Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence

Thieme F, Koebnik R, Bekel T, Berger C, Boch J, Buttner D, Caldana C, Gaigalat L, Goesmann A, Kay S, Kirchner O, et al. (2005)
JOURNAL OF BACTERIOLOGY 187(21): 7254-7266.

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Abstract / Bemerkung
The gram-negative plant-pathogenic bacterium Xanthomonas campestris pv. vesicatoria is the causative agent of bacterial spot disease in pepper and tomato plants, which leads to economically important yield losses. This pathosystem has become a well-established model for studying bacterial infection strategies. Here, we present the whole-genome sequence of the pepper-pathogenic Xanthomonas campestris pv. vesicatoria strain 85-10, which comprises a 5.17-Mb circular chromosome and four plasmids. The genome has a high G+C content (64.75%) and signatures of extensive genome plasticity. Whole-genome comparisons revealed a gene order similar to both Xanthomonas axonopodis pv. citri and Xanthomonas campestris pv. campestris and a structure completely different from Xanthomonas oiyzae pv. oryzae. A total of 548 coding sequences (12.2%) are unique to X. campestris pv. vesicatoria. In addition to a type III secretion system, which is essential for pathogenicity, the genome of strain 85-10 encodes all other types of protein secretion systems described so far in gram-negative bacteria. Remarkably, one of the putative type IV secretion systems encoded on the largest plasmid is similar to the Icm/Dot systems of the human pathogens Legionella pneumophild and Coxiella burnetti. Comparisons with other completely sequenced plant pathogens predicted six novel type III effector proteins and several other virulence factors, including adhesins, cell wall-degrading enzymes, and extracellular polysaccharides.
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JOURNAL OF BACTERIOLOGY
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187
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21
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7254-7266
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Thieme F, Koebnik R, Bekel T, et al. Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence. JOURNAL OF BACTERIOLOGY. 2005;187(21):7254-7266.
Thieme, F., Koebnik, R., Bekel, T., Berger, C., Boch, J., Buttner, D., Caldana, C., et al. (2005). Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence. JOURNAL OF BACTERIOLOGY, 187(21), 7254-7266. doi:10.1128/JB.187.21.7254-7266.2005
Thieme, F., Koebnik, R., Bekel, T., Berger, C., Boch, J., Buttner, D., Caldana, C., Gaigalat, L., Goesmann, A., Kay, S., et al. (2005). Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence. JOURNAL OF BACTERIOLOGY 187, 7254-7266.
Thieme, F., et al., 2005. Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence. JOURNAL OF BACTERIOLOGY, 187(21), p 7254-7266.
F. Thieme, et al., “Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence”, JOURNAL OF BACTERIOLOGY, vol. 187, 2005, pp. 7254-7266.
Thieme, F., Koebnik, R., Bekel, T., Berger, C., Boch, J., Buttner, D., Caldana, C., Gaigalat, L., Goesmann, A., Kay, S., Kirchner, O., Lanz, C., Linke, B., McHardy, A.C., Meyer, F., Mittenhuber, G., Nies, D.H., Niesbach-Klosgen, U., Patschkowski, T., Rückert, C., Rupp, O., Schneiker-Bekel, S., Schuster, S.C., Vorhölter, F.-J., Weber, E., Pühler, A., Bonas, U., Bartels, D., Kaiser, O.: Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence. JOURNAL OF BACTERIOLOGY. 187, 7254-7266 (2005).
Thieme, F, Koebnik, R, Bekel, T, Berger, C, Boch, J, Buttner, D, Caldana, C, Gaigalat, L, Goesmann, Alexander, Kay, S, Kirchner, O, Lanz, C, Linke, B, McHardy, AC, Meyer, F, Mittenhuber, G, Nies, DH, Niesbach-Klosgen, U, Patschkowski, Thomas, Rückert, Christian, Rupp, O, Schneiker-Bekel, Susanne, Schuster, SC, Vorhölter, Frank-Jörg, Weber, E, Pühler, Alfred, Bonas, U, Bartels, D, and Kaiser, O. “Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence”. JOURNAL OF BACTERIOLOGY 187.21 (2005): 7254-7266.

