1. Complete genome sequence of the plant commensal Pseudomonas fluorescens Pf-5
- Author
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William C. Nelson, Sean C. Daugherty, Jacques Ravel, Stephen A Sullivan, Robert T. DeBoy, Kevin Tran, Rekha Seshadri, Davd J Schneider, Janice Weidman, Linda S. Thomashow, Dmitri V. Mavrodi, Lauren M. Brinkac, Donald Y. Kobayashi, A. Scott Durkin, M. J. Rosovitz, Caroline M. Press, Robert J. Dodson, Ian T. Paulsen, Liwei Zhou, Leland S. Pierson, Ramana Madupu, Joyce E. Loper, Qinghu Ren, Kisha Watkins, Garry S. A. Myers, Michelle L. Gwinn, Elizabeth A. Pierson, Hoda Khouri, and Samuel W. Cartinhour
- Subjects
Siderophore ,Molecular Sequence Data ,Biomedical Engineering ,Siderophores ,Bioengineering ,Pseudomonas fluorescens ,Secondary metabolite ,Applied Microbiology and Biotechnology ,Genome ,Article ,Microbiology ,Complete sequence ,Pseudomonas protegens ,chemistry.chemical_compound ,Genomic island ,medicine ,Base Sequence ,biology ,Biological Transport ,Sequence Analysis, DNA ,Plants ,biology.organism_classification ,chemistry ,Genes, Bacterial ,Multigene Family ,Molecular Medicine ,2,4-Diacetylphloroglucinol ,Genome, Bacterial ,Biotechnology ,medicine.drug - Abstract
Pseudomonas fluorescens Pf-5 is a plant commensal bacterium that inhabits the rhizosphere and produces secondary metabolites that suppress soilborne plant pathogens. The complete sequence of the 7.1-Mb Pf-5 genome was determined. We analyzed repeat sequences to identify genomic islands that, together with other approaches, suggested P. fluorescens Pf-5's recent lateral acquisitions include six secondary metabolite gene clusters, seven phage regions and a mobile genomic island. We identified various features that contribute to its commensal lifestyle on plants, including broad catabolic and transport capabilities for utilizing plant-derived compounds, the apparent ability to use a diversity of iron siderophores, detoxification systems to protect from oxidative stress, and the lack of a type III secretion system and toxins found in related pathogens. In addition to six known secondary metabolites produced by P. fluorescens Pf-5, three novel secondary metabolite biosynthesis gene clusters were also identified that may contribute to the biocontrol properties of P. fluorescens Pf-5. Supplementary information The online version of this article (doi:10.1038/nbt1110) contains supplementary material, which is available to authorized users.
- Published
- 2005
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