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item Paulsen, I
item Press, Caroline
item Ravel, J
item Kobayashi, D
item Myers, Gsa
item Mavrodi, D
item Deboy, R
item Seshadri, R
item Ren, Q
item Madupu, R
item Dodson, R
item Durkin, A
item Brinkac, L
item Daugherty, S
item Sullivan, S
item Rosovitz, M
item Gwinn, M
item Zhou, L
item Schneider, David
item Cartinhour, Samuel
item Nelson, W
item Weidman, J
item Watkins, K
item Tran, K
item Khouri, H
item Pierson, E
item Pierson, L S Iii
item Thomashow, Linda
item Loper, Joyce

Submitted to: Nature Biotechnology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 5/20/2005
Publication Date: 7/1/2005
Citation: Paulsen, I.T., Press, C.M., Ravel, J., Kobayashi, D.Y., Myers, G., Mavrodi, D.V., Deboy, R.T., Seshadri, R., Ren, Q., Madupu, R., Dodson, R.J., Durkin, A.S., Brinkac, L.M., Daugherty, S.C., Sullivan, S.A., Rosovitz, M.J., Gwinn, M.L., Zhou, L., Schneider, D.J., Cartinhour, S.W., Nelson, W.C., Weidman, J., Watkins, K., Tran, K., Khouri, H., Pierson, E.A., Pierson, L.S., Thomashow, L.S., Loper, J.E. 2005. Complete genome sequence of the plant commensal pseudomonas fluorescens pf-5: insights into the biological control of plant disease. Nature Biotechnology. 23:873-878.

Interpretive Summary: The complete genome of the biological control agent Pseudomonas fluorescens Pf-5 was sequenced. This is the first time that the complete genome is known for a biological control agent of plant disease. The genomic DNA includes genes for the biosynthesis of all of the secondary metabolites known to be produced by Pf-5, including three antibiotics that are toxic to plant pathogenic fungi and oomycetes. In addition, we found genes encoding for the biosynthesis of three additional secondary metabolites that could also contribute to the biological control of plant disease. Knowledge of the genomic sequence of Pf-5 will be invaluable to scientists studying this and related bacteria and is already being used to advance knowledge of biological control for the benefit of agriculture.

Technical 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. Analysis of repeat sequences provided a novel approach for identifying genomic islands that together with other approaches, suggested that recent lateral acquisitions include six secondary metabolite gene clusters, seven phage regions and a mobile genomic island. Various features were identified which contribute to its commensal lifestyle on plants including broad catabolic and transport capabilities for utilizing plant-derived compounds, the apparent ability to utilize 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 Pf-5, three novel secondary metabolite biosynthesis gene clusters were identified that may contribute to the biocontrol properties of Pf-5.