1887

Abstract

Two Gram-stain-positive strains, WPCB074 and WPCB165, were isolated from fresh water collected from the Woopo wetland (Republic of Korea). Both strains were strictly aerobic, motile, endospore-forming rods. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strains WPCB074 and WPCB165 belonged to the genus and that strain WPCB074 was most closely related to YC1 (98.4 % sequence similarity), V2-BIII-A2 (97.7 %), ZFHKF-1 (96.9 %), Con a/3 (96.4 %) and LMG 21880 (95.1 %). The 16S rRNA gene sequences of strains WPCB074 and WPCB165 differed at one position (99.9 % similarity), suggesting that these two strains constitute a single species. DNA–DNA relatedness between strain WPCB074 and the type strains of , , , and were 26, 17, 20, 14 and 7 %, respectively. Strain WPCB074 was characterized by having cell-wall peptidoglycan based on diaminopimelic acid, MK-7 as the predominant menaquinone and iso-C and anteiso-C as the major fatty acids. The DNA GC content of strain WPCB074 was 41.9 mol%. On the basis of phenotypic properties, phylogeny and genomic distinctiveness, strain WPCB074 represents a novel species of the genus for which the name sp. nov. is proposed. The type strain is WPCB074 (=KCTC 13278 =JCM 16348).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.018184-0
2010-09-01
2019-09-15
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/60/9/2204.html?itemId=/content/journal/ijsem/10.1099/ijs.0.018184-0&mimeType=html&fmt=ahah

References

  1. Ahmed, I., Yokota, A., Yamazoe, A. & Fujiwara, T. ( 2007; ). Proposal of Lysinibacillus boronitolerans gen. nov., sp. nov., and transfer of Bacillus fusiformis to Lysinibacillus fusiformis comb. nov. and Bacillus sphaericus to Lysinibacillus sphaericus comb. nov. Int J Syst Evol Microbiol 57, 1117–1125.[CrossRef]
    [Google Scholar]
  2. Albert, R. A., Archambault, J., Lempa, M., Hurst, B., Richardson, C., Gruenloh, S., Duran, M., Worliczek, H. L., Huber, B. E. & other authors ( 2007; ). Proposal of Viridibacillus gen. nov. and reclassification of Bacillus arvi, Bacillus arenosi and Bacillus neidei as Viridibacillus arvi gen. nov., comb. nov., Viridibacillus arenosi comb. nov. and Viridibacillus neidei comb. nov. Int J Syst Evol Microbiol 57, 2729–2737.[CrossRef]
    [Google Scholar]
  3. 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]
  4. 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. Proposal for the creation of a new genus Paenibacillus. Antonie van Leeuwenhoek 64, 253–260.
    [Google Scholar]
  5. Chun, J. ( 1995; ). Computer-assisted classification and identification of actinomycetes. PhD thesis, University of Newcastle, Newcastle, UK.
  6. Chun, J. & Goodfellow, M. ( 1995; ). A phylogenetic analysis of the genus Nocardia with 16S rRNA gene sequences. Int J Syst Bacteriol 45, 240–245.[CrossRef]
    [Google Scholar]
  7. Chun, J., Lee, J.-H., Jung, Y., Kim, M., Kim, S., Kim, B. K. & Lim, Y. W. ( 2007; ). EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. Int J Syst Evol Microbiol 57, 2259–2261.[CrossRef]
    [Google Scholar]
  8. Claus, D. & Berkeley, R. C. W. ( 1986; ). Genus Bacillus Cohn 1872. In Bergey's Manual of Systematic Bacteriology, vol. 2, pp. 1105–1140. Edited by Sneath, P. H. A., Mair, N. S., Sharpe, M. E. & Holt, J. G.. Baltimore. : Williams & Wilkins.
    [Google Scholar]
  9. CLSI ( 2003; ). Performance standards for antimicrobial disk susceptibility tests, 8th edn. Approved Standard M2-A8. Wayne, PA: Clinical and Laboratory Standards Institute.
