title: The complete genome sequence of the Arabidopsis and tomato pathogen Pseudomonas syringae pv. tomato DC3000.
abstract: We report the complete genome sequence of the model bacterial pathogen Pseudomonas syringae pathovar tomato DC3000 (DC3000), which is pathogenic on tomato and Arabidopsis thaliana. The DC3000 genome (6.5 megabases) contains a circular chromosome and two plasmids, which collectively encode 5,763 ORFs. We identified 298 established and putative virulence genes, including several clusters of genes encoding 31 confirmed and 19 predicted type III secretion system effector proteins. Many of the virulence genes were members of paralogous families and also were proximal to mobile elements, which collectively comprise 7% of the DC3000 genome. The bacterium possesses a large repertoire of transporters for the acquisition of nutrients, particularly sugars, as well as genes implicated in attachment to plant surfaces. Over 12% of the genes are dedicated to regulation, which may reflect the need for rapid adaptation to the diverse environments encountered during epiphytic growth and pathogenesis. Comparative analyses confirmed a high degree of similarity with two sequenced pseudomonads, Pseudomonas putida and Pseudomonas aeruginosa, yet revealed 1,159 genes unique to DC3000, of which 811 lack a known function.
authors.affiliation: The Institute for Genomic Research, 9712 Medical Center Drive, Rockville, MD 20850, USA. rbuell@tigr.org
authors.forename: C Robin
authors.initials: CR
authors.lastname: Buell
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authors.lastname: Joardar
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authors.lastname: Lindeberg
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authors.lastname: Selengut
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authors.lastname: Dodson
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authors.lastname: Daugherty
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authors.forename: Nikhat
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authors.lastname: Zafar
authors.forename: Liwei
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authors.lastname: Zhou
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authors.forename: Qiaoping
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authors.lastname: Yuan
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authors.lastname: Khouri
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authors.lastname: Fedorova
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authors.lastname: Russell
authors.forename: Kristi
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authors.lastname: Berry
authors.forename: Teresa
authors.initials: T
authors.lastname: Utterback
authors.forename: Susan E
authors.initials: SE
authors.lastname: Van Aken
authors.forename: Tamara V
authors.initials: TV
authors.lastname: Feldblyum
authors.forename: Mark
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authors.lastname: D'Ascenzo
authors.forename: Wen-Ling
authors.initials: WL
authors.lastname: Deng
authors.forename: Adela R
authors.initials: AR
authors.lastname: Ramos
authors.forename: James R
authors.initials: JR
authors.lastname: Alfano
authors.forename: Samuel
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authors.lastname: Cartinhour
authors.forename: Arun K
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authors.lastname: Chatterjee
authors.forename: Terrence P
authors.initials: TP
authors.lastname: Delaney
authors.forename: Sondra G
authors.initials: SG
authors.lastname: Lazarowitz
authors.forename: Gregory B
authors.initials: GB
authors.lastname: Martin
authors.forename: David J
authors.initials: DJ
authors.lastname: Schneider
authors.forename: Xiaoyan
authors.initials: X
authors.lastname: Tang
authors.forename: Carol L
authors.initials: CL
authors.lastname: Bender
authors.forename: Owen
authors.initials: O
authors.lastname: White
authors.forename: Claire M
authors.initials: CM
authors.lastname: Fraser
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authors.lastname: Collmer
mesh_terms: D017360:Arabidopsis / Q000382:microbiology*; D001483:Base Sequence; D001692:Biological Transport; D016680:Genome, Bacterial; D018551:Solanum lycopersicum / Q000382:microbiology*; D008969:Molecular Sequence Data; D010937:Plant Growth Regulators / Q000096:biosynthesis; D010957:Plasmids; D011549:Pseudomonas / Q000235:genetics* / Q000378:metabolism / Q000472:pathogenicity; D017382:Reactive Oxygen Species; D017262:Siderophores / Q000096:biosynthesis; D014774:Virulence
chemical_list: D010937:Plant Growth Regulators; D017382:Reactive Oxygen Species; D017262:Siderophores