Dataset : Genotypic and phenotypic evolution of a Pseudomonas aeruginosa ST395 strain during 11-year in hospital spread.



Didier Hocquet (2017): Genotypic and phenotypic evolution of a Pseudomonas aeruginosa ST395 strain during 11-year in hospital spread.. National Center for Biotechnology Information. doi:10.25666/DATAOSU-2021-07-07

General metadata

Identifier : local : FR-18008901306731-2021-07-07 external : doi:10.25666/DATAOSU-2021-07-07, ncbi:PRJNA399056
Description :
P. aeruginosa is an opportunistic pathogen responsible of hospital-acquired infections in immunocompromised patients. Although in-host evolution of P. aeruginosa is well documented, little is known about this pathogen evolution during its spread on a hospital scale. The high-risk multidrug resistant clone ST395 spread among more than 300 patients in the University Hospital of Besançon between 1997 and 2008. We used a WGS approach to identify the origin of the outbreak, the features that could have helped its implantation in our hospital and those associated with the end of the epidemics. The genomes of 54 representative isolates were fully sequenced. The phylogenetic tree indicated two distinct clusters corresponding to two parallel outbreaks. The ancestor of the ST395 clone possibly contaminated our hospital water network during its construction in 1979. This hypothesis is supported by the fact that the ST395 strain had a specific genomic island carrying 6 copper transporter genes implicated in copper resistance, correlated with the resistance to this metal which water supply network is made of. The late isolates displayed independent genomic signatures of chronic adaptation in patients (altered LPS and porin OprD, and extinction of MexAB-oprM efflux pump overproduction). Some of these mutations were associated with a decreased in vitro fitness. We hypothesize that the independent emergence of isolates adapted to chronic infection, and thus the accumulation of epidemiological dead-ends, participated to the end of the hospital outbreak of P. aeruginosa ST395.
Disciplines :
microbiology (fundamental biology), infectious diseases (medical research)
Keywords :

Dates :
Data acquisition : from 1997 to 2013
Data provision : 21 Aug 2017
Metadata record :
Creation : 7 Jul 2021

Update periodicity : no update
Language : English (eng)
Additional information :
Données collectées dans le cadre de la thèse en Sciences de la vie et de la santé de Marie Petitjean, co encadrée par Didier Hocquet, Professeur des Universités - Praticien Hospitalier au laboratoire Chrono-environnement, et Benoît Valot, Ingénieur de Recherche au laboratoratoire Chrono-environnement.
Audience : Research


Spatial coverage :

Time coverage :

Taxonomic coverage :

  • Species
    Pseudomonas aeruginosa Catalogue of Life (Pseudomonas aeruginosa)

Administrative metadata

Data creatorAffiliation
Didier HocquetChrono-environnement (FRA)
Benoit ValotChrono-environnement (FRA)related person
Marie PetitjeanChrono-environnement (FRA)related person
Xavier BertrandChrono-environnement (FRA)data collector
Publisher : National Center for Biotechnology Information
Label : Mésocentre(s) UBFC
Science contact : Didier Hocquet website e-mail
Computing contact : Benoit Valot e-mail
Projects and funders :
Access : available

Technical metadata

Formats : text/plain
Data acquisition methods :
  • Experimental data :
    Bacterial DNA was isolated from overnight cultures on Mueller-­Hinton agar using the Genomic-­tip kit (Qiagen) and paired-­end sequenced with Illumina NextSeq, at 2×150 bp.
Datatype : Dataset


  • Genomic characterization of a local epidemic Pseudomonas aeruginosa reveals specific features of the widespread clone ST395 (doi:10.1099/mgen.0.000129)
  • The rise and the fall of a Pseudomonas aeruginosa endemic lineage in a hospital (doi:10.1099/mgen.0.000629)
  • Petitjean, Marie. Évolution génotypique et phénotypique d'une souche épidémique de Pseudomonas aeruginosa au cours des 11 ans de sa diffusion hospitalière (hal:tel-01823039)
Terms of use