  10. De Clerck, E., Rodríguez-Díaz, M., Vanhoutte, T., Heyrman, J., Logan, N. A. & De Vos, P. ( 2004; ). Anoxybacillus contaminans sp. nov. and Bacillus gelatini sp. nov., isolated from contaminated gelatin batches. Int J Syst Evol Microbiol 54, 941–946.[CrossRef]
    [Google Scholar]
  11. Felsenstein, J. ( 1985; ). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef]
    [Google Scholar]
  12. Felsenstein, J. ( 1993; ). phylip (phylogeny inference package), version 3.5c. Distributed by the author. Department of Genome Sciences, University of Washington, Seattle, USA.
  13. Fitch, W. M. ( 1971; ). Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20, 406–416.[CrossRef]
    [Google Scholar]
  14. Fitch, W. M. & Margoliash, E. ( 1967; ). Construction of phylogenetic trees. Science 155, 279–284.[CrossRef]
    [Google Scholar]
  15. Fortina, M. G., Pukall, R., Schumann, P., Mora, D., Parini, C., Manachini, P. L. & Stackebrandt, E. ( 2001; ). Ureibacillus gen. nov., a new genus to accommodate Bacillus thermosphaericus (Andersson et al. 1995), emendation of Ureibacillus thermosphaericus and description of Ureibacillus terrenus sp. nov. Int J Syst Evol Microbiol 51, 447–455.
    [Google Scholar]
  16. Hatayama, K., Shoun, H., Ueda, Y. & Nakamura, A. ( 2006; ). Tuberibacillus calidus gen. nov., sp. nov., isolated from a compost pile and reclassification of Bacillus naganoensis Tomimura et al. 1990 as Pullulanibacillus naganoensis gen. nov., comb. nov. and Bacillus laevolacticus Andersch et al. 1994 as Sporolactobacillus laevolacticus comb. nov. Int J Syst Evol Microbiol 56, 2545–2551.[CrossRef]
    [Google Scholar]
  17. 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]
  18. Jeon, C. O., Lim, J. M., Lee, J. M., Xu, L. H., Jiang, C. L. & Kim, C. J. ( 2005; ). Reclassification of Bacillus haloalkaliphilus Fritze 1996 as Alkalibacillus haloalkaliphilus gen. nov., comb. nov. and the description of Alkalibacillus salilacus sp. nov., a novel halophilic bacterium isolated from a salt lake in China. Int J Syst Evol Microbiol 55, 1891–1896.[CrossRef]
    [Google Scholar]
  19. Jukes, T. H. & Cantor, C. R. ( 1969; ). Evolution of protein molecules. In Mammalian Protein Metabolism, vol. 3, pp. 21–132. Edited by Munro, H. N.. New York. : Academic Press.
    [Google Scholar]
  20. Komagata, K. & Suzuki, K. ( 1987; ). Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 19, 161–207.
    [Google Scholar]
  21. Kovács, N. ( 1956; ). Identification of Pseudomonas pyocyanea by the oxidase reaction. Nature 178, 703.
    [Google Scholar]
  22. Kroppenstedt, R. M. ( 1985; ). Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Chemical Methods in Bacterial Systematics (Society for Applied Bacteriology Technical Series vol. 20), pp. 173–199. Edited by Goodfellow, M. & Minnikin, D. E.. New York. : Academic Press.
    [Google Scholar]
  23. Lee, J.-S., Lee, K. C., Pyun, Y.-R. & Bae, K. S. ( 2003; ). Arthrobacter koreensis sp. nov., a novel alkalitolerant bacterium from soil. Int J Syst Evol Microbiol 53, 1277–1280.[CrossRef]
    [Google Scholar]
  24. Liu, H., Zhou, Y., Liu, R., Zhang, K.-Y. & Lai, R. ( 2009; ). Bacillus solisalsi sp. nov., a halotolerant, alkaliphilic bacterium isolated from soil around a salt lake. Int J Syst Evol Microbiol 59, 1460–1464.[CrossRef]
    [Google Scholar]
  25. Mandel, M., Igambi, L., Bergendahl, J., Dodson, M. L. & Scheltgen, E. ( 1970; ). Correlation of melting temperature and cesium chloride buoyant density of bacterial deoxyribonucleic acid. J Bacteriol 101, 333–338.
