1887

Abstract

The taxonomic position of nitrogen-fixing strains that were isolated from rhizosphere macerates of rice cultivated in the Binh Thanh region of Vietnam was determined by using polyphasic taxonomy. We determined the phylogenetic relationships of these organisms by performing DNA-rRNA hybridization experiments with a labeled rRNA probe from the type strain of , and we found that they belong to a single rRNA complex. Other members of this rRNA complex were also studied, and the N-fixing strains were found to be closely related to . . In addition, all members of the rRNA complex containing . were studied by performing auxanographic and DNA-DNA hybridization experiments. Phenotypically and genotypically, the N-fixing isolates constitute a single cluster together with two strains of clinical origin. These organisms constitute a species, for which the name is proposed; the type strain of this species is TVV75 (= LMG 10929). All members of this species can fix nitrogen. On the basis of our polyphasic taxonomy results and previously published data we concluded that the genus should be restricted to the following species: . (the type species), , , . , , , , , , comb. nov., and comb. nov. On the basis of genotypic and phenotypic results [] , [] , and [] belong to two other clusters whose internal structures must be studied further.

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1995-04-01
2024-03-28
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References

  1. Allen R. N., Hayward A. C., Halliday W. J., Fulcher J. 1970; Bacterial blight of Vicia sativa aetiology of the disease and identification of the pathogen. Aust. J. Biol. Sci 23:597–606
    [Google Scholar]
  2. Azegami K., Nishiyama K., Watanabe Y., Kadota I., Ohuchi A., Fukazawa C. 1987; Pseudomonas plantarii sp. nov., the causal agent of rice seedling blight. Int. J. Syst. Bacteriol 37:144–152
    [Google Scholar]
  3. Ballard R. W., Doudoroff M., Stanier R. Y., Mandel M. 1968; Taxonomy of the aerobic pseudomonads: Pseudomonas diminuta and Pseudomonas vesicularis. J. Gen. Microbiol 53:349–361
    [Google Scholar]
  4. Ballard R. W., Palleroni N. J., Stanier R. Y., Mandel M. 1970; Taxonomy of the aerobic pseudomonads: Pseudomonas cepacia, marginata, alliicola and P. caryophylli. J. Gen. Microbiol 60:199–214
    [Google Scholar]
  5. Bally R., Thomas-Bauzon D., Heulin T., Balandreau J., Richard C., De Ley J. 1983; Determination of the most frequent N2-fixing bacteria in a rice rhizosphere. Can. J. Microbiol 29:881–887
    [Google Scholar]
  6. Bell S. C., Turner J. M. 1973; Iodinin biosynthesis by a pseudomonad. Biochem. Soc. Trans 1:751–753
    [Google Scholar]
  7. Berge O., Heulin T., Achouak W., Richard C., Bally R., Balandreau J. 1991; Rahnella aquatilis a nitrogen-fixing enteric bacterium associated with the rhizosphere of wheat and maize. Can. J. Microbiol 37:195–203
    [Google Scholar]
  8. Bowman J. P., Sly L. I., Hayward A. C. 1988; Pseudomonas mixta sp. nov., a bacterium from soil with degradative activity on a variety of complex polysaccharides. Syst. Appl. Microbiol 11:53–59
    [Google Scholar]
  9. Bowman J. P., Sly L. I., Hayward A. C., Spiegel Y., Stackebrandt E. 1993; Telluria mixta (Pseudomonas mixta Bowman, Sly, and Hayward 1988) gen. nov., comb. nov., and Telluria chitinolytica sp. nov., soil-dwelling organisms which actively degrade polysaccharides. Int. J. Syst. Bacteriol 43:120–124
    [Google Scholar]
  10. Brenner D. J., Fanning G. R., Skerman F. J., Falkow S. 1972; Polynucleotide sequence divergence among strains of Escherichia coli and closely related organisms. J. Bacteriol 109:953–965
    [Google Scholar]
  11. Buddenhagen I., Kelman A. 1964; Biological and physiological aspects of bacterial wilt caused by Pseudomonas solanacearum. Annu. Rev. Phytopathol 2:203–230
    [Google Scholar]
  12. Burbage D. A., Sasser M. 1982; A medium selective for Pseudomonas cepacia. Phytopathol. Abstr 72:706
    [Google Scholar]
