Differential pathogenicity and genetic diversity among Pectobacterium carotovorum ssp. carotovorum isolates from monocot and dicot hosts support early genomic divergence within this taxon

Environmental Microbiology

Volumn 10, Issue 10, 2008, Pages 2746-2759

  Yishay, Moran ^a   Burdman, Saul ^b   Valverde, Angel ^b   Luzzatto, Tal ^a   Ophir, Ron ^a   Yedidia, Iris ^a  

^a VOLCANI CENTER   (Israel)

^b HEBREW UNIVERSITY OF JERUSALEM   (Israel)

Author keywords

[No Author keywords available]

Indexed keywords

RIBOSOME DNA; RNA 16S; SPACER DNA;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM; ARTICLE; BRASSICA; CHEMISTRY; CLASSIFICATION; DNA FINGERPRINTING; DNA SEQUENCE; GENETIC VARIABILITY; GENETICS; GENOTYPE; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR EVOLUTION; ORNITHOGALUM; PATHOGENICITY; PECTOBACTERIUM CAROTOVORUM; PHYLOGENY; PLANT DISEASE; POTATO; RIBOTYPING; VIRULENCE; ZANTEDESCHIA;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS; BRASSICA; DNA FINGERPRINTING; DNA, INTERGENIC; DNA, RIBOSOMAL; EVOLUTION, MOLECULAR; GENOTYPE; ORNITHOGALUM; PECTOBACTERIUM CAROTOVORUM; PHYLOGENY; PLANT DISEASES; RIBOTYPING; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; SOLANUM TUBEROSUM; VARIATION (GENETICS); VIRULENCE; ZANTEDESCHIA;

BRASSICA OLERACEA; BRASSICA OLERACEA VAR. CAPITATA; DICOTYLEDONEAE; LILIOPSIDA; ORNITHOGALUM; ORNITHOGALUM DUBIUM; PECTOBACTERIUM CAROTOVORUM; SOLANUM TUBEROSUM; ZANTEDESCHIA; ZANTEDESCHIA AETHIOPICA;

EID: 51649123687     PISSN: 14622912     EISSN: 14622920     Source Type: Journal    
DOI: 10.1111/j.1462-2920.2008.01694.x     Document Type: Article

References (44)