    [Google Scholar]
  26. Marmur, J. & Doty, P. ( 1962; ). Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 5, 109–118.[CrossRef]
    [Google Scholar]
  27. MIDI ( 1999; ). Sherlock Microbial Identification System Operating Manual, version 3.0. Newark, DE: MIDI, Inc.
  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. ( 1996; ). Paenibacillus apiarius sp. nov. Int J Syst Bacteriol 46, 688–693.[CrossRef]
    [Google Scholar]
  30. Nazina, T. N., Tourova, T. P., Poltaraus, A. B., Novikova, E. V., Grigoryan, A. A., Ivanova, A. E., Lysenko, A. M., Petrunyaka, V. V., Osipov, G. A. & other authors ( 2001; ). Taxonomic study of aerobic thermophilic bacilli: descriptions of Geobacillus subterraneus gen. nov., sp. nov. and Geobacillus uzenensis sp. nov. from petroleum reservoirs and transfer of Bacillus stearothermophilus, Bacillus thermocatenulatus, Bacillus thermoleovorans, Bacillus kaustophilus, Bacillus thermoglucosidasius and Bacillus thermodenitrificans to Geobacillus as the new combinations G. stearothermophilus, G. thermocatenulatus, G. thermoleovorans, G. kaustophilus, G. thermoglucosidasius and G. thermodenitrificans. Int J Syst Evol Microbiol 51, 433–446.
    [Google Scholar]
  31. Priest, F. G., Goodfellow, M. & Todd, C. ( 1981; ). The genus Bacillus: a numerical analysis. In The Aerobic Endospore-forming Bacteria: Classification and Identification (Society for General Microbiology Special Publication, vol. 4), pp. 91–103. Edited by Berkeley, R. C. W. & Goodfellow, M.. London. : Academic Press.
    [Google Scholar]
  32. Saitou, N. & Nei, M. ( 1987; ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425.
    [Google Scholar]
  33. 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]
  34. Shida, O., Takagi, H., Kadowaki, K., Nakamura, L. K. & Komagata, K. ( 1997a; ). 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]
  35. Shida, O., Takagi, H., Kadowaki, K., Nakamura, L. K. & Komagata, K. ( 1997b; ). 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]
  36. Shivaji, S., Suresh, K., Chaturvedi, P., Dube, S. & Sengupta, S. ( 2005; ). Bacillus arsenicus sp. nov., an arsenic-resistant bacterium isolated from a siderite concretion in West Bengal, India. Int J Syst Evol Microbiol 55, 1123–1127.[CrossRef]
    [Google Scholar]
  37. Skerman, V. B. D. ( 1967; ). A Guide to the Identification of the Genera of Bacteria, 2nd edn. Baltimore. : Williams & Wilkins.
    [Google Scholar]
  38. Slepecky, R. & Hemphill, E. ( 1992; ). The genus Bacillus – nonmedical. In The Prokaryotes, 2nd edn, pp. 1663–1696. Edited by Balows, A., Trüper, H. G., Dworkin, M., Harder, W. & Schleifer, K. H.. New York. : Springer.
    [Google Scholar]
  39. Smibert, R. M. & Krieg, N. R. ( 1994; ). Phenotypic characterization. In Methods for General and Molecular Bacteriology, pp. 607–654. Edited by Gerhardt, P., Murray, R. G. E., Wood, W. A. & Krieg, N. R.. Washington, DC. : American Society for Microbiology.
    [Google Scholar]
  40. Stackebrandt, E. & Liesack, W. ( 1993; ). Nucleic acids and classification. In Handbook of New Bacterial Systematics, pp. 152–189. Edited by Goodfellow, M. & O'Donnell, A. G.. London. : Academic Press.
    [Google Scholar]
  41. Staley, J. T. ( 1968; ). Prosthecomicrobium and Ancalomicrobium, new prosthecate freshwater bacteria. J Bacteriol 95, 1921–1944.