  13. Burkholder W. H. 1957; A bacterial disease of clover and velvet beans. Phytopathology 47:48–50
    [Google Scholar]
  14. Burkholder W. H., Guterman C. E. F. 1935; Bacterial leaf spot of carnations. Phytopathology 25:114–120
    [Google Scholar]
  15. Caruso F. L. 1984; Bacterial blight of chickpea incited by Pseudomonas andropogonis. Plant Dis 68:910–913
    [Google Scholar]
  16. Crosa J. H., Brenner D. J., Falkow S. 1973; Use of a single-strand-specific nuclease for analysis of bacterial and plasmid deoxyribonucleic acid homo- and heteroduplexes. J. Bacteriol 115:904–911
    [Google Scholar]
  17. De Ley J. 1970; Reexamination of the association between melting point, buoyant density, and chemical base composition of deoxyribonucleic acid. J. Bacteriol 101:737–754
    [Google Scholar]
  18. De Ley J. 1992; The Proteobacteria: ribosomal RNA cistron similarities and bacterial taxonomy,. 2109–2140 Balows A., Trüper H. G., Dworkin M., Harder W., Schleifer K. H. The prokaryotes, 2nd. 2 Springer-Verlag; New York:
    [Google Scholar]
  19. De Ley J., De Smedt J. 1975; Improvements of the membrane filter method for DNA:rRNA hybridization. Antonie van Leeuwenhoek J. Microbiol. Serol 41:287–307
    [Google Scholar]
  20. De Ley J., Van Muylem J. 1963; Some applications of deoxyribonucleic acid base composition in bacterial taxonomy. Antonie van Leeuwenhoek J. Microbiol. Serol 29:344–358
    [Google Scholar]
  21. De Vos P., De Ley J. 1983; Intra- and intergeneric similarities of Pseudomonas and Xanthomonas ribosomal ribonucleic acid cistrons. Int. J. Syst. Bacteriol 33:487–509
    [Google Scholar]
  22. De Vos P., Goor M., Gillis M., De Ley J. 1985; Ribosomal ribonucleic acid cistron similarities of phytopathogenic Pseudomonas species. Int. J. Syst. Bacteriol 35:169–184
    [Google Scholar]
  23. De Vos P., Van Landschoot A., Segers P., Tytgat R., Gillis M., Bauwens M., Rossau R., Goor M., Pot B., Kersters K., Lizzaraga P., De Ley J. 1989; Genotypic relationships and taxonomic localization of unclassified Pseudomonas and Pseudomonas-like strains by deoxyribonucleic acid-ribosomal ribonucleic acid hybridizations. Int. J. Syst. Bacteriol 39:35–49
    [Google Scholar]
  24. Doudoroff M., Palleroni N. J. 1974; Genus Pseudomonas. 217–243 Buchanan R. E., Gibbons N. E. Bergey’s manual of determinative bacteriology, 8th. The Williams & Wilkins Co.; Baltimore:
    [Google Scholar]
  25. Gillis M., Dobereiner J., Pot B., Goor M., Falsen E., Hoste B., Reinhold B., Kersters K. 1991; Taxonomic relationships between [Pseudomonas] rubrisubalbicans some clinical isolates (EF group 1), Herbaspirillum seropedicae and [Aquaspirillum] autotrophicum. Dev. Plant Soil Sci 48:293–294
    [Google Scholar]
  26. Gonzalez C., Vidaver A. K. 1979; Bacteriocin plasmid and pectolytic diversity in Pseudomonas cepacia of clinical and plant origin. J. Gen. Microbiol 110:161–170
    [Google Scholar]
  27. Goto M., Starr M. P. 1971; A comparative study of Pseudomonas andropogonis, stizolobii and P. alboprecipitans. Ann. Phytopathol. Soc. Jpn 37:233–241
    [Google Scholar]
  28. Grimont P. A. D., Popoff M. Y., Grimont F., Coynault C., Lemelin M. 1980; Reproducibility and correlation study of three deoxyribonucleic acid hybridization procedures. Curr. Microbiol 4:325–330
    [Google Scholar]
  29. Hayward A. C. 1964; Characteristics of Pseudomonas solanacearum. J. Appl. Bacteriol 27:265–277
    [Google Scholar]
  30. Hayward A. C. 1972; A bacterial disease of clover in Hawaii. Plant Dis. Rep 56:446–450
    [Google Scholar]
  31. Janse J. D. 1991; Infra- and intraspecifk classification of Pseudomonas solanacearum strains, using whole cell fatty acid analysis. Syst. Appl. Microbiol 14:335–345
    [Google Scholar]
  32. Jenni B., Realini L., Aragno M., Tamer A. U. 1988; Taxonomy of non H2-lithotrophic, oxalate-oxidizing bacteria related to Alcaligenes eutrophus. Syst. Appl. Microbiol 10:123–133
    [Google Scholar]
