The antimicrobial resistance determinants harbored in mobile elements collaborate with the genomic adaptation of P. aeruginosa during chronic infections

MARÍA FLORENCIA RAPISARDI; LAURA GALANTERNIK; ELISABET VILACOBA; DANIELA CENTRÓN; VERONICA ALVAREZ; CECILIA QUIROGA

Congreso; ISCB Latinamerica 2016; 2016

Cystic fibrosis is an autosomal recessive hereditary disease. 80% of adult patients are chronically colonized with P. aeruginosa, which compromises lung function and reduces the life span of the patient. In the lung P. aeruginosa can evolve into different clonal variations through different genetic mechanisms. The aim of this work was to analyze four fully sequenced genomes of P. aeruginosa isolated at different times points during infection of a patient with cystic fibrosis using computational methods. The genome of strain Pae969, Pae975, Pae977 and Pae981 was sequenced using Illumina Miseq and PacBio SMRT technologies and assembled with Spades 3.5 and PacBio programs. Phylogenetic analysis revealed that several clones coexist in the same patient, where Pae981 and Pae975 shared the same lineage. Comparative analysis of all genomes using the ACT program revealed 66 regions of plasticity and various virulence factors. Mobilome analysis with programs ISfinder and Phast showed that these strains contain 17 insertion sequences, a transposon, several proteins associated to phages and a class 1 integron in the plasmid pPa981. Detection of antimicrobial resistance genes with RESFinder detected genes blaVIM-2, aacA4 and aac(6?) Ib-cr, which were located within the integron.Our data show that P. aeruginosa adapts in the lung environment of a cystic fibrosis patient during the course of infection leading to new lineages. The in-silico studies of the genomes evidenced that strain Pae981 is a successful clone that acquired antibiotic resistance genes.