    [Google Scholar]
  42. Swofford, D. L. ( 1998; ). Phylogenetic analysis using parsimony (paup), version 4. Sunderland, MA: Sinauer Associates.
  43. Taübel, M., Kämpfer, P., Buczolits, S., Lubitz, W. & Busse, H.-J. ( 2003; ). Bacillus barbaricus sp. nov., isolated from an experimental wall painting. Int J Syst Evol Microbiol 53, 725–730.[CrossRef]
    [Google Scholar]
  44. Tcherpakov, M., Ben-Jacob, E. & Gutnick, D. L. ( 1999; ). Paenibacillus dendritiformis sp. nov., proposal for a new pattern-forming species and its localization within a phylogenetic cluster. Int J Syst Bacteriol 49, 239–246.[CrossRef]
    [Google Scholar]
  45. 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]
  46. Vaishampayan, P., Miyashita, M., Ohnishi, A., Satomi, M., Rooney, A., La Duc, M. T. & Venkateswaran, K. ( 2009; ). Description of Rummeliibacillus stabekisii gen. nov., sp. nov. and reclassification of Bacillus pycnus Nakamura et al. 2002 as Rummeliibacillus pycnus comb. nov. Int J Syst Evol Microbiol 59, 1094–1099.[CrossRef]
    [Google Scholar]
  47. 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]
  48. Wayne, L. G., Brenner, D. J., Colwell, R. R., Grimont, P. A. D., Kandler, O., Krichevsky, M. I., Moore, L. H., Moore, W. E. C., Murray, R. G. E. & 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]
  49. Wisotzkey, J. D., Jurtshuk, P., Jr, Fox, G. E., Deinhard, G. & Poralla, K. ( 1992; ). Comparative sequence analysis 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]
  50. Yoon, J.-H., Yim, D. K., Lee, J.-S., Shin, K.-S., Sato, H. H., Lee, S. T., Park, Y. K. & Park, Y.-H. ( 1998; ). Paenibacillus campinasensis sp. nov., a cyclodextrin-producing bacterium isolated in Brazil. Int J Syst Bacteriol 48, 833–837.[CrossRef]
    [Google Scholar]
  51. Yoon, J. H., Lee, K. C., Weiss, N., Kho, Y. H., Kang, K. H. & Park, Y. H. ( 2001a; ). Sporosarcina aquimarina sp. nov., a bacterium isolated from seawater in Korea, and transfer of Bacillus globisporus (Larkin and Stokes 1967), Bacillus psychrophilus (Nakamura 1984) and Bacillus pasteurii (Chester 1898) to the genus Sporosarcina as Sporosarcina globispora comb. nov., Sporosarcina psychrophila comb. nov. and Sporosarcina pasteurii comb. nov., and emended description of the genus Sporosarcina. Int J Syst Evol Microbiol 51, 1079–1086.[CrossRef]
    [Google Scholar]
  52. Yoon, J.-H., Weiss, N., Lee, K.-C., Lee, I.-S., Kang, K. H. & Park, Y.-H. ( 2001b; ). 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]
  53. Yoon, J. H., Kang, S. J. & Oh, T. K. ( 2007; ). Reclassification of Marinococcus albus Hao et al. 1985 as Salimicrobium album gen. nov., comb. nov. and Bacillus halophilus Ventosa et al. 1990 as Salimicrobium halophilum comb. nov., and description of Salimicrobium luteum sp. nov. Int J Syst Evol Microbiol 57, 2406–2411.[CrossRef]
    [Google Scholar]
  54. Zhang, T., Fan, X., Hanada, S., Kamagata, Y. & Fang, H. H. P. ( 2006; ). Bacillus macauensis sp. nov., a long-chain bacterium isolated from a drinking water supply. Int J Syst Evol Microbiol 56, 349–353.[CrossRef]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.018184-0
Loading
/content/journal/ijsem/10.1099/ijs.0.018184-0
Loading

Data & Media loading...

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