The landscape of realized homologous recombination in pathogenic bBacteria

Koji Yahara, Xavier Didelot, Keith A. Jolley, Ichizo Kobayashi, Martin C J Maiden, Samuel Sheppard, Daniel Falush

Research output: Contribution to journalArticle

16 Citations (Scopus)

Abstract

Recombination enhances the adaptive potential of organisms by allowing genetic variants to be tested on multiple genomic backgrounds. Its distribution in the genome can provide insight into the evolutionary forces that underlie traits, such as the emergence of pathogenicity. Here, we examined landscapes of realized homologous recombination of 500 genomes from ten bacterial species and found all species have “hot” regions with elevated rates relative to the genome average. We examined the size, gene content, and chromosomal features associated with these regions and the correlations between closely related species. The recombination landscape is variable and evolves rapidly. For example in Salmonella, only short regions of around 1 kb in length are hot whereas in the closely related species Escherichia coli, some hot regions exceed 100 kb, spanning many genes. Only Streptococcus pyogenes shows evidence for the positive correlation between GC content and recombination that has been reported for several eukaryotes. Genes with function related to the cell surface/membrane are often found in recombination hot regions but E. coli is the only species where genes annotated as “virulence associated” are consistently hotter. There is also evidence that some genes with “housekeeping” functions tend to be overrepresented in cold regions. For example, ribosomal proteins showed low recombination in all of the species. Among specific genes, transferrin-binding proteins are recombination hot in all three of the species in which they were found, and are subject to interspecies recombination.
Original languageEnglish
Pages (from-to)456-471
Number of pages16
JournalMolecular Biology and Evolution
Volume33
Issue number2
Early online date29 Oct 2015
DOIs
Publication statusPublished - 1 Feb 2016

Fingerprint

Homologous Recombination
homologous recombination
Genetic Recombination
recombination
gene
genes
Genes
genome
Virulence
Transferrin-Binding Proteins
Genome
Escherichia coli
Streptococcus pyogenes
Bacterial Genomes
Horizontal Gene Transfer
Ribosomal Proteins
cold zones
ribosomal proteins
Essential Genes
Base Composition

Keywords

  • Recombination
  • Selection
  • Pathogenicity
  • Population genetics

Cite this

The landscape of realized homologous recombination in pathogenic bBacteria. / Yahara, Koji; Didelot, Xavier; Jolley, Keith A.; Kobayashi, Ichizo; Maiden, Martin C J; Sheppard, Samuel; Falush, Daniel.

In: Molecular Biology and Evolution, Vol. 33, No. 2, 01.02.2016, p. 456-471.

Research output: Contribution to journalArticle

Yahara, Koji ; Didelot, Xavier ; Jolley, Keith A. ; Kobayashi, Ichizo ; Maiden, Martin C J ; Sheppard, Samuel ; Falush, Daniel. / The landscape of realized homologous recombination in pathogenic bBacteria. In: Molecular Biology and Evolution. 2016 ; Vol. 33, No. 2. pp. 456-471.
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