Genotypic comparison of Pantoea agglomerans plant and clinical strains

BMC Microbiology

Volumn 9, Issue , 2009, Pages

  Rezzonico, Fabio ^a   Smits, Theo Hm ^a   Montesinos, Emilio ^b   Frey, Jürg E ^a   Duffy, Brion ^a  

^a AGROSCOPE   (Switzerland)

^b UNIVERSITY OF GIRONA   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

ABC TRANSPORTER; BACTERIAL DNA; DNA TOPOISOMERASE (ATP HYDROLYSING); RNA 16S;

ARTICLE; BACTERIAL STRAIN; BACTERIUM ISOLATE; BIOSAFETY; GENE SEQUENCE; GENOTYPE; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PANTOEA AGGLOMERANS; PHENOTYPE; PHYLOGENY; SEQUENCE ANALYSIS; STRAIN DIFFERENCE; STRAIN IDENTIFICATION; AMPLIFIED FRAGMENT LENGTH POLYMORPHISM; BACTERIAL GENE; CLASSIFICATION; CLUSTER ANALYSIS; COMPARATIVE STUDY; DNA FINGERPRINTING; DNA SEQUENCE; GENETIC MARKER; GENETICS; GRAM NEGATIVE INFECTION; HUMAN; ISOLATION AND PURIFICATION; MICROBIOLOGY; PANTOEA; PLANT DISEASE;

BACTERIA (MICROORGANISMS); ENTEROBACTER; MALUS X DOMESTICA; PANTOEA AGGLOMERANS; PYRUS;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS; CLUSTER ANALYSIS; DNA FINGERPRINTING; DNA GYRASE; DNA, BACTERIAL; GENES, BACTERIAL; GENETIC MARKERS; GENOTYPE; GRAM-NEGATIVE BACTERIAL INFECTIONS; HUMANS; PANTOEA; PHENOTYPE; PHYLOGENY; PLANT DISEASES; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA;

EID: 70350271389     PISSN: 14712180     EISSN: 14712180     Source Type: Journal    
DOI: 10.1186/1471-2180-9-204     Document Type: Article

References (65)