1. Angiosperm Phylogeny Group II (2003) An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG II. Bot J Linnean Soc 141 : 399 436.
2. Avrova, A.O., Hyman, L.J., Toth, R.L. Toth, I.K. (2002) Application of amplified fragment length polymorphism fingerprinting for taxonomy and identification of the soft rot bacteria Erwinia carotovora and Erwinia chrysanthemi. Appl Environ Microbiol 68 : 1499 1508.
3. Byther, R.S. Chastagner, G.A. (1993) Diseases. In The Physiology of Flower Bulbs. De Hertogh, A. Le Nard, M. (eds). Amsterdam, the Netherlands : Elsevier Science, pp. 71 100.
4. Chase, M.W. (2004) Monocot relationships: an overview. Am J Bot 91 : 1645 1655.
5. Chaw, S.M., Chang, C.C., Chen, H.L. Li, W.H. (2004) Dating the monocot-dicot divergence and the origin of core eudicots using whole chloroplast genomes. J Mol Evol 58 : 424 441.
6. Clamp, M., Cuff, J., Searle, S.M. Barton, G.J. (2004) The Jalview Java alignment editor. Bioinformatics 20 : 426 427.
7. Cuppels, D. Kelman, A. (1974) Evaluation of selective media for isolation of soft rot bacteria from soil and plant tissue. Phytopathology 64 : 468 475.
8. Darrasse, A., Priou, S., Kotoujansky, A. Bertheau, Y. (1994) PCR and restriction fragment length polymorphism of a pel gene as a tool to identify Erwinia carotovora in relation to potato diseases. Appl Environ Microbiol 60 : 1437 1443.
9. De Boer, S.H. (2003) Characterization of pectolytic erwinias as highly sophisticated pathogens of plants. Eur J Plant Pathol 109 : 893 899.
10. De Hertogh, A. Le Nard, M. (1993) General chapter on summer flowering bulbs. In The Physiology of Flower Bulbs. De Hertogh, A. Le Nard, M. (eds). Amsterdam, the Netherlands : Elsevier Science, pp. 741 774.
11. Do, C.B., Mahabhashyam, M.S., Brudno, M. Batzoglou, S. (2005) ProbCons: probabilistic consistency-based multiple sequence alignment. Genome Res 15 : 330 340.
12. Felsenstein, J. (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 : 783 791.
13. Felsenstein, J. Churchill, G.A. (1996) A hidden Markov model approach to variation among sites in rate of evolution. Mol Biol Evol 13 : 93 104.
14. Gardan, L., Gouy, C., Christen, R. Samson, R. (2003) Elevation of three subspecies of Pectobacterium carotovorum to species level: Pectobacterium atrosepticum sp. nov., Pectobacterium betavasculorum sp. nov. and Pectobacterium wasabiae sp. nov. Int J Syst Evol Microbiol 53 : 381 391.
15. Germida, J.J. Siciliano, S.D. (2001) Taxonomic diversity of bacteria associated with the roots of modern, recent and ancient wheat cultivars. Biol Fertil Soils 33 : 410 415.
16. Hauben, L., Moore, E.R., Vauterin, L., Steenackers, M., Mergaert, J., Verdonck, L. Swings, J. (1998) Phylogenetic position of phytopathogens within the Enterobacteriaceae. Syst Appl Microbiol 21 : 384 397.
17. Hélias, V., Le Roux, A.C., Bertheau, Y., Andrivon, D., Gauthier, J.P. Jouan, B. (1998) Characterisation of Erwinia carotovora subspecies and detection of Erwinia carotovora subsp. atroseptica in potato plants, soil and water extracts with PCR-based methods. Eur J Plant Pathol 104 : 685 699.
18. Judd, W.S., Campbell, C.S., Kellogg, E.A. Stevens, P.F. (2002) Plant Systematics: A Phylogenetic Approach. Sunderland, MA, USA : Sinauer Associates.
19. Kwon, S.W., Go, S.J., Kang, H.W., Ryu, J.C. Jo, J.K. (1997) Phylogenetic analysis of Erwinia species based on 16S rRNA gene sequences. Int J Syst Bacteriol 47 : 1061 1067.
20. Landan, G. Graur, D. (2007) Heads or tails: a simple reliability check for multiple sequence alignments. Mol Biol Evol 24 : 1380 1383.
21. Luzzatto, T., Yishay, M., Lipsky, A., Ion, A., Belausov, E. Yedidia, I. (2007) Efficient, long-lasting resistance against the soft rot bacterium Pectobacterium carotovorum in calla lily provided by the plant activator methyl jasmonate. Plant Pathol 56 : 692 701.