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The ubiquitous plasmid pXap41 in the invasive phytopathogen Xanthomonas arboricola pv. pruni: complete sequence and comparative genomic analysis.
Pothier JF, Vorhölter FJ, Blom J, Goesmann A, Pühler A, Smits TH, Duffy B., FEMS Microbiol Lett 323(1), 2011
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Functional characterization of copA gene encoding multicopper oxidase in Xanthomonas campestris pv. campestris.
Hsiao YM, Liu YF, Lee PY, Hsu PC, Tseng SY, Pan YC., J Agric Food Chem 59(17), 2011
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Evolutionary placement of Xanthomonadales based on conserved protein signature sequences.
Cutiño-Jiménez AM, Martins-Pinheiro M, Lima WC, Martín-Tornet A, Morales OG, Menck CF., Mol Phylogenet Evol 54(2), 2010
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Regulation and secretion of Xanthomonas virulence factors.
Büttner D, Bonas U., FEMS Microbiol Rev 34(2), 2010
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Proteomic approaches to study plant-pathogen interactions.
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Xanthomonas AvrBs3 family-type III effectors: discovery and function.
Boch J, Bonas U., Annu Rev Phytopathol 48(), 2010
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Distribution and biological role of the oligopeptide-binding protein (OppA) in Xanthomonas species.
Oshiro EE, Tavares MB, Suzuki CF, Pimenta DC, Angeli CB, de Oliveira JC, Ferro MI, Ferreira LC, Ferreira RC., Genet Mol Biol 33(2), 2010
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Functional characterization of the Xcs and Xps type II secretion systems from the plant pathogenic bacterium Xanthomonas campestris pv vesicatoria.
Szczesny R, Jordan M, Schramm C, Schulz S, Cogez V, Bonas U, Büttner D., New Phytol 187(4), 2010
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In planta gene expression analysis of Xanthomonas oryzae pathovar oryzae, African strain MAI1.
Soto-Suárez M, Bernal D, González C, Szurek B, Guyot R, Tohme J, Verdier V., BMC Microbiol 10(), 2010
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Genome-wide sequencing data reveals virulence factors implicated in banana Xanthomonas wilt.
Studholme DJ, Kemen E, MacLean D, Schornack S, Aritua V, Thwaites R, Grant M, Smith J, Jones JD., FEMS Microbiol Lett 310(2), 2010
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Identification of novel type III secretion effectors in Xanthomonas oryzae pv. oryzae.
Furutani A, Takaoka M, Sanada H, Noguchi Y, Oku T, Tsuno K, Ochiai H, Tsuge S., Mol Plant Microbe Interact 22(1), 2009
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Durability of resistance in tomato and pepper to xanthomonads causing bacterial spot.
Stall RE, Jones JB, Minsavage GV., Annu Rev Phytopathol 47(), 2009
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How Xanthomonas type III effectors manipulate the host plant.
Kay S, Bonas U., Curr Opin Microbiol 12(1), 2009
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Visualization of novel virulence activities of the Xanthomonas type III effectors AvrBs1, AvrBs3 and AvrBs4.
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The Sequence Analysis and Management System -- SAMS-2.0: data management and sequence analysis adapted to changing requirements from traditional sanger sequencing to ultrafast sequencing technologies.
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Suppression of the bacterial spot pathogen Xanthomonas euvesicatoria on tomato leaves by an attenuated mutant of Xanthomonas perforans.
Hert AP, Marutani M, Momol MT, Roberts PD, Olson SM, Jones JB., Appl Environ Microbiol 75(10), 2009
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Xanthomonas T3S Effector XopN Suppresses PAMP-Triggered Immunity and Interacts with a Tomato Atypical Receptor-Like Kinase and TFT1.
