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International Journal of Systematic and Evolutionary Microbiology

Volume 55, Issue 2

sp. nov., a xylanase-producing bacterium isolated from a rice field in the Ebro River delta Free

Abstract

A Gram-positive, endospore-forming, xylanase-producing bacterium isolated from a rice field was studied taxonomically. The strain grows at 10–40 °C and in the presence of lysozyme or 5 % (w/v) NaCl. Chemotaxonomic analysis revealed that MK-7 was the predominant menaquinone of the isolated strain, while the major fatty acid was anteiso-C. Comparison of 16S rRNA gene sequences showed that strain BP-23 fell within the radiation of the cluster comprising species. The highest 16S rRNA gene sequence similarities were found with (97·4 %), (97·1 %) and (96·9 %). The DNA–DNA relatedness of strain BP-23 with respect to these three species was very low (32·7, 31·6 and 23·0 %, respectively). On the basis of phenotypic and genotypic data, strain BP-23 should be placed in the genus and designated a novel species, for which the name sp. nov. is proposed. The type strain is BP-23 (=CECT 7022=DSM 15478).

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2005-03-01
2020-04-02
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References

  1. Ash, C., Farrow, J. A. E., Wallbanks, S. & Collins, M. D. ( 1991; ). Phylogenetic heterogeneity of the genus Bacillus revealed by comparative analysis of small subunit ribosomal RNA sequences. Lett Appl Microbiol 13, 202–206.
     [Google Scholar]
  2. Ash, C., Priest, F. G. & Collins, M. D. ( 1993; ). Molecular identification of rRNA group 3 bacilli (Ash, Farrow, Wallbanks and Collins) using a PCR probe. Proposal for the creation of a new genus Paenibacillus. Antonie van Leeuwenhoek 64, 253–260.
     [Google Scholar]
  3. Barney, M., Volgyi, A., Navarro, A. & Ryder, D. ( 2001; ). Riboprinting and 16S rRNA gene sequencing for identification of brewery Pediococcus isolates. Appl Environ Microbiol 67, 553–560.[CrossRef]
    [Google Scholar]
  4. Berge, O., Guinebretière, M. H., Achouak, W., Normand, P. & Heulin, T. ( 2002; ). Paenibacillus graminis sp. nov. and Paenibacillus odorifer sp. nov., isolated from plant roots, soil and food. Int J Syst Evol Microbiol 52, 607–616.
     [Google Scholar]
  5. Blanco, A. & Pastor, F. I. J. ( 1993; ). Characterization of cellulase-free xylanases from the newly isolated Bacillus sp. strain BP-23. Can J Microbiol 39, 1162–1166.[CrossRef]
    [Google Scholar]
  6. Blanco, A., Vidal, T., Colom, J. F. & Pastor, F. I. J. ( 1995; ). Purification and properties of xylanase A from alkali-tolerant Bacillus sp. strain BP-23. Appl Environ Microbiol 61, 4468–4470.
     [Google Scholar]
  7. Blanco, A., Díaz, P., Zueco, J., Parascandola, P. & Pastor, F. I. J. ( 1999; ). A multidomain xylanase from a Bacillus sp. with a region homologous to thermostabilizing domains of thermophilic enzymes. Microbiology 145, 2163–2170.[CrossRef]
    [Google Scholar]
  8. Brosius, J., Palmer, M. L., Kennedy, P. J. & Noller, H. F. ( 1978; ). Complete nucleotide sequence of a 16S ribosomal RNA gene from Escherichia coli. Proc Natl Acad Sci U S A 75, 4801–4805.[CrossRef]
    [Google Scholar]
  9. Bruce, J. ( 1996; ). Automated system rapidly identifies and characterizes microorganisms in food. Food Technol 50, 77–81.
     [Google Scholar]
  10. Cashion, P., Hodler-Franklin, M. A., McCully, J. & Franklin, M. ( 1977; ). A rapid method for base ratio determination of bacterial DNA. Anal Biochem 81, 461–466.[CrossRef]
    [Google Scholar]
  11. Claus, D. & Berkeley, R. C. W. ( 1986; ). Genus Bacillus Cohn 1872, 174AL. In Bergey's Manual of Systematic Bacteriology, vol. 2, pp. 1105–1139. Edited by P. H. A. Sneath, N. S. Mair, M. E. Sharpe & J. G. Holt. Baltimore: Williams & Wilkins.
  12. De Ley, J., Cattoir, H. & Reynaerts, A. ( 1970; ). The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12, 133–142.[CrossRef]
    [Google Scholar]
  13. De Soete, G. ( 1983; ). A least squares algorithm for fitting additive trees to proximity data. Psychometrika 48, 621–626.[CrossRef]
    [Google Scholar]
  14. Escara, J. F. & Hutton, J. R. ( 1980; ). Thermal stability and renaturation of DNA in dimethyl sulfoxide solutions: acceleration of renaturation rate. Biopolymers 19, 1315–1327.[CrossRef]