1. Transfer of Enterobacter agglomerans (Beijerinck 1888) Ewing and Fife 1972 to Pantoea gen. nov. as Pantoea agglomerans comb. nov. and description of Pantoea dispersa sp. nov. F Gavini J Mergaert A Beji C Mielcarek D Izard K Kersters J De Ley, Int J Syst Bacteriol 1989 39 3 337 345
2. Bergey's Manual of Systematic Bacteriology: Volume Two: The Proteobacteria, Part B - The Gammaproteobacteria. PAD Grimont F Grimont, New York: Springer 2 2005 2
3. Microbiology of the Phyllosphere. SE Lindow MT Brandl, Applied and environmental microbiology 2003 69 1875 1883 10.1128/AEM.69.4.1875-1883.2003 12676659
4. The ecology and biogeography of microorganisms on plant surfaces. JH Andrews RF Harris, Ann Rev Phytopathol 2000 38 145 180 10.1146/annurev.phyto.38. 1.145 (Pubitemid 30841615)
5. Endotoxins and IgG antibodies as indicators of occupational exposure to the microbial contaminants of metal-working fluids. S Laitinen M Linnainmaa J Laitinen H Kiviranta M Reiman J Liesivuori, International Archives of Occupational and Environmental Health 1999 72 443 450 10.1007/s004200050397 10541909
6. Comparison of fatty acid methyl ester analysis with the use of API 20E and NFT strips for identification of aquatic bacteria. BJ Brown LG Leff, Applied Environmental Microbiology 1996 62 6 2183 2185
7. Dissimilatory metal reduction by the facultative anaerobe Pantoea agglomerans SP1. CA Francis AY Obraztsova BM Tebo, Applied and environmental microbiology 2000 66 2 543 548 10.1128/AEM.66.2.543-548.2000 10653716
8. Mechanisms of inhibition of E. amylovora by E. herbicola in vitro and in vivo. RS Wodzinski TE Umholtz SV Beer, J Appl Bacteriol 1994 76 22 29
9. Management of fire blight: a case study in microbial ecology. KB Johnson VO Stockwell, Annu Rev Phytopathol 1998 36 227 248 10.1146/annurev.phyto.36.1. 227 15012499
10. Biological control of Pseudomonas syringae pv. syringae, the causative agent of basal kernel blight of barley, by antagonistic Pantoea agglomerans. A Braun-Kiewnick BJ Jacobsen DC Sands, Phytopathology 2000 90 368 375 10.1094/PHYTO.2000.90.4.368 18944586
11. Post-harvest biological control by Pantoea agglomerans (CPA-2) on Golden Delicious apples. C Nunes J Usall N Teixidá E Fons I Vĩas, J Appl Microbiol 2002 92 247 255 10.1046/j.1365-2672.2002.01524.x 11849352
12. Osmotically induced trehalose and glycine betaine accumulation improves tolerance to dessication, survival and efficacy of the postharvest biocontrol agent Pantoea agglomerans EPS125. A Bonaterra J Camps E Montesinos, FEMS Microbiol Lett 2005 250 1 8 10.1016/j.femsle.2005.06.028 16002241
13. Biological control of Monilinia laxa and Rhizopus stolonifer in postharvest of stone fruit by Pantoea agglomerans EPS125 and putative mechanisms of antagonism. A Bonaterra M Mari L Casalini E Montesinos, Int J Food Microbiol 2003 84 93 104 12781959
14. Pathogen aggressiveness and postharvest biocontrol efficiency in Pantoea agglomerans. J Francés A Bonaterra MC Moreno J Cabrefiga E Badosa E Montesinos, Postharvest Biol Technol 2006 39 3 299 307 10.1016/j.postharvbio. 2005.11.002 (Pubitemid 43276237)
15. P10c: a new biological control agent for control of fire blight which can be sprayed or distributed using honey bees. JL Vanneste DC Cornish J Yu MD Voyle, Acta Hortic 2002 590 231 235
16. Multiple antibiotic production by Erwinia herbicola. CA Ishimaru EJ Klos RR Brubaker, Phytopathology 1988 78 746 750 10.1094/Phyto-78-746
17. Antibiosis and acidification by Pantoea agglomerans strain E325 may contribute to suppression of Erwinia amylovora. PL Pusey VO Stockwell DR Rudell, Phytopathology 2008 98 10 1136 1143 10.1094/PHYTO-98-10-1136 18943460
18. Antibiosis contributes to biological control of fire blight by Pantoea agglomerans strain Eh252 in orchards. VO Stockwell KB Johnson D Sugar JE Loper, Phytopathology 2002 92 11 1202 1209 10.1094/PHYTO.2002.92.11.1202 18944246
19. Presence of genes homologous to those necessary for synthesis of microcin MccEh252 in strains of Pantoea agglomerans. JL Vanneste J Yu DA Cornish, Acta Hort 2008 793 391 396
20. Pantocin B, an antibiotic from Erwinia herbicola discovered by heterologous expression of cloned genes. SF Brady SA Wright JC Lee AE Sutton CH Zumoff RS Wodzinski SV Beer J Clardy, J Am Chem Soc 1999 121 50 11912 11913 10.1021/ja992790m (Pubitemid 30032782)
21. Pantoea agglomerans strain EH318 produces two antibiotics that inhibit Erwinia amylovora in vitro. SAI Wright CH Zumoff L Schneider SV Beer, Applied and environmental microbiology 2001 67 1 284 292 10.1128/AEM.67.1.284-292.2001 11133457