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EDGAR: a software framework for the comparative analysis of prokaryotic genomes.
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Collmer A, Schneider DJ, Lindeberg M., Plant Physiol 150(4), 2009
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Mini-Tn7 vectors as genetic tools for gene cloning at a single copy number in an industrially important and phytopathogenic bacteria, Xanthomonas spp.
Jittawuttipoka T, Buranajitpakorn S, Fuangthong M, Schweizer HP, Vattanaviboon P, Mongkolsuk S., FEMS Microbiol Lett 298(1), 2009
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The complete genome sequence of Xanthomonas albilineans provides new insights into the reductive genome evolution of the xylem-limited Xanthomonadaceae.
Pieretti I, Royer M, Barbe V, Carrere S, Koebnik R, Cociancich S, Couloux A, Darrasse A, Gouzy J, Jacques MA, Lauber E, Manceau C, Mangenot S, Poussier S, Segurens B, Szurek B, Verdier V, Arlat M, Rott P., BMC Genomics 10(), 2009
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Expanding the paradigms of plant pathogen life history and evolution of parasitic fitness beyond agricultural boundaries.
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AvrAC(Xcc8004), a type III effector with a leucine-rich repeat domain from Xanthomonas campestris pathovar campestris confers avirulence in vascular tissues of Arabidopsis thaliana ecotype Col-0.
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The genome sequence of the tomato-pathogenic actinomycete Clavibacter michiganensis subsp. michiganensis NCPPB382 reveals a large island involved in pathogenicity.
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The genome of Xanthomonas campestris pv. campestris B100 and its use for the reconstruction of metabolic pathways involved in xanthan biosynthesis.
Vorhölter FJ, Schneiker S, Goesmann A, Krause L, Bekel T, Kaiser O, Linke B, Patschkowski T, Rückert C, Schmid J, Sidhu VK, Sieber V, Tauch A, Watt SA, Weisshaar B, Becker A, Niehaus K, Pühler A., J Biotechnol 134(1-2), 2008
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IS4 family goes genomic.
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Two-component signal transduction systems of Xanthomonas spp.: a lesson from genomics.
Qian W, Han ZJ, He C., Mol Plant Microbe Interact 21(2), 2008
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Regulation of the pehA gene encoding the major polygalacturonase of Xanthomonas campestris by Clp and RpfF.
Hsiao YM, Zheng MH, Hu RM, Yang TC, Tseng YH., Microbiology 154(pt 3), 2008
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The Type III secretion system of Xanthomonas fuscans subsp. fuscans is involved in the phyllosphere colonization process and in transmission to seeds of susceptible beans.
Darsonval A, Darrasse A, Meyer D, Demarty M, Durand K, Bureau C, Manceau C, Jacques MA., Appl Environ Microbiol 74(9), 2008
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The rsmA-like gene rsmA(Xcc) of Xanthomonas campestris pv. campestris is involved in the control of various cellular processes, including pathogenesis.
Chao NX, Wei K, Chen Q, Meng QL, Tang DJ, He YQ, Lu GT, Jiang BL, Liang XX, Feng JX, Chen B, Tang JL., Mol Plant Microbe Interact 21(4), 2008
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Genome sequence and rapid evolution of the rice pathogen Xanthomonas oryzae pv. oryzae PXO99A.
Salzberg SL, Sommer DD, Schatz MC, Phillippy AM, Rabinowicz PD, Tsuge S, Furutani A, Ochiai H, Delcher AL, Kelley D, Madupu R, Puiu D, Radune D, Shumway M, Trapnell C, Aparna G, Jha G, Pandey A, Patil PB, Ishihara H, Meyer DF, Szurek B, Verdier V, Koebnik R, Dow JM, Ryan RP, Hirata H, Tsuyumu S, Won Lee S, Seo YS, Sriariyanum M, Ronald PC, Sonti RV, Van Sluys MA, Leach JE, White FF, Bogdanove AJ., BMC Genomics 9(), 2008
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Vibrio cholerae VciB promotes iron uptake via ferrous iron transporters.
