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 journalArticle

33 Citations (Scopus)

Abstract

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.
LanguageEnglish
JournalPathogens and disease
Volume71
Early online date16 Dec 2013
DOIs
Publication statusPublished - 30 Jun 2014

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Phylogeny
Pseudomonas aeruginosa
Genome
Genomics
Cystic Fibrosis
Single Nucleotide Polymorphism
Infection
Islands
Phenotype
Lung

Keywords

  • pseudomonas aeruginosa
  • cystic fibrosis
  • genomics
  • core genome
  • phylogeny
  • host adaptation

Cite this

Stewart, Lewis ; Ford, Amy ; Sangal, Vartul ; Jeukens, Julie ; Boyle, Brian ; Kukavica-Ibrulj, Iréna ; Caim, Shabhonam ; Crossman, Lisa ; Hoskisson, Paul A ; Levesque, Roger ; Tucker, Nicholas P. / Draft genomes of 12 host-adapted and environmental isolates of Pseudomonas aeruginosa and their positions in the core genome phylogeny. In: Pathogens and disease. 2014 ; Vol. 71.
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Draft genomes of 12 host-adapted and environmental isolates of Pseudomonas aeruginosa and their positions in the core genome phylogeny. / Stewart, Lewis; Ford, Amy; Sangal, Vartul; Jeukens, Julie; Boyle, Brian; Kukavica-Ibrulj, Iréna; Caim, Shabhonam; Crossman, Lisa; Hoskisson, Paul A; Levesque, Roger; Tucker, Nicholas P.

In: Pathogens and disease, Vol. 71, 30.06.2014.

Research output: Contribution to journalArticle

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