22. Characterization of a novel phenazine antibiotic gene cluster in Erwinia herbicola Eh1087. SR Giddens Y Feng HK Mahanty, Mol Microbiol 2002 45 3 769 783 10.1046/j.1365-2958.2002.03048.x 12139622
23. The clinical picture of neonatal infection with Pantoea species. H Van Rostenberghe R Noraida WI Wan Pauzi H Habsah M Zeehaida AR Rosliza I Fatimah NY Nik Sharimah H Maimunah, Jpn J Infect Dis 2006 59 120 121 16632913
24. Pantoea agglomerans, a plant pathogen causing human disease. AT Cruz AC Cazacu CH Allen, J Clin Microbiol 2007 45 6 1989 1992 10.1128/JCM.00632-07 17442803
25. Pantoea agglomerans as a cause of septic arthritis after palm tree thorn injury; case report and literature review. A Kratz D Greenberg Y Barki E Cohen M Lifshitz, Arch Dis Child 2003 88 542 544 10.1136/adc.88.6.542 12765929
26. Enterobacter agglomerans: the clinically important plant pathogen. JW Geere, Can Med Assoc J 1977 116 517 519 837319
27. Pantoea agglomerans septicemia in three newborn infants. KA Bergman JP Arends EH Schölvinck, Pediatr Infect Dis J 2007 26 453 454 17468662
28. Genetic diversity of Pseudomonas aeruginosa strains isolated from ventilated patients with nosocomial pneumonia, cancer patients with bacteremia, and environmental water. R Ruimy E Genauzeau C Barnabe A Beaulieu M Tibayrenc A Andremont, Infect Immun 2001 69 584 588 10.1128/IAI.69.1.584-588.2001 11119558
29. Genetic features of Pseudomonas aeruginosa isolates from cystic fibrosis patients compared with those of isolates from other origins. P Lanotte S Watt L Mereghetti N Dartiguelongue A Rastegar-Lari A Goudeau R Quentin, J Med Microbiol 2004 53 73 81 10.1099/jmm.0.05324-0 14663109
30. Isolation of Pseudomonas aeruginosa from open ocean and comparison with freshwater, clinical, and animal isolates. NH Khan Y Ishii N Kimata-Kino H Esaki T Nishino M Nishimura K Kogure, Microbial Ecology 2007 53 173 186 10.1007/s00248-006-9059-3 17206394
31. Virulence factors of the human opportunistic pathogen Serratia marcescens identified by in vivo screening. CL Kurz S Chauvet E Andrès M Aurouze I Vallet GP Michel M Uh J Celli A Filloux S De Bentzmann, et al. EMBO J 2003 22 1451 1460 10.1093/emboj/cdg159 12660152
32. Diversity and significance of Burkholderia species occupying diverse ecological niches. T Coenye P Vandamme, Environ Microbiol 2003 5 719 729 10.1046/j.1462-2920.2003.00471.x 12919407
33. Use of the gyrB gene to discriminate among species of the Burkholderia cepacia complex. S Tabacchioni L Ferri G Manno M Mentasti P Cocchi S Campana N Ravenni G Taccetti C Dalmastri L Chiarini, et al. FEMS Microbiol Lett 2008 281 175 182 10.1111/j.1574-6968.2008.01105.x 18312571
34. Quorum-sensing system affects gall development incited by Pantoea agglomerans pv. gypsophilae. L Chalupowicz S Manulis-Sasson M Itkin A Sacher G Sessa I Barash, Mol Plant-Microbe Interact 2008 21 8 1094 1105 10.1094/MPMI-21-8-1094 18616406
35. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. JD Thompson DG Higgins TJ Gibson, Nucleic Acids Res 1994 22 4673 4680 10.1093/nar/22.22.4673 7984417
36. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. K Tamura J Dudley M Nei S Kumar, Mol Biol Evol 2007 24 1596 1599 10.1093/molbev/msm092 17488738
37. Use of a single primer to fluorescently label selective amplified fragment length polymorphism reactions. L Habera N Smith R Donahoo K Lamour, BioTechniques 2004 37 902 904 15597537
38. AFLP: a new technique for DNA fingerprinting. P Vos R Hogers M Bleeker M Reijans T van der Lee M Hornes A Frijters J Pot J Peleman M Kuiper, et al. Nucleic Acids Res 1995 23 4407 4414 10.1093/nar/23.21.4407 7501463
39. Strategies for microsatellite isolation: a review. L Zane L Bargelloni T Patarnello, Mol Ecol 2002 11 1 16 10.1046/j.0962-1083.2001.01418.x 11903900
40. Phylogeny and identification of Pantoea species associated with plants, humans and the natural environment based on multilocus sequence analysis (MLSA). C Brady I Cleenwerck SN Venter M Vancanneyt J Swings TA Coutinho, Syst Appl Microbiol 2008 31 447 460 10.1016/j.syapm.2008.09.004 19008066
41. Attempts to classify Herbicola group-Enterobacter agglomerans strains by deoxyribonucleic acid hybridization and phenotypic tests. DJ Brenner GR Fanning JK Leete Knutson AG Steigerwalt MI Krichevsky, Int J Syst Bacteriol 1984 34 1 45 55
42. Complete genome sequencing of Pantoea agglomerans strain C9-1. THM Smits F Rezzonico C Pelludat VO Stockwell A Goesmann JE Frey B Duffy, IOBC Bull 2009 43 375 378
43. A FALFP system for the improved identification of plant-pathogenic and plant-associated species of the genus Pantoea. C Brady S Venter I Cleenwerck M Vancanneyt J Swings T Coutinho, Syst Appl Microbiol 2007 30 5 413 417 10.1016/j.syapm.2007.01.005 17321713
