1887

Abstract

Despite differences in their morphologies, comparative analyses of 16S rRNA gene sequences revealed high levels of similarity (>94 %) between strains of the filamentous bacterium ‘ Nostocoida limicola’ and the cocci and and the rod , all isolated from activated sludge. These sequence data and their chemotaxonomic characters, including cell wall, menaquinone and lipid compositions and fingerprints of their 16S–23S rRNA intergenic regions, support the proposition that these isolates should be combined into a single genus containing six species, in the family in the . This suggestion receives additional support from DNA–DNA hybridization data and when partial sequences of the gene are compared between these strains. Even though few phenotypic characterization data were obtained for these slowly growing isolates, it is proposed, on the basis of the extensive chemotaxonomic and molecular evidence presented here, that ‘ N. limicola’ strains Ben 17, Ben 18, Ben 67, Ben 68 and Ben 74 all be placed into the species sp. nov. (type strain Ben 74=DSM 17519=NCIMB 14128), ‘ N. limicola’ strain Ben 70 into sp. nov. (type strain Ben 70=DSM 17518=NCIMB 14127) and ‘ N. limicola’ strains Ver 1 and Ver 2 into sp. nov. (type strain Ver 1=DSM 17520=NCIMB 14129).

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2006-10-01
2024-04-24
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References

  1. Beer M., Seviour E. M., Kong Y., Cunningham M., Blackall L. L., Seviour R. J. 2002; Phylogeny of the filamentous bacterium Eikelboom type 1851, and design and application of a 16S rRNA targeted oligonucleotide probe for its fluorescence in situ identification in activated sludge. FEMS Microbiol Lett 207:179–183 [CrossRef]
    [Google Scholar]
  2. Blackall L. L., Seviour E. M., Cunningham M. A., Seviour R. J., Hugenholtz P. 1994; Microthrix parvicella ” is a novel, deep branching member of the actinomycetes subphylum. Syst Appl Microbiol 17:513–518
    [Google Scholar]
  3. Blackall L. L., Seviour E. M., Bradford D., Rossetti S., Tandoi V., Seviour R. J. 2000; Candidatus Nostocoida limicola’, a filamentous bacterium from activated sludge. Int J Syst Evol Microbiol 50:703–709 [CrossRef]
    [Google Scholar]
  4. Butler M. K., Wang J., Webb R. I., Fuerst J. A. 2002; Molecular and ultrastructural confirmation of classification of ATCC 35122 as a strain of Pirellula staleyi . Int J Syst Evol Microbiol 52:1663–1667 [CrossRef]
    [Google Scholar]
  5. Collins M. D., Dorsch M., Stackebrandt E. 1989; Transfer of Pimelobacter tumescens to Terrabacter gen. nov. as Terrabacter tumescens comb. nov. and of Pimelobacter jensenii to Nocardioides as Nocardioides jensenii comb. nov. Int J Syst Bacteriol 39:1–6 [CrossRef]
    [Google Scholar]
  6. Eikelboom D. H., van Buijsen H. J. J. 1983 Microscopic Sludge Investigation Manual , 2nd edn. Delft: TNO Research Institute of Environmental Hygiene;
    [Google Scholar]
  7. Fergusson K. M., Saint C. P. 2000; Molecular phylogeny of Anabaena circinalis and its identification in environmental samples by PCR. Appl Environ Microbiol 66:4145–4148 [CrossRef]
    [Google Scholar]
  8. Groth I., Schumann P., Martin K., Schuetze B., Augsten K., Kramer I., Stackebrandt E. 1999; Ornithinicoccus hortensis gen. nov., sp. nov., a soil actinomycete which contains l-ornithine. Int J Syst Bacteriol 49:1717–1724 [CrossRef]
    [Google Scholar]
  9. Groth I., Schumann P., Schütze B., Augsten K., Stackebrandt E. 2002; Knoellia sinensis gen. nov., sp. nov. and Knoellia subterranea sp. nov., two novel actinobacteria isolated from a cave. Int J Syst Evol Microbiol 52:77–84
    [Google Scholar]
  10. Gürtler V., Stanisich V. A. 1996; New approaches to typing and identification of bacteria using the 16S–23S rDNA spacer region. Microbiology 142:3–16 [CrossRef]
    [Google Scholar]
  11. Hanada S., Liu W.-T., Shintani T., Kamagata Y., Nakamura K. 2002; Tetrasphaera elongata sp. nov., a polyphosphate-accumulating bacterium isolated from activated sludge. Int J Syst Evol Microbiol 52:883–887 [CrossRef]