  33. Kersters K., Hinz K. H., Hertle A., Segers P., Lievens A., Siegmann O., De Ley J. 1984; Bordetella avium sp. nov., isolated from the respiratory tracts of turkeys and other birds. Int. J. Syst. Bacteriol 34:56–70
    [Google Scholar]
  34. Khambata S. R., Bhat J. V. 1953; Studies on a new oxalate-decomposing bacterium, Pseudomonas oxalaticus. J. Bacteriol 66:505–507
    [Google Scholar]
  35. King E. O., Ward W. K., Raney D. E. 1954; Two simple media for the demonstration of pyocyanin and fluorescein. J. Lab. Clin. Med 44:301–307
    [Google Scholar]
  36. Kurita T., Tabei H. 1967; On the pathogenic bacterium of bacterial grain rot of rice. Ann. Phytopathol. Soc. Jpn 33:111
    [Google Scholar]
  37. Lapage S. P., Sneath P. H. A., Lessel E. F., Skerman V. B. D., Seeliger H. R., Clark W. A. 1976 International code of nomenclature of bacteria 1976 revision American Society for Microbiology; Washington, D.C.:
    [Google Scholar]
  38. Li X., Dorsch M., Del Dot T., Sly L. I., Stackebrandt E., Hayward A. C. 1993; Phylogenetic studies of the rRNA group II pseudomonads based on 16S rRNA gene sequences. J. Appl. Bacteriol 74:324–329
    [Google Scholar]
  39. Marmur J. 1961; A procedure for the isolation of deoxyribonucleic acid from microorganisms. J. Mol. Biol 3:208–218
    [Google Scholar]
  40. Marmur J., Doty P. 1962; Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J. Mol. Biol 5:109–118
    [Google Scholar]
  41. Meyer J. M., Tran Van V., Stintzi A., Stephan H., Berge O., Winkel-mann G. Unpublished data
  42. Omar A. M. N., Richard C., Weinhard P., Balandreau J. 1989; Using the spermosphere model technique to describe the dominant nitrogen-fixing microflora associated with wetland rice in two Egyptian soils. Biol. Fertil. Soils 7:158–163
    [Google Scholar]
  43. Palleroni N. J. 1984; Genus I. Pseudomonas Migula 1894,237AL. 141–199 Krieg N. R., Holt J. G. Bergey’s manual of systematic bacteriology 1 The Williams & Wilkins Co.; Baltimore:
    [Google Scholar]
  44. Palleroni N. J., Doudoroff M. 1971; Phenotypic characterization and deoxyribonucleic acid homologies of Pseudomonas solanacearum. J. Bacteriol 107:690–696
    [Google Scholar]
  45. Palleroni N. J., Holmes B. 1981; Pseudomonas cepacia sp. nov., nom. rev. Int. J. Syst. Bacteriol 21:479–481
    [Google Scholar]
  46. Palleroni N. J., Kunisawa R., Contopoulou R., Doudoroff M. 1973; Nucleic acid homologies in the genus Pseudomonas. Int. J. Syst. Bacteriol 23:333–339
    [Google Scholar]
  47. Pot P., Vandamme P., Kersters K. 1993; Analysis of electrophoretic whole organism protein fingerprints,. 493–521 Goodfellow M., O’Donnell A. G. Chemical methods in prokaryotic systematics John Wiley & Sons; Chichester, England:
    [Google Scholar]
  48. Ralston E., Palleroni N. J., Doudoroff M. 1973; Pseudomonas pickettii a new species of clinical origin related to Pseudomonas solanacearum. Int. J. Syst. Bacteriol 23:15–19
    [Google Scholar]
  49. Richard C. 1978; Techniques de recherches d’enzymes utiles au diagnostique de bactenes a Gram negatif. Ann. Biol. Clin 36:407–424
    [Google Scholar]
  50. Roberts S. J., Eden-Green S. J., Jones P., Ambler D. J. 1990; Pseudomonas syzygii sp. nov., the cause of Sumatra disease of cloves. Syst. Appl. Microbiol 13:34–43
    [Google Scholar]
  51. Rothwell A., Hayward A. C. 1964; A bacterial disease of bougainvillea. Rhod. J. Agric. Res 2:97–99
    [Google Scholar]
  52. Segers P., Vancanneyt M., Pot B., Torck U., Hoste B., Dewettinck D., Falsen E., Kersters K., De Vos P. 1994; Classification of Pseudomonas diminuta Leifson and Hugh 1954 and Pseudomonas vesicularis Busing, Doll, and Freytag 1953 in Brevundimonas gen. nov. as Brevundimonas diminuta comb. nov. and Brevundimonas vesicularis comb. nov., respectively. Int. J. Syst. Bacteriol 44:499–510
    [Google Scholar]
  53. Smith E. F. 1911; Bacteria in relation to plant diseases. Carnegie Inst. Wash. Publ 2:1–368
    [Google Scholar]
  54. Sneath P. H. A., Sokal R. R. 1973; Numerical taxonomy. The principles and practice of numerical classification W. H. Freeman and Co.; San Francisco:
