Skip to content
1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo International Journal of Systematic and Evolutionary Microbiology

Volume 59, Issue 9

gen. nov., sp. nov., an actinobacterium isolated from a salt mine Free

Abstract

A Gram-positive-staining, aerobic, catalase- and oxidase-positive, irregular short rod-shaped actinobacterium, designated strain YIM C003, was isolated from a salt mine in Yunnan, PR China. Phylogenetic analysis based on 16S rRNA gene sequences showed that strain YIM C003 was most closely related to strains of the genera (94.2–96.0 % similarity), (95.6 %), (94.9–95.4 %), (94.9–95.4 %), (95.0 %), (95.0 %) and (94.2–95.0 %) of the family and that it formed an independent monophyletic lineage with three strains of . The DNA G+C content of strain YIM C003