Arthrobacter subterraneus sp. nov., Isolated from Deep Subsurface Water of the South Coast of Korea

  • 발행 : 2007.11.30

초록

Strain $CH7^T$, a pale yellow-pigmented bacterium and new isolate from deep subsurface water of the South Coast of Korea, was subjected to a polyphasic taxonomic study. $CH7^T$ grew between 5 and $37^{\circ}C$, pH 5.3-10.5, and tolerated up to 13% NaCl. A phylogenetic analysis based on 16S rRNA gene sequences showed that strain $CH7^T$ was associated with the genus Arthrobacter and phylogenetically closely related to the type strains Arthrobacter tumbae (99.4%) and Arthrobacter parietis (99.1%). However, DNA-DNA hybridization experiments revealed 2.1% and 12% between strain $CH7^T$ and Arthrobacter tumbae and Arthrobacter parietis, respectively. Thus, the phenotypic and phylogenetic differences suggested that $CH7^T$ should be placed in the genus Arthrobacter as a novel species, for which the name Arthrobacter subterraneus sp. novo is proposed. In addition, the type strain for the new species is $CH7^T$ ($=KCTC\;9997^T=DSM\;17585^T$).

키워드

참고문헌

  1. Bae, J. W., S. K. Rhee, J. R. Park, W. H. Chung, Y. D. Nam, I. Lee, H. Kim, and Y. H. Park. 2005. Development and evaluation of genome-probing microarrays for monitoring lactic acid bacteria. Appl. Environ. Microbiol. 71: 8825-8835 https://doi.org/10.1128/AEM.71.12.8825-8835.2005
  2. Bae, S. S., Y. J. Kim, S. H. Yang, J. K. Lim, J. H. Jeon, H. S. Lee, S. G. Kang, S.-J. Kim, and J.-H. Lee. 2006. Thermococcus onnurineus sp. nov., a hyperthermophilic archaeon isolated from a deep-sea hydrothermal vent area at the PACMANUS field. J. Microbiol. Biotechnol. 11: 1826-1831
  3. Barbosa, D. C., J.-W. Bae, I. V. D. Weid, N. Vaisman, Y.-D. Nam, H.-W. Chang, Y.-H. Park, and L. Seldin. 2006. Halobacillus blutaparonensis sp. nov., a moderately halophilic bacterium isolated from blutaparon portulacoides roots in Brazil. J. Microbiol. Biotechnol. 12: 1862-1867
  4. Collins, M. D. and D. Jones. 1981. Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implication. Microbiol. Rev. 45: 316-354
  5. Conn, H. J. and I. Dimmick. 1947. Soil bacteria similar in morphology to Mycobacterium and Corynebacterium. J. Bacteriol. 54: 291-303
  6. Funke, G., G. E. Pfyffer, R. A. Hutson, M. D. Collins, K. A. Bernard, and G. Wauters. 1996. Isolation of Arthrobacter spp. from clinical specimens and description of Arthrobacter cumminsii sp. nov. and Arthrobacter woluwensis sp. nov. J. Clin. Microbiol. 34: 2356-2363
  7. Gordon, R. E., W. C. Haynes, and C. H. Pang. 1973. The genus Bacillus. Agricultural Handbook No. 427. USDA, Washington, DC
  8. Gupta, P., G. S. N. Reddy, S. Shivaji, and D. Delille. 2004. Arthrobacter gangotriensis sp. nov. and Arthrobacter kerguelensis sp. nov. from Antarctica. Int. J. Syst. Evol. Microbiol. 54: 2375-2378 https://doi.org/10.1099/ijs.0.63110-0
  9. Heyrman, J., J. Verbeeren, J. Swings, P. De Vos, and P. Schumann. 2005. Six novel Arthrobacter species isolated from deteriorated mural paintings. Int. J. Syst. Evol. Microbiol. 55: 1457-1464 https://doi.org/10.1099/ijs.0.63358-0