    [Google Scholar]
  55. Stackebrandt E., Murray R. G. E., Trüper H. G. 1988; Proteobacteria classis nov., a name for the phylogenetic taxon that includes the “purple bacteria and their relatives.”. Int. J. Syst. Bacteriol 38:321–325
    [Google Scholar]
  56. Stanier R. Y., Palleroni N. J., Doudoroff M. 1966; The aerobic pseudomonads: a taxonomic study. J. Gen. Microbiol 43:159–271
    [Google Scholar]
  57. Stapp C. 1928; Schizomycetes (Spaltpilze oder bakterien),. 1–25 Sorauer P. Handbuch der Planzenkrankheiten, 5th. 2 Paul Parey; Berlin:
    [Google Scholar]
  58. Stapp C. 1935; Contemporary understanding of bacterial plant diseases and their causal organisms. Bot. Rev 1:405–418
    [Google Scholar]
  59. Stead D. E. 1992; Grouping of plant-pathogenic and some other Pseudomonas spp. by using cellular fatty acid profiles. Int. J. Syst. Bacteriol 42:281–295
    [Google Scholar]
  60. Stephan H., Freund S., Meyer J. M., Winkelmann G., Jung G. 1993; Structure elucidation of the gallium-ornibactin complex by 2D-NMR spectroscopy. Liebigs Ann. Chem 1993:43–48
    [Google Scholar]
  61. Stevens F. L. 1925 Plant disease fungi Macmillan Co.; New York:
    [Google Scholar]
  62. Tran Van V. 1989; Isolement et identification des bacteries fixatrices d’azote associees aux racines du riz poussant sur un sol de riziere du Viet-nam. Memoire pour Diplome dvetudes approfondies Universite Claude Bernard Lyon I; Lyon France:
    [Google Scholar]
  63. Urakami T., Ito-Yoshida C., Araki H., Kijima T., Suzuki K. I., Komagata K. 1994; Transfer of Pseudomonas plantarii and Pseudomonas glumae to Burkholderia as Burkholderia spp. and description of Burkholderia vandii sp. nov. Int. J. Syst. Bacteriol 44:235–245
    [Google Scholar]
  64. Vandamme P. Unpublished data
  65. van Damme P. A., Johannes A. G., Cox H. C., Berends W. 1960; On toxoflavin, the yellow poison of Pseudomonas cocovenenans. Reel. Trav. Chim. Pays-Bas Belg 79:255–267
    [Google Scholar]
  66. Van Landschoot A., De Ley J. 1983; Intra- and intergeneric similarities of the rRNA cistrons of Alteromonas, Marinomonas (gen. nov.) and some other Gram-negative bacteria. J. Gen. Microbiol 129:3057–3074
    [Google Scholar]
  67. Willems A., De Ley J., Gillis M., Kersters K. 1991; Comamonadaceae a new family encompassing the acidovorans rRNA complex, including Variovorax paradoxus gen. nov., comb. nov., for Alcaligenes paradoxus (Davis 1969). Int. J. Syst. Bacteriol 41:445–450
    [Google Scholar]
  68. Willems A., De Vos P., Gillis M., Kersters K. 1992; Towards an improved classification of Pseudomonas sp. Soc. Appl. Bacteriol. Tech. Ser 29:21–13
    [Google Scholar]
  69. Wishart D. 1978; Clustan users manual,. , 3rd. Interuniversity Councils series report 47 Edinburgh University; Edinburgh:
    [Google Scholar]
  70. Woese C. R. 1984; Bacterial evolution. Microbiol. Rev 51:221–271
    [Google Scholar]
  71. Woese C. R., Weisburg W. G., Paster B. J., Hahn C. M., Tanner R. S., Krieg N. R., Koops H. P., Harms H., Stackebrandt E. 1984; The phylogeny of purple bacteria: the beta subdivision. Syst. Appl. Microbiol 5:327–336
    [Google Scholar]
  72. Wolf F. A. 1920; A bacterial leaf spot of velvet bean. Phytopathology 10:73–80
    [Google Scholar]
  73. Yabuuchi E., Kosako Y., Oyaizu H., Yano I., Hotta H., Hashimoto Y., Ezaki T., Arakawa M. 1992; Proposal of Burkholderia gen. nov. and transfer of seven species of the genus Pseudomonas group II to the new genus, with the type species Burkholderia cepacia (Palleroni and Holmes 1981) comb. nov. Microbiol. Immunol 36:1251–1275
    [Google Scholar]
  74. Zhao N. X., Ma M. S., Zhang Y. P., Xu D. C. 1990; Comparative description of Pseudomonas cocovenenans (van Damme, Johannes, Cox, and Berends 1960) NCIB 9450T and strains isolated from cases of food poisoning caused by consumption of fermented corn flour in China. Int. J. Syst. Bacteriol 40:452–455
    [Google Scholar]
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