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

Freschi, L., Jeukens, J., Kukavica-Ibrulj, I., Boyle, B., Dupont, M. J., Laroche, J., et al. (2015). Clinical utilization of genomics data produced by the international Pseudomonas aeruginosa consortium. Frontiers in Microbiology, 6(SEP): 1036. doi:10.3389/fmicb.2015.01036.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-0029-20AB-C Version Permalink: http://hdl.handle.net/11858/00-001M-0000-0029-20AC-A
Genre: Journal Article

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Freschi, Luca, Author
Jeukens, Julie, Author
Kukavica-Ibrulj, Irena, Author
Boyle, Brian, Author
Dupont, Marie Josee, Author
Laroche, Jérôme, Author
Larose, Stéphane, Author
Maaroufi, Halim, Author
Fothergill, Joanne L., Author
Moore, Matthew, Author
Winsor, Geoffrey L., Author
Aaron, Shawn D., Author
Barbeau, Jean, Author
Bell, Scott C., Author
Burns, Jane L., Author
Camara, Miguel, Author
Cantin, André, Author
Charette, Steve J., Author
Dewar, Ken, Author
Déziel, Éric, Author
Grimwood, Keith, AuthorHancock, Robert E. W., AuthorHarrison, Joe J., AuthorHeeb, Stephan, AuthorJelsbak, Lars, AuthorJia, Baofeng, AuthorKenna, Dervla T., AuthorKidd, Timothy J., AuthorKlockgether, Jens, AuthorLam, Joseph S., AuthorLamont, Iain L., AuthorLewenza, Shawn, AuthorLoman, Nick, AuthorMalouin, Francois, AuthorManos, Jim, AuthorMcArthur, Andrew G., AuthorMcKeown, Josie, AuthorMilot, Julie, AuthorNaghra, Hardeep, AuthorNguyen, Dao, AuthorPereira, Sheldon K., AuthorPerron, Gabriel G., AuthorPirnay, Jean-Paul, AuthorRainey, Paul B.1, Author              Rousseau, Simon, AuthorSantos, Pedro M., AuthorStephenson, Anne, AuthorTaylor, Véronique, AuthorTurton, Jane F., AuthorWaglechner, Nicholas, AuthorWilliams, Paul, AuthorThrane, Sandra W., AuthorWright, Gerard D., AuthorBrinkman, Fiona S. L., AuthorTucker, Nicholas P., AuthorTümmler, Burkhard, AuthorWinstanley, Craig, AuthorLevesque, Roger C., Author more..
Affiliations:
1External Scientific Member Group Experimental and Evolutionary Genetics, Max Planck Institute for Evolutionary Biology, Max Planck Society, ou_1445637              

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Free keywords: antibiotic resistance; antibiotic sensitivity; Article; bacterial genetics; bacterial genome; bacterial virulence; bioinformatics; cystic fibrosis; human; lung infection; microbial consortium; next generation sequencing; nonhuman; phylogeny; population structure; Pseudomonas aeruginosa; single nucleotide polymorphism
 Abstract: The International Pseudomonas aeruginosa Consortium is sequencing over 1000 genomes and building an analysis pipeline for the study of Pseudomonas genome evolution, antibiotic resistance and virulence genes. Metadata, including genomic and phenotypic data for each isolate of the collection, are available through the International Pseudomonas Consortium Database (http://ipcd.ibis.ulaval.ca/). 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 P. aeruginosa 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 P. aeruginosa 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. © 2015 Freschi, Jeukens, Kukavica-Ibrulj, Boyle, Dupont, Laroche, Larose, Maaroufi, Fothergill, Moore, Winsor.

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Language(s): eng - English
 Dates: 2015-09-29
 Publication Status: Published online
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Method: -
 Identifiers: DOI: 10.3389/fmicb.2015.01036
BibTex Citekey: Freschi2015
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Title: Frontiers in Microbiology
  Abbreviation : Front. Microbiol.
Source Genre: Journal
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Publ. Info: Lausanne : Frontiers Media
Pages: 8 S. Volume / Issue: 6 (SEP) Sequence Number: 1036 Start / End Page: - Identifier: Other: 1664-302X
CoNE: /journals/resource/1664-302X