  10. Hou, X. G., Y. Kawamura, F. Sultana, S. Shu, K. Hirose, K. Goto, and T. Ezaki. 1998. Description of Arthrobacter creatinolyticus sp. nov., isolated from human urine. Int. J. Syst. Bacteriol. 48: 423-429 https://doi.org/10.1099/00207713-48-2-423
  11. Irlinger, F., J. Delettre, F. Bimet, M. Lefevre, and P. A. D. Grimont. 2005. Arthrobacter bergerei sp. nov. and Arthrobacter arilaitensis sp. nov., novel coryneform species isolated from the surfaces of cheeses. Int. J. Syst. Evol. Microbiol. 55: 457-462 https://doi.org/10.1099/ijs.0.63125-0
  12. Keddie, R. M., M. D. Collins, and D. Jones. 1986. Genus Arthrobacter Conn and Dimmick 1974, pp. 1288-1301. In P. H. Sneath, N. Mair, M. E. Sharpe, and J. G. Holt (eds.). Bergey's Manual of Systematic Bacteriology, Vol. 2, Williams & Wilkins, Baltimore
  13. 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 https://doi.org/10.1007/BF01731581
  14. Koch, C., P. Schumann, and E. Stackebrandt. 1995. Reclassification of Micrococcus agilis (Ali-Cohen 1889) to the genus Arthrobacter as Arthrobacter agilis comb. nov. and emendation of the genus Arthrobacter. Int. J. Syst. Bacteriol. 45: 837-839 https://doi.org/10.1099/00207713-45-4-837
  15. Komagata, K. and K. Suzuki. 1987. Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol. 19: 161-206
  16. Lee, J. S., K. C. Lee, K. S. Bae, and Y. R. Pyun. 2003. Arthrobacter koreensis sp. nov., a novel alkalitolerant bacterium from soil. Int. J. Syst. Evol. Microbiol. 53: 1277-1280 https://doi.org/10.1099/ijs.0.02492-0
  17. Margesin, R., P. Schumann, C. Spröer, and A. M. Gounot. 2004. Arthrobacter psychrophenolicus sp. nov., isolated from an alpine ice cave. Int. J. Syst. Evol. Microbiol. 54: 2067-2072 https://doi.org/10.1099/ijs.0.63124-0
  18. Osorio, C. R., J. L. Barja, R. A. Hutson, and M. D. Collins. 1999. Arthrobacter rhombi sp. nov., isolated from Greenland halibut (Reinhardtius hippoglossoides). Int. J. Syst. Bacteriol. 49: 1217-1220 https://doi.org/10.1099/00207713-49-3-1217
  19. Park, S.-J., C.-H. Kang, and S.-K. Rhee. 2006. Characterization of the microbial diversity in a Korean solar saltern by 16S rRNA gene analysis. J. Microbiol. Biotechnol. 16: 1640-1645
  20. Quan, Z.-X., S.-K. Rhee, J.-W. Bae, J.-H. Baek, Y.-H. Park, and S.-T. Lee. 2006. Bacterial community structure in activated sludge reactors treating free or metal-complexed cyanides. J. Microbiol. Biotechnol. 16: 232-249
  21. Reddy, G. S. N., R. K. Aggarwal, S. Shivaji, and G. I. Matsumoto. 2000. Arthrobacter flavus sp. nov., a psychrophilic bacterium isolated from a pond in McMurdo Dry Valley, Antarctica. Int. J. Syst. Evol. Microbiol. 50: 1553-1561 https://doi.org/10.1099/00207713-50-4-1553
  22. Reddy, G. S. N., J. S. S. Prakash, G. I. Matsumoto, E. Stackebrandt, and S. Shivaji. 2002. Arthrobacter roseus sp. nov., a psychrophilic bacterium isolated from an Antarctic cyanobacterial mat sample. Int. J. Syst. Evol. Microbiol. 52: 1017-1021 https://doi.org/10.1099/ijs.0.02131-0
