1887

Abstract

Three strains of a spore-forming, Gram-positive, motile, rod-shaped and boron-tolerant bacterium were isolated from soil. The strains, designated 10a, 11c and 12B, can tolerate 5 % (w/v) NaCl and up to 150 mM boron, but optimal growth was observed without addition of boron or NaCl in Luria–Bertani agar medium. The optimum temperature for growth was 37 °C (range 16–45 °C) and the optimum pH was 7.0–8.0 (range pH 5.5–9.5). A comparative analysis of the 16S rRNA gene sequence demonstrated that the isolated strains were closely related to DSM 2898 (97.2 % similarity) and DSM 28 (96.9 %). DNA–DNA relatedness was greater than 97 % among the isolated strains and 61.1 % with DSM 2898 and 43.2 % with IAM 13420. The phylogenetic and phenotypic analyses and DNA–DNA relatedness indicated that the three strains belong to the same species, that was characterized by a DNA G+C content of 36.5–37.9 mol%, MK-7 as the predominant menaquinone system and iso-C (32 % of the total) as a major cellular fatty acid. In contrast to the type species of the genus , the strains contained peptidoglycan with lysine, aspartic acid, alanine and glutamic acid. Based on the distinctive peptidoglycan composition, phylogenetic analyses and physiology, the strains are assigned to a novel species within a new genus, for which the name gen. nov., sp. nov. is proposed. The type strain of is strain 10a (=DSM 17140=IAM 15262=ATCC BAA-1146). It is also proposed that and be transferred to this genus as comb. nov. and comb. nov., respectively.

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.63867-0
2007-05-01
2019-10-22
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/57/5/1117.html?itemId=/content/journal/ijsem/10.1099/ijs.0.63867-0&mimeType=html&fmt=ahah