    [Google Scholar]
  12. Kämpfer P., Wagner M. 2002; Filamentous bacteria in activated sludge: current taxonomic status and ecology. In Encyclopedia of Environmental Microbiology pp  1287–1306 Edited by Bitton G. New York: Wiley-Interscience;
    [Google Scholar]
  13. Kämpfer P., Terenius O., Lindh J. M., Faye I. 2006; Janibacter anophelis sp. nov., isolated from the midgut of Anopheles arabiensis . Int J Syst Evol Microbiol 56:389–392 [CrossRef]
    [Google Scholar]
  14. Kataoka N., Tokiwa Y., Tanaka Y., Takeda K., Suzuki T. 1996; Enrichment culture and isolation of slow-growing bacteria. Appl Microbiol Biotechnol 45:771–777 [CrossRef]
    [Google Scholar]
  15. Kong Y., Nielsen J. L., Nielsen P. H. 2005; Identity and ecophysiology of uncultured actinobacterial polyphosphate-accumulating organisms in full-scale enhanced biological phosphorus removal plants. Appl Environ Microbiol 71:4076–4085 [CrossRef]
    [Google Scholar]
  16. Kragelund C., Nielsen J. L., Thomsen T. R., Nielsen P. H. 2005; Ecophysiology of the filamentous Alphaproteobacterium Meganema perideroedes in activated sludge. FEMS Microbiol Ecol 54:111–122 [CrossRef]
    [Google Scholar]
  17. Kumar S., Tamura K., Jakobsen I.-B., Nei M. 2001; mega2: molecular evolutionary genetics analysis software. Bioinformatics 17:1244–1245 [CrossRef]
    [Google Scholar]
  18. Levantesi C., Beimfohr C., Geurkink B., Rossetti S., Thelen K., Kroonman J., Snaidr J., van der Waarde J., Tandoi V. 2004; Filamentous Alphaproteobacteria associated with bulking in industrial wastewater treatment plants. Syst Appl Microbiol 27:716–727 [CrossRef]
    [Google Scholar]
  19. Liu J. R., McKenzie C. A., Seviour E. M., Webb R. I., Blackall L. L., Saint C. P., Seviour R. J. 2001; Phylogeny of the filamentous bacterium ‘ Nostocoida limicola ’ III from activated sludge. Int J Syst Evol Microbiol 51:195–202
    [Google Scholar]
  20. Liu J. R., Tanner R. S., Schumann P. 7 other authors 2002; Emended description of the genus Trichococcus , description of Trichococcus collinsii sp. nov., and reclassification of Lactosphaera pasteurii as Trichococcus pasteurii comb. nov. and of Ruminococcus palustris as Trichococcus palustris comb. nov. in the low-G+C Gram-positive bacteria. Int J Syst Evol Microbiol 52:1113–1126 [CrossRef]
    [Google Scholar]
  21. Martin K., Schumann P., Rainey F. A., Schuetze B., Groth I. 1997; Janibacter limosus gen. nov., sp. nov., a new actinomycete with meso-diaminopimelic acid in the cell wall. Int J Syst Bacteriol 47:529–534 [CrossRef]
    [Google Scholar]
  22. Martins A. M. P., Pagilla K., Heijnen J. J., van Loosdrecht M. C. M. 2004; Filamentous bulking sludge – a critical review. Water Res 38:793–817 [CrossRef]
    [Google Scholar]
  23. Maszenan A. M., Seviour R. J., Patel B. K. C., Rees G. N., McDougall B. M. 1997; Amaricoccus gen. nov., a gram-negative coccus occurring in regular packages and tetrads, isolated from activated sludge biomass, and descriptions of Amaricoccus veronensis sp. nov., Amaricoccus tamworthensis sp. nov., Amaricoccus macauensis sp. nov., and Amaricoccus kaplicensis sp. nov. Int J Syst Bacteriol 47:727–734 [CrossRef]
    [Google Scholar]
  24. Maszenan A. M., Seviour R. J., Patel B. K. C., Schumann P., Rees G. N. 1999; Tessaracoccus bendigoensis gen. nov., sp. nov. a Gram-positive coccus occurring in regular packages or tetrads, isolated from activated sludge biomass. Int J Syst Bacteriol 49:459–468 [CrossRef]
    [Google Scholar]
  25. Maszenan A. M., Seviour R. J., Patel B. K. C., Schumann P., Burghardt J., Tokiwa Y., Stratton H. M. 2000; Three isolates of novel polyphosphate-accumulating Gram-positive cocci, obtained from activated sludge, belong to a new genus, Tetrasphaera gen. nov., and description of two new species, Tetrasphaera japonica sp.nov. and Tetrasphaera australiensis sp. nov. Int J Syst Evol Microbiol 50:593–603 [CrossRef]
    [Google Scholar]
  26. McKerrow J., Vagg S., McKinney T., Seviour E. M., Maszenan A. M., Brooks P., Seviour R. J. 2000; A simple HPLC method for analysing diaminopimelic acid diastereoisomers in cell walls of Gram-positive bacteria. Lett Appl Microbiol 30:178–182 [CrossRef]
