Draft genomes of 12 host-adapted and environmental isolates of Pseudomonas aeruginosa and their positions in the core genome phylogeny

Lewis Stewart, Amy Ford, Vartul Sangal, Julie Jeukens, Brian Boyle, Iréna Kukavica-Ibrulj, Shabhonam Caim, Lisa Crossman, Paul A. Hoskisson, Roger Levesque, Nicholas P. Tucker

Research output: Contribution to journalArticlepeer-review

47 Citations (Scopus)


Pseudomonas aeruginosa is a Gram-negative opportunistic pathogen particularly associated with the inherited disease cystic fibrosis (CF). Pseudomonas aeruginosa is well known to have a large and adaptable genome that enables it to colonise a wide range of ecological niches. Here, we have used a comparative genomics approach to identify changes that occur during infection of the CF lung. We used the mucoid phenotype as an obvious marker of host adaptation and compared these genomes to analyse SNPs, indels and islands within near-isogenic pairs. To commence the correction of the natural bias towards clinical isolates in genomics studies and to widen our understanding of the genomic diversity of P. aeruginosa, we included four environmental isolates in our analysis. Our data suggest that genome plasticity plays an important role in chronic infection and that the strains sequenced in this study are representative of the two major phylogenetic groups as determined by core genome SNP analysis.

Original languageEnglish
Pages (from-to)20-25
Number of pages6
JournalPathogens and Disease
Issue number1
Publication statusPublished - Jun 2014


  • Core genome
  • Cystic fibrosis
  • Genomics
  • Host adaptation
  • Phylogeny
  • Pseudomonas aeruginosa

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