    [Google Scholar]
  15. Felsenstein, J. ( 1993; ). phylip (phylogeny inference package), version 3.5.1. Department of Genetics, University of Washington, Seattle, USA.
  16. Gallardo, O., Diaz, P. & Pastor, F. I. J. ( 2003; ). Characterization of a Paenibacillus cell-associated xylanase with high activity on aryl-xylosides: a new subclass of family 10 xylanases. Appl Microbiol Biotechnol 61, 226–233.[CrossRef]
    [Google Scholar]
  17. Gordon, R. E., Haynes, W. C. & Pang, C. H. ( 1973; ). The Genus Bacillus, handbook no. 427. Washington, DC: US Department of Agriculture.
  18. Huß, V. A. R., Festl, H. & Schleifer, K. H. ( 1983; ). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4, 184–192.[CrossRef]
    [Google Scholar]
  19. Jahnke, K. D. ( 1992; ). Basic computer program for evaluation of spectroscopic DNA renaturation data from GILFORD system 2600 spectrometer on a PC/XT/AT type personal computer. J Microbiol Methods 15, 61–73.[CrossRef]
    [Google Scholar]
  20. Jukes, T. H. & Cantor, C. R. ( 1969; ). Evolution of protein molecules. In Mammalian Protein Metabolism, pp. 21–132. Edited by H. N. Munro. New York: Academic Press.
  21. Kämpfer, P. ( 2002; ). Whole-cell fatty acid analysis in the systematics of Bacillus and related genera. In Applications and Systematics of Bacillus and Relatives, pp. 271–299. Edited by R. Berkeley, M. Heyndrickx, N. Logan & P. De Vos. Oxford: Blackwell.
  22. Kucheryava, N., Fiss, M., Auling, G. & Kroppenstedt, R. M. ( 1999; ). Isolation and characterization of epiphytic bacteria from the phyllosphere of apple, antagonistic in vitro to Venturia inaequalis, the causal agent of apple scab. Syst Appl Microbiol 22, 472–478.[CrossRef]
    [Google Scholar]
  23. Maidak, B. L., Cole, J. R., Parker, C. T., Jr & 11 other authors ( 1999; ). A new version of the RDP (Ribosomal Database Project). Nucleic Acids Res 27, 171–173.[CrossRef]
    [Google Scholar]
  24. Mesbah, M., Premachandran, U. & Whitman, W. B. ( 1989; ). Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39, 159–167.[CrossRef]
    [Google Scholar]
  25. Outtrup, H. & Jørgensen, S. T. ( 2002; ). The importance of Bacillus species in the production of industrial enzymes. In Applications and Systematics of Bacillus and Relatives, pp. 206–218. Edited by R. Berkeley, M. Heyndrickx, N. Logan & P. De Vos. Oxford: Blackwell.
  26. Rainey, F. A., Ward-Rainey, N., Kroppenstedt, R. M. & Stackebrandt, E. ( 1996; ). The genus Nocardiopsis represents a phylogenetically coherent taxon and a distinct actinomycete lineage: proposal of Nocardiopsaceae fam. nov. Int J Syst Bacteriol 46, 1088–1092.[CrossRef]
    [Google Scholar]
  27. Shida, O., Takagi, H., Kadowaki, K., Nakamura, L. K. & Komagata, K. ( 1997a; ). Transfer of Bacillus alginolyticus, Bacillus chondroitinus, Bacillus curdlanolyticus, Bacillus glucanolyticus, Bacillus kobensis, and Bacillus thiaminolyticus to the genus Paenibacillus and emended description of the genus Paenibacillus. Int J Syst Bacteriol 47, 289–298.[CrossRef]
    [Google Scholar]
  28. Shida, O., Takagi, H., Kadowaki, K., Nakamura, L. K. & Komagata, K. ( 1997b; ). Emended description of Paenibacillus amylolyticus and description of Paenibacillus illinoisensis sp. nov. and Paenibacillus chibensis sp. nov. Int J Syst Bacteriol 47, 299–306.[CrossRef]
    [Google Scholar]
  29. Tamaoka, J. & Komagata, K. ( 1984; ). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25, 125–128.[CrossRef]
    [Google Scholar]
  30. Tindall, B. J. ( 1990; ). A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 13, 128–130.[CrossRef]
    [Google Scholar]
  31. Wayne, L. G., Brenner, D. J., Colwell, R. R. & 9 other authors ( 1987; ). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37, 463–464.[CrossRef]
    [Google Scholar]
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Paenibacillus barcinonensis sp. nov., a xylanase-producing bacterium isolated from a rice field in the Ebro River delta
Int J Syst Evol Microbiol 55, 935 (2005); https://doi.org/10.1099/ijs.0.63383-0
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vol. , part 2, pp. 935–939

Micrographs of sporulating cells of strain BP-23 and an extended version of the neighbour-joining tree shown in Fig. 1 of the report are available to download. [PDF](225KB)

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