Mey AR, Wyckoff EE, Hoover LA, Fisher CR, Payne SM., J Bacteriol 190(17), 2008
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Acquisition and evolution of plant pathogenesis-associated gene clusters and candidate determinants of tissue-specificity in xanthomonas.
Lu H, Patil P, Van Sluys MA, White FF, Ryan RP, Dow JM, Rabinowicz P, Salzberg SL, Leach JE, Sonti R, Brendel V, Bogdanove AJ., PLoS One 3(11), 2008
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Niche-specificity and the variable fraction of the Pectobacterium pan-genome.
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Comparative and functional genomics reveals genetic diversity and determinants of host specificity among reference strains and a large collection of Chinese isolates of the phytopathogen Xanthomonas campestris pv. campestris.
He YQ, Zhang L, Jiang BL, Zhang ZC, Xu RQ, Tang DJ, Qin J, Jiang W, Zhang X, Liao J, Cao JR, Zhang SS, Wei ML, Liang XX, Lu GT, Feng JX, Chen B, Cheng J, Tang JL., Genome Biol 8(10), 2007
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A conserved carboxylesterase is a SUPPRESSOR OF AVRBST-ELICITED RESISTANCE in Arabidopsis.
Cunnac S, Wilson A, Nuwer J, Kirik A, Baranage G, Mudgett MB., Plant Cell 19(2), 2007
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Plant carbohydrate scavenging through tonB-dependent receptors: a feature shared by phytopathogenic and aquatic bacteria.
Blanvillain S, Meyer D, Boulanger A, Lautier M, Guynet C, Denancé N, Vasse J, Lauber E, Arlat M., PLoS One 2(2), 2007
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Characterization of the nonconserved hpaB-hrpF region in the hrp pathogenicity island from Xanthomonas campestris pv. vesicatoria.
Büttner D, Noël L, Stuttmann J, Bonas U., Mol Plant Microbe Interact 20(9), 2007
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New type III effectors from Xanthomonas campestris pv. vesicatoria trigger plant reactions dependent on a conserved N-myristoylation motif.
Thieme F, Szczesny R, Urban A, Kirchner O, Hause G, Bonas U., Mol Plant Microbe Interact 20(10), 2007
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Plant pathogen recognition mediated by promoter activation of the pepper Bs3 resistance gene.
Römer P, Hahn S, Jordan T, Strauss T, Bonas U, Lahaye T., Science 318(5850), 2007
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Evolution of the chaperone/usher assembly pathway: fimbrial classification goes Greek.
Nuccio SP, Bäumler AJ., Microbiol Mol Biol Rev 71(4), 2007
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Plant-microbe interactions to probe regulation of plant carbon metabolism.
Biemelt S, Sonnewald U., J Plant Physiol 163(3), 2006
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Protecting sausages with bacteria instead of salt.
Galperin MY., Environ Microbiol 8(2), 2006
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Xanthomonas oryzae pathovars: model pathogens of a model crop
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Complete genome of the mutualistic, N2-fixing grass endophyte Azoarcus sp. strain BH72.
Krause A, Ramakumar A, Bartels D, Battistoni F, Bekel T, Boch J, Böhm M, Friedrich F, Hurek T, Krause L, Linke B, McHardy AC, Sarkar A, Schneiker S, Syed AA, Thauer R, Vorhölter FJ, Weidner S, Pühler A, Reinhold-Hurek B, Kaiser O, Goesmann A., Nat Biotechnol 24(11), 2006
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Regulation of the type III secretion system in phytopathogenic bacteria.
Tang X, Xiao Y, Zhou JM., Mol Plant Microbe Interact 19(11), 2006
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A milestone for endophyte biotechnology.
Minamisawa K., Nat Biotechnol 24(11), 2006
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