44. Pantoea agglomerans pvs. gypsophilae and betae, recently evolved pathogens? S Manulis I Barash, Mol Plant Pathol 2003 4 5 307 314 10.1046/j.1364-3703.2003.00178.x (Pubitemid 37155939)
45. Identification of a plasmid DNA probe for detection of Erwinia herbicola pathogenic on Gypsophila paniculata. S Manulis Y Gafni E Clark D Zutra Y Ophir I Barash, Phytopathology 1991 81 54 57 10.1094/Phyto-81-54
46. Evaluation of the BD Phoenix automated microbiology system for identification and antimicrobial susceptibility testing of Enterobacteriaceae. KC Carroll BD Glanz AP Borek C Burger HS Bhally S Henciak D Flayhart, J Clin Microbiol 2006 44 10 3506 3509 10.1128/JCM.00994-06 17021074 (Pubitemid 46768775)
47. Evaluation of the Phoenix 100 ID/AST system and NID panel for identification of Enterobacteriaceae, Vibrionaceae, and commonly isolated nonenteric gram-negative bacilli. CM O'Hara, J Clin Microbiol 2006 44 3 928 933 10.1128/JCM.44.3.928-933.2006 16517878
48. Genus Erwinia: numerical analysis of phenotypic features. L Verdonck J Mergaert C Rijckaert J Swings K Kersters J De Ley, Int J Syst Bacteriol 1987 37 4 18
49. Enterobacter sakazakii - Risikoprofil und Untersuchungen zum Nachweis in Säuglingsnahrungen. S Sanjaq, Ph. D. thesis Giessen: Justus-Liebig- Universitaet 2007
50. Enterobacter agglomerans (Beijerinck) comb. nov. (the herbicola-lathyri bacteria). WH Ewing MA Fife, Int J Syst Bacteriol 1972 22 1 4 11
51. Reclassification of non-pigmented Erwinia herbicola strains from trees as Erwinia billingiae sp. nov. J Mergaert L Hauben MC Cnockaert J Swings, Int J Syst Bacteriol 1999 49 377 383 10319458
52. Leclercia adecarboxylata gen. nov., comb. nov., formerly known as Escherichia adecarboxylata. K Tamura R Sakazaki Y Kosako E Yoshizaki, Curr Microbiol 1986 13 179 184 10.1007/BF01568943
53. Subjective synonymy of Erwinia herbicola, Erwinia milletiae, and Enterobacter agglomerans and redefinition of the taxon by genotypic and phenotypic data. A Beji J Mergaert F Gavini D Izard K Kersters H Leclerc J De Ley, Int J Syst Bacteriol 1988 38 1 77 88
54. Transfer of Erwinia ananas (synonym, Erwinia uredovora) and Erwinia stewartii to the genus Pantoea emend. as Pantoea ananas (Serrano 1928) comb. nov. and Pantoea stewartii (Smith 1898) comb. nov., respectively, and description of Pantoea stewartii subsp. indologenes subsp. nov. J Mergaert L Verdonck K Kersters, Int J Syst Bacteriol 1993 43 1 162 173
55. Clinical strains of Enterobacter agglomerans (synonyms: Erwinia herbicola, Erwinia milletiae) identified by DNA-DNA-hybridization. E Lind J Ursing, Acta path microbiol immunol scand Sect B 1986 94 205 213
56. Cedecea davisae gen. nov, sp. nov. and Cedecea lapagei sp. nov, new Enterobacteriaceae from clinical specimens. PAD Grimont F Grimont JJ Farmer MA Asbury, Int J Syst Bacteriol 1981 31 317 326
57. Comparison of ATPase-encoding type III secretion system hrcN genes in biocontrol fluorescent Pseudomonads and in phytopathogenic proteobacteria. F Rezzonico G Defago Y Moenne-Loccoz, Applied and environmental microbiology 2004 70 9 5119 5131 10.1128/AEM.70.9.5119-5131.2004 15345390
58. The biosynthetic gene cluster of pantocin A provides insights into biosynthesis and a tool for screening. M Jin SAI Wright SV Beer J Clardy, Angew Chem Int Ed 2003 42 2902 2905 10.1002/anie.200351054 (Pubitemid 36880800)
59. Cultur des Bacillus radicicola aus den Knollchen. MW Beijerinck, Bot Zeitung 1888 46 740 750
60. A taxonomic study of the genus Erwinia. III. The "herbicola" group. DW Dye, N Z J Sci 1969 12 223 236
61. Identity of gram negative, yellow pigmented, fermentative bacteria isolated from plants and animals. DC Graham W Hodgkiss, J Appl Bacteriol 1967 30 175 189 6045100
62. Genus XII. Erwinia. Winslow, Broadhurst, Buchanan, Krumwiede, Rogers and Smith 1920. RA Leliott, Bergey's manual of determinative bacteriology Baltimore: The Williams & Wilkins Co, RE B, Gibbons NE, 8 1974 332 359
63. Evolution of the gyrB gene and the molecular phylogeny of Enterobacteriaceae: a model molecule for molecular systematic studies. C Dauga, International Journal of Systematic and Evolutionary Microbiology 2002 52 531 547 11931166
64. 16S ribosomal DNA amplification for phylogenetic study. WG Weisburg SM Barns DA Pelletier DJ Lane, J Bacteriol 1991 173 2 697 703 1987160
65. Occurrence and detection of Thermoanaerobacterium and Thermoanaerobacter in canned food. C Dotzauer MA Ehrmann RF Vogel, Food Technol Biotechnol 2002 40 21 26