References

  1. Ahmed, I., Yokota, A. & Fujiwara, T. ( 2007a; ). A novel highly boron tolerant bacterium, Bacillus boroniphilus sp. nov., isolated from soil, that requires boron for its growth. Extremophiles 11, 217–224.[CrossRef]
    [Google Scholar]
  2. Ahmed, I., Yokota, A. & Fujiwara, T. ( 2007b; ). Gracilibacillus boraciitolerans sp. nov., a highly boron-tolerant and moderately halotolerant bacterium isolated from soil. Int J Syst Evol Microbiol 57, 796–802.[CrossRef]
    [Google Scholar]
  3. Ahmed, I., Yokota, A. & Fujiwara, T. ( 2007c; ). Chimaereicella boritolerans sp. nov., a boron-tolerant and alkaliphilic bacterium of the family Flavobacteriaceae isolated from soil. Int J Syst Evol Microbiol 57, 986–992.[CrossRef]
    [Google Scholar]
  4. 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]
  5. 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 test. Antonie van Leeuwenhoek 64, 253–260.
    [Google Scholar]
  6. Chen, X., Schauder, S., Potier, N., Dorsselaer, A. V., Pelczer, I., Bassler, B. L. & Hughson, F. M. ( 2002; ). Structural identification of a bacterial quorum-sensing signal containing boron. Nature 415, 545–549.[CrossRef]
    [Google Scholar]
  7. 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.
  8. Claus, D. & Fritze, D. ( 1989; ). Taxonomy of Bacillus. In Bacillus (Biotechnology Handbooks vol. 2), pp. 5–26. Edited by C. R. Harwood. New York: Plenum.
  9. Claus, D., Fritze, D. & Kocur, M. ( 1992; ). Genera related to the genus Bacillus – Sporolactobacillus, Sporosarcina, Planococcus, Filibacter and Caryophanon. In The Prokaryotes: a Handbook on the Biology of Bacteria: Ecophysiology, Isolation, Identification, Applications, 2nd edn, vol. 2, pp. 1769–1791. Edited by A. Balows, H. G. Trüper, M. Dworkin, W. Harder & K. H. Schleifer. New York: Springer.
  10. Clausen, V., Jones, J. G. & Stackebrandt, E. ( 1985; ). 16S ribosomal RNA analysis of Filibacter limicola indicates a close relationship to the genus Bacillus. J Gen Microbiol 131, 2659–2663.
    [Google Scholar]
  11. Cochran, D. G. ( 1995; ). Toxic effects of boric acid on the German cockroach. Experientia 51, 561–563.[CrossRef]
    [Google Scholar]
  12. Ezaki, T., Hashimoto, Y. & Yabuuchi, E. ( 1989; ). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39, 224–229.[CrossRef]
    [Google Scholar]
  13. Fahmy, F., Flossdorf, J. & Claus, D. ( 1985; ). The DNA base composition of the type strains of the genus Bacillus. Syst Appl Microbiol 6, 60–65.[CrossRef]
    [Google Scholar]
  14. Farrow, J. A. E., Wallbanks, S. & Collins, M. D. ( 1994; ). Phylogenetic interrelationships of round-spore-forming bacilli containing cell walls based on lysine and the non-spore-forming genera Caryophanon, Exiguobacterium, Kurthia, and Planococcus. Int J Syst Bacteriol 44, 74–82.[CrossRef]
    [Google Scholar]
  15. Felsenstein, J. ( 2005; ). phylip (Phylogeny Inference Package) version 3.6. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  16. Glazunova, O. O., Raoult, D. & Roux, V. ( 2006; ). Bacillus massiliensis sp. nov., isolated from cerebrospinal fluid. Int J Syst Evol Microbiol 56, 1485–1488.[CrossRef]
    [Google Scholar]
  17. Groth, I., Schumann, P., Weiss, N., Martin, K. & Rainey, F. A. ( 1996; ). Agrococcus jenensis gen. nov., sp. nov., a new genus of actinomycetes with diaminobutyric acid in the cell wall. Int J Syst Bacteriol 46, 234–239.[CrossRef]
    [Google Scholar]
  18. Hall, T. A. ( 1999; ). BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41, 95–98.
    [Google Scholar]
  19. Heyndrickx, M., Lebbe, L., Kersters, K., De Vos, P., Forsyth, G. & Logan, N. A. ( 1998; ). Virgibacillus: a new genus to accommodate Bacillus pantothenticus (Proom and Knight 1950). Emended description of Virgibacillus pantothenticus. Int J Syst Bacteriol 48, 99–106.[CrossRef]
    [Google Scholar]
  20. Heyrman, J., Rodríguez-Díaz, M., Devos, J., Felske, A., Logan, N. A. & De Vos, P. ( 2005; ). Bacillus arenosi sp. nov., Bacillus arvi sp. nov. and Bacillus humi sp. nov., isolated from soil. Int J Syst Evol Microbiol 55, 111–117.[CrossRef]
    [Google Scholar]
  21. Kämpfer, P., Rosselló-Mora, R., Falsen, E., Busse, H.-J. & Tindall, B. J. ( 2006; ). Cohnella thermotolerans gen. nov., sp. nov., and classification of ‘Paenibacillus hongkongensis’ as Cohnella hongkongensis sp. nov. Int J Syst Evol Microbiol 56, 781–786.[CrossRef]
    [Google Scholar]
  22. Katsivela, E., Bonse, D., Krüger, A., Strömpl, C., Livingston, A. & Ittich, R.-M. ( 1999; ). An extractive membrane biofilm reactor for degradation of 1,3-dichloropropene in industrial wastewater. Appl Microbiol Biotechnol 52, 853–862.[CrossRef]
    [Google Scholar]
  23. Keddie, R. M. & Jones, D. ( 1992; ). The genus Kurthia. In The Prokaryotes: a Handbook on the Biology of Bacteria: Ecophysiology, Isolation, Identification, Applications, 2nd edn, vol. 2, pp. 1654–1662. Edited by A. Balows, H. G. Trüper, M. Dworkin, W. Harder & K. H. Schleifer. New York: Springer.
  24. Keddie, R. M. & Shaw, S. ( 1986; ). Genus Kurthia. In Bergey's Manual of Systematic Bacteriology, vol. 2, pp. 1255–1258. Edited by P. H. A. Sneath, N. Mair, M. E. Sharpe & J. G. Holt. Baltimore: Williams & Wilkins.
  25. Kimura, M. ( 1980; ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16, 111–120.[CrossRef]
    [Google Scholar]
  26. Kudo, T. ( 2001; ). Phospholipids. In Identification Manual of Bacteria: Molecular Genetics and Molecular Biological Methods, pp. 135–144. Edited by K. Suzuki, A. Hiraishi & A. Yokota. Tokyo: Springer.
