AUTHOR=Freschi Luca , Jeukens Julie , Kukavica-Ibrulj Irena , Boyle Brian , Dupont Marie-Josée , Laroche Jérôme , Larose Stéphane , Maaroufi Halim , Fothergill Joanne L. , Moore Matthew , Winsor Geoffrey L. , Aaron Shawn D. , Barbeau Jean , Bell Scott C. , Burns Jane L. , Camara Miguel , Cantin André , Charette Steve J. , Dewar Ken , Déziel Éric , Grimwood Keith , Hancock Robert E. W. , Harrison Joe J. , Heeb Stephan , Jelsbak Lars , Jia Baofeng , Kenna Dervla T. , Kidd Timothy J. , Klockgether Jens , Lam Joseph S. , Lamont Iain L. , Lewenza Shawn , Loman Nick , Malouin François , Manos Jim , McArthur Andrew G. , McKeown Josie , Milot Julie , Naghra Hardeep , Nguyen Dao , Pereira Sheldon K. , Perron Gabriel G. , Pirnay Jean-Paul , Rainey Paul B. , Rousseau Simon , Santos Pedro M. , Stephenson Anne , Taylor Véronique , Turton Jane F. , Waglechner Nicholas , Williams Paul , Thrane Sandra W. , Wright Gerard D. , Brinkman Fiona S. L. , Tucker Nicholas P. , Tümmler Burkhard , Winstanley Craig , Levesque Roger C. 

TITLE=Clinical utilization of genomics data produced by the international Pseudomonas aeruginosa consortium

JOURNAL=Frontiers in Microbiology

VOLUME=6

YEAR=2015

URL=https://www.frontiersin.org/journals/microbiology/articles/10.3389/fmicb.2015.01036

DOI=10.3389/fmicb.2015.01036

ISSN=1664-302X

ABSTRACT=<p>The International <italic>Pseudomonas aeruginosa</italic> Consortium is sequencing over 1000 genomes and building an analysis pipeline for the study of <italic>Pseudomonas</italic> genome evolution, antibiotic resistance and virulence genes. Metadata, including genomic and phenotypic data for each isolate of the collection, are available through the International <italic>Pseudomonas</italic> Consortium Database (<ext-link ext-link-type="uri" xlink:href="http://ipcd.ibis.ulaval.ca/" xmlns:xlink="http://www.w3.org/1999/xlink">http://ipcd.ibis.ulaval.ca/</ext-link>). Here, we present our strategy and the results that emerged from the analysis of the first 389 genomes. With as yet unmatched resolution, our results confirm that <italic>P. aeruginosa</italic> strains can be divided into three major groups that are further divided into subgroups, some not previously reported in the literature. We also provide the first snapshot of <italic>P. aeruginosa</italic> strain diversity with respect to antibiotic resistance. Our approach will allow us to draw potential links between environmental strains and those implicated in human and animal infections, understand how patients become infected and how the infection evolves over time as well as identify prognostic markers for better evidence-based decisions on patient care.</p>