    [Google Scholar]
  27. Morse R., Collins M. D., O'Hanlon K., Wallbanks S., Richardson P. T. 1996; Analysis of the β ′ subunit of the DNA-dependent RNA polymerase does not support the hypothesis inferred from 16S rRNA analysis that Oenococcus oeni (formerly Leuconostoc oenos ) is a tachytelic (fast-evolving) bacterium. Int J Syst Bacteriol 46:1004–1009 [CrossRef]
    [Google Scholar]
  28. Prauser H., Schumann P., Rainey F. A., Kroppenstedt R. M., Stackebrandt E. 1997; Terracoccus luteus gen. nov., sp. nov., an ll-diaminopimelic acid-containing coccoid actinomycete from soil. Int J Syst Bacteriol 47:1218–1224 [CrossRef]
    [Google Scholar]
  29. Reasoner D. J., Geldreich E. E. 1985; A new medium for the enumeration and subculture of bacteria from potable water. Appl Environ Microbiol 49:1–7
    [Google Scholar]
  30. Rossetti S., Tomei M. C., Nielsen P. H., Tandoi V. 2005; Microthrix parvicella ”, a filamentous bacterium causing bulking and foaming in activated sludge systems: a review of current knowledge. FEMS Microbiol Rev 29:49–64 [CrossRef]
    [Google Scholar]
  31. Schade M., Beimfohr C., Lemmer H. 2002; Phylogenetic and physiological characterization of a “ Nostocoida limicola ”-like organism isolated from activated sludge. Water Sci Technol 46 (1–2):91–97
    [Google Scholar]
  32. Schumann P., Prauser H., Rainey F. A., Stackebrandt E., Hirsch P. 1997; Friedmanniella antarctica gen. nov., sp. nov. an ll-diaminopimelic acid-containing actinomycete from Antarctic sandstone. Int J Syst Bacteriol 47:278–283 [CrossRef]
    [Google Scholar]
  33. Seo P. S., Yokota A. 2003; The phylogenetic relationships of cyanobacteria inferred from 16S rRNA, gyrB , rpoC1 and rpoD1 gene sequences. J Gen Appl Microbiol 49:191–203 [CrossRef]
    [Google Scholar]
  34. Seviour E. M., Blackall L. L., Christenson C., Hugenholtz P., Cunningham M. A., Bradford D., Stratton H. M., Seviour R. J. 1997; The filamentous morphotype Eikelboom type 1863 is not a single genetic entity. J Appl Microbiol 82:411–421 [CrossRef]
    [Google Scholar]
  35. Seviour R. J., Maszenan A. M., Soddell J. A., Tandoi V., Patel B. K. C., Kong Y., Schumann P. 2000; Microbiology of the ‘G-bacteria’ in activated sludge. Environ Microbiol 2:581–593 [CrossRef]
    [Google Scholar]
  36. Seviour R. J., Mino T., Onuki M. 2003; The microbiology of biological phosphorus removal in activated sludge systems. FEMS Microbiol Rev 27:99–127 [CrossRef]
    [Google Scholar]
  37. Snaidr J., Beimfohr C., Levantesi C., Rossetti C., van der Waarde J., Geurkink B., Eikelboom D., Lemaitre M., Tandoi V. 2002; Phylogenetic analysis and in situ identification of “ Nostocoida limicola ”-like filamentous bacteria in activated sludge from industrial wastewater treatment plants. Water Sci Technol 46 (1–2):99–104
    [Google Scholar]
  38. Thompson J. D., Gibson T. J., Plewniak F., Jeanmougin F., Higgins D. G. 1997; The clustal_x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882 [CrossRef]
    [Google Scholar]
  39. Tsai C.-S., Liu W.-T. 2002; Phylogenetic and physiological diversity of tetrad-forming organisms in deteriorated biological phosphorus removal systems. Water Sci Technol 46 (1–2):179–184
    [Google Scholar]
  40. Wilson K. M., Schembri M. A., Baker P. D., Saint C. P. 2000; Molecular characterization of the toxic cyanobacterium Cylindrospermopsis raciborskii and design of a species-specific PCR. Appl Environ Microbiol 66:332–338 [CrossRef]
    [Google Scholar]
  41. Yoon J.-H., Lee K.-C., Kang S.-S., Kho Y. H., Kang K. H., Park Y.-H. 2000; Janibacter terrae sp. nov., a bacterium isolated from soil around a wastewater treatment plant. Int J Syst Evol Microbiol 50:1821–1827
    [Google Scholar]
  42. Yoon J.-H., Lee H. B., Yeo S.-H., Choi J.-E. 2004; Janibacter melonis sp. nov., isolated from abnormally spoiled oriental melon in Korea. Int J Syst Evol Microbiol 54:1975–1980 [CrossRef]
    [Google Scholar]
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