  27. La Duc, M. T., Satomi, M. & Venkateswaran, K. ( 2004; ). Bacillus odysseyi sp. nov., a round-spore-forming bacillus isolated from the Mars Odyssey spacecraft. Int J Syst Evol Microbiol 54, 195–201.[CrossRef]
    [Google Scholar]
  28. Minnikin, D. E., O'Donnell, A. G., Goodfellow, M., Alderson, G., Athalye, M., Schaal, A. & Parlett, J. H. ( 1984; ). An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2, 233–241.[CrossRef]
    [Google Scholar]
  29. Nakamura, L. K., Shida, O., Takagi, H. & Komagata, K. ( 2002; ). Bacillus pycnus sp. nov. and Bacillus neidei sp. nov., round-spored bacteria from soil. Int J Syst Evol Microbiol 52, 501–505.
    [Google Scholar]
  30. Pechman, K. J., Lewis, B. J. & Woese, C. R. ( 1976; ). Phylogenetic status of Sporosarcina ureae. Int J Syst Bacteriol 26, 305–310.[CrossRef]
    [Google Scholar]
  31. Priest, F. G., Goodfellow, M. & Todd, C. ( 1988; ). A numerical classification of the genus Bacillus. J Gen Microbiol 134, 1847–1882.
    [Google Scholar]
  32. Ranftl, H. & Kandler, O. ( 1970; ). d-aspartyl-l-alanin als Interpeptidbrücke im Murein von Bacillus pasteurii Migula. Z Naturforsch [C] 28, 4–8 (in German).
    [Google Scholar]
  33. Rheims, H., Frühling, A., Schumann, P., Rohde, M. & Stackebrandt, E. ( 1999; ). Bacillus silvestris sp. nov., a new member of the genus Bacillus that contains lysine in its cell wall. Int J Syst Bacteriol 49, 795–802.[CrossRef]
    [Google Scholar]
  34. Rowe, R. I. & Eckhert, C. D. ( 1999; ). Boron is required for zebrafish embryogenesis. J Exp Biol 202, 1649–1654.
    [Google Scholar]
  35. Rowe, R. I., Bouzan, C., Nabili, S. & Eckhert, C. D. ( 1998; ). The response of trout and zebrafish embryos to low and high boron concentrations is U-shaped. Biol Trace Elem Res 66, 261–270.[CrossRef]
    [Google Scholar]
  36. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  37. Schleifer, K. H. & Kandler, O. ( 1972; ). Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36, 407–477.
    [Google Scholar]
  38. Shaw, S. & Keddie, R. M. ( 1983; ). A numerical taxonomic study of the genus Kurthia with a revised description of Kurthia zopfii and a description of Kurthia gibsonii sp. nov. Syst Appl Microbiol 4, 253–276.[CrossRef]
    [Google Scholar]
  39. Shida, O., Takagi, H., Kadowaki, K. & Komagata, K. ( 1996; ). Proposal for two new genera, Brevibacillus gen. nov. and Aneurinibacillus gen. nov. Int J Syst Bacteriol 46, 939–946.[CrossRef]
    [Google Scholar]
  40. Stackebrandt, E. & Goebel, B. M. ( 1994; ). Taxonomic note: a place for DNA-DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44, 846–849.[CrossRef]
    [Google Scholar]
  41. Stackebrandt, E., Ludwig, W., Weizenegger, M., Dorn, S., McGill, T. J., Fox, G. E., Woese, C. E., Schubert, W. & Schleifer, K.-H. ( 1987; ). Comparative 16S rRNA oligonucleotide analyses and murein types of round-spore-forming bacilli and non-sporeforming relatives. J Gen Microbiol 133, 2523–2529.
    [Google Scholar]
  42. 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]
  43. Wainø, M., Tindall, B. J., Schumann, P. & Ingvorsen, K. (1999; ). Gracilibacillus gen. nov., with description of Gracilibacillus halotolerans gen. nov., sp. nov.; transfer of Bacillus dipsosauri to Gracilibacillus dipsosauri comb. nov., and Bacillus salexigens to the genus Salibacillus gen. nov., as Salibacillus salexigens comb. nov. Int J Syst Bacteriol 49, 821–831.[CrossRef]
    [Google Scholar]
  44. Warington, K. ( 1923; ). The effect of boric acid and borax on the broad bean and certain other plants. Ann Bot 37, 629–672.
    [Google Scholar]
  45. Wisotzkey, J. D., Jurtshuk, P., Jr, Fox, G. E., Deinhard, G. & Poralla, K. ( 1992; ). Comparative sequence analyses on the 16S rRNA (rDNA) of Bacillus acidocaldarius, Bacillus acidoterrestris, and Bacillus cycloheptanicus and proposal for creation of a new genus, Alicyclobacillus gen. nov. Int J Syst Bacteriol 42, 263–269.[CrossRef]
    [Google Scholar]
  46. Xie, C. & Yokota, A. ( 2003; ). Phylogenetic analysis of Lampropedia hyalina based on the 16S rRNA gene sequence. J Gen Appl Microbiol 49, 345–349.[CrossRef]
    [Google Scholar]
  47. Yoon, J.-H., Weiss, N., Lee, K.-C., Lee, I.-S., Kang, K. H. & Park, Y.-H. ( 2001; ). Jeotgalibacillus alimentarius gen. nov., sp. nov., a novel bacterium isolated from jeotgal with l-lysine in the cell wall, and reclassification of Bacillus marinus Rüger 1983 as Marinibacillus marinus gen. nov., comb. nov. Int J Syst Evol Microbiol 51, 2087–2093.[CrossRef]
    [Google Scholar]
  48. Yoon, J. H., Kang, K. H. & Park, Y. H. ( 2002; ). Lentibacillus salicampi gen. nov., sp. nov., a moderately halophilic bacterium isolated from a salt field in Korea. Int J Syst Evol Microbiol 52, 2043–2048.[CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.63867-0
Loading
/content/journal/ijsem/10.1099/ijs.0.63867-0
Loading

Data & Media loading...

Supplements

vol. , part 5, pp. 1117 - 1125

Growth of DH10B and strain 10a on NA medium (pH 7.0; Difco) with different concentrations of boron.

Comparison of growth curves for DH10B (control) and strain 10a at different boron levels in LB medium (pH 7.0).

Photomicrograph of cells of strain 10a showing sporangia and vegetative cells as viewed under phase-contrast microscopy.

Polar lipid profiles after separation by two-dimensional TLC.

[PDF file of Supplementary Figs S1-S4](280 KB)



PDF

Most Cited This Month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error