogens, we analysed their co-occurrence with antibiotic resistance genes. Genomes encoding capsules have more antibiotic resistance genes, especially those encoding efflux pumps, and they constitute the majority of the most worrisome nosocomial bacteria. We conclude that bacteria with capsule systems are more genetically diverse and have fast-evolving gene repertoires, which may further contribute to their success in colonizing novel niches such as humans under antibiotic therapy.

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  • Causal inference methods such as phylogenetic path analysis could be used to test causal hypotheses.

    “In this case, causal inference methods such as phylogenetic path analysis could be used to test causal hypotheses84,88,89.”

    From A phylogenetic approach to comparative genomics (2025) · cites this paper as [89]

    The Discussion proposes alternative causal explanations for the association between capsules and genetic exchange. However, neither it nor the Methods passages found when searching for phylogenetic path analysis and causal inference say that path analysis could be used to test causal hypotheses. No page numbers are available in our copy. (LLM, conf=0.76)

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Cited by

Sorted by citations

Authors
Rendueles, O., de Sousa, J. A. M., Bernheim, A., Touchon, M., & Rocha, E. P. C.
Affiliations
Centre National de la Recherche Scientifique (FR)
Corresponding author
Rendueles, Olaya
ORCID
Venue
PLOS Genetics
Publisher
Public Library of Science (PLoS)
Published
2018-12-21
Volume
14
Issue
12
Pages
e1007862
ISSN
  • 1553-7390 (ISSN-L)
  • 1553-7404
DOI
10.1371/journal.pgen.1007862
PMC
PMC6322790
OpenAlex
W2905633810
Cited by
41
References
0
Citations by year
2026: 4 · 2025: 3 · 2024: 6 · 2023: 6 · 2022: 4 · 2021: 7 · 2020: 6 · 2019: 5
FWCI
2.72
Type
journal article
Language
en
Update notices
new_version (2019-01-07)
Open access
Licence
Locations
  • PLoS Genetics (publishedVersion, cc-by)
  • Europe PMC (PubMed Central) (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • HAL (submittedVersion, other-oa)
  • DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
  • Figshare (submittedVersion, cc-by)
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Bacterial Genetics and Biotechnology
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Medicine › Antibiotic Resistance in Bacteria
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
Keywords
bacterial capsule, genetic exchange, horizontal gene transfer, homologous recombination, pan-genome, plasmids, prophages, integrons, transposase, conjugative elements, antibiotic resistance genes, efflux pumps, nosocomial pathogens, bacterial colonization, core genome
MeSH terms
Bacteria, Phylogeny, Species Specificity, DNA Restriction-Modification Enzymes, Bacterial Capsules, Genome, Bacterial, Interspersed Repetitive Sequences, Gene Transfer, Horizontal, Drug Resistance, Bacterial, Homologous Recombination

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