22. Ma, B., Hibbing, M.E., Kim, H.S., Reedy, R.M., Yedidia, I., Breuer, J., et al. (2007) The host range and molecular phylogenies of the soft rot Enterobacterial genera Pectobacterium and Dickeya. Phytopathology 97 : 1150 1163.
23. Miller, L.T. (1982) Single derivatization method for routine analysis of bacterial whole-cell fatty acid methyl esters, including hydroxy acids. J Clin Microbiol 16 : 584 586.
24. Norman, D.J., Yuen, J.M.F., Resendiz, R. Boswell, J. (2003) Characterization of Erwinia populations from nursery retention ponds and lakes infecting ornamental plants in Florida. Plant Dis 87 : 193 196.
25. Ortmann, I., Conrath, U. Moerschbacher, B.M. (2006) Exopolysaccharides of Pantoea agglomerans have different priming and eliciting activities in suspension-cultured cells of monocots and dicots. FEBS Lett 580 : 4491 4494.
26. Paradis, E., Claude, J. Strimmer, K. (2004) APE: analyses of phylogenetics and evolution in R language. Bioinformatics 20 : 289 290.
27. Ronquist, F. Huelsenbeck, J.P. (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19 : 1572 1574.
28. Saitou, N. Nei, M. (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4 : 406 425.
29. Seo, S.T., Furuya, N., Lim, C.K., Takanami, Y. Tsuchiya, K. (2002) Phenotypic and genetic diversity of Erwinia carotovora subsp. carotovora strains from Asia. J Phytopathol 150 : 120 127.
30. Smith, C. Bartz, J.A. (1990) Variation in the pathogenicity and aggressiveness of strains of Erwinia carotovora subsp. carotovora isolated from different hosts. Plant Dis 74 : 505 509.
31. Snijder, R.C. van Tuyl, J.M. (2002) Evaluation of tests to determine resistance of Zantedeschia spp. Araceae to soft rot caused by Erwinia carotovora subsp. carotovora. Eur J Plant Pathol 108 : 565 571.
32. Soltis, D.E. Soltis, P.S. (2003) The role of phylogenetics in comparative genetics. Plant Physiol 132 : 1790 1800.
33. Soltis, D.E., Soltis, P.S., Nickrent, D.L., Johnson, L.A., Hahn, W.J. Hoot, S.B. (1997) Angiosperm phylogeny inferred from 18S ribosomal DNA sequences. Ann Mo Bot Garden 84 : 1 49.
34. Soltis, P.S., Soltis, D.E. Edwards, C. (2005) Angiosperms. Flowering plants, in the tree of life web project [WWW document]. URL http://tolweb.org/ Angiosperms/20646/2005.06.03 ; http://tolweb.org/.
35. Thompson, J.D., Higgins, D.G. Gibson, T.J. (1994) clustal w: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22 : 4673 4680.
36. Toth, I.K., Avrova, A.O. Hyman, L.J. (2001) Rapid identification and differentiation of the soft rot erwinias by 16S-23S intergenic transcribed spacer-PCR and restriction fragment length polymorphism analyses. Appl Environ Microbiol 67 : 4070 4076.
37. Toth, I.K., Bell, K.S., Holeva, M.C. Birch, P.R.J. (2003) Soft rot erwiniae: from genes to genomes. Mol Plant Pathol 4 : 17 30.
38. Valverde, A., Hubert, T., Stolov, A., Dagar, A., Kopelowitz, J. Burdman, S. (2007) Assessment of genetic diversity of Xanthomonas campestris pv. campestris isolates from Israel by various DNA-fingerprinting techniques. Plant Pathol 56 : 17 25.
39. Weisburg, W.G., Barns, S.M., Pelletier, D.A. Lane, D.J. (1991) 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 173 : 697 703.
40. Wright, P.J. (1998) A soft rot of calla (Zantedeschia spp.) caused by Erwinia carotovora subspecies carotovora. N Z J Crop Hortic Sci 26 : 331 334.
41. Wright, P.J., Grant, D.G. Triggs, C.M. (2001) Effects of onion (Allium cepa) plant maturity at harvest and method of topping on bulb quality and incidence of rots in storage. N Z J Crop Hortic Sci 29 : 85 91.
42. Yahiaoui-Zaidi, R., Jouan, B. Andrivon, D. (2003) Biochemical and molecular diversity among Erwinia isolates from potato in Algeria. Plant Pathol 52 : 28 40.
43. Yap, M.N., Barak, J.D. Charkowski, A.O. (2004) Genomic diversity of Erwinia carotovora subsp. carotovora and its correlation with virulence. Appl Environ Microbiol 70 : 3013 3023.
44. Ying, F.X., Hu, X.F. Chen, J.S. (2007) First report of soft rot caused by Pectobacterium carotovorum on Pinellia ternata in China. Plant Dis 91 : 1359.