  23. Rosenthal, R. S. and R. Dziarski. 1994. Isolation of peptidoglycan and soluble peptidoglycan fragments. Methods Enzymol. 235: 253-285 https://doi.org/10.1016/0076-6879(94)35146-5
  24. Saitou, N. and M. Nei. 1987. The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4: 406-425
  25. Sambrook, J., E. F. Fritsch, and T. Maniatis. 1989. Molecular Cloning: A Laboratory Manual, 2nd Ed. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY
  26. Sasser, M. 1990. Identification of bacteria by gas chromatography of cellular fatty acids. DE: MIDI Inc., Newark
  27. Schleifer, K. H. 1986. Family I. Micrococcaceae Prevot, pp. 1003-1008. In P. H. A. Sneath, N. S. Mair, M. E. Sharpe, and J. G. Holt (eds.). Bergey's Manual of Systematic Bacteriology, Vol. 2, Williams & Wilkins, Baltimore
  28. Schleifer, K. H. and O. Kandler. 1972. Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol. Rev. 36: 407-472
  29. Shin, Y. K., J.-S. Lee, C. O. Chun, H.-J. Kim, and Y.-H. Park. 1996. Isoprenoid quinone profiles of the Leclercia adecarboxylate KCTC 1036T. J. Microbiol. Biotechnol. 6: 68-69
  30. Stackebrandt, E., V. J. Fowler, F. Fiedler, and H. Seiler. 1983. Taxonomic studies of Arthrobacter nicotianae and related taxa: Description of Arthrobacter uratoxydans sp. nov. and Arthrobacter sulfureus sp. nov. and reclassification of Brevibacterium protophormiae as Arthrobacter protophormiae comb. nov. Syst. Appl. Microbiol. 4:470-486 https://doi.org/10.1016/S0723-2020(83)80005-8
  31. Stackebrandt, E., C. Koch, O. Gvozdiak, and P. Schumann. 1995. Taxonomic dissection of the genus Micrococcus: Kocuria gen. nov., Nesterenkonia gen. nov., Kytococcus gen. nov., Dermacoccus gen. nov., and Micrococcus Cohn 1872 gen. emend. Int. J. Syst. Bacteriol. 45: 682-692 https://doi.org/10.1099/00207713-45-4-682
  32. Storms, V., R. Coopman, F. Vyncke, M. Gillis, L. A. Devriese, and P. Schumann. 2003. Arthrobacter gandavensis sp. nov., for strains of veterinary origin. Int. J. Syst. Evol. Microbiol. 53: 1881-1884 https://doi.org/10.1099/ijs.0.02353-0
  33. Ten, L. N., W.-T. Im, S.-H. Baek, J.-S. Lee, H.-M. Oh, and S.-T. Lee. 2006. Bacillus ginsengihumi sp. nov., a novel species isolated from soil of a ginseng field in Pocheon province, South Korea. J. Microbiol. Biotechnol. 16: 1554-1560
  34. Ten, L. N., Q.-M. Liu, W.-T. Im, Z. Aslam, and S.-T. Lee. 2006. Sphingobacterium composti sp. nov. a novel DNaseproducing bacterium isolated from compost. J. Microbiol. Biotechnol. 16: 1728-1733
  35. Thompson, J. D., T. J. Gibson, F. Plewniak, F. Jeanmougin, and D. G. Higgins. 1997. The CLUSTAL_X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res. 25: 4876-4882 https://doi.org/10.1093/nar/25.24.4876
  36. Yoon, J. H., S. T. Lee, and Y. H. Park. 1998. Inter- and intraspecific phylogenetic analysis of the genus Nocardioides and related taxa based on 16S rDNA sequences. Int. J. Syst. Bacteriol. 48: 187-194 https://doi.org/10.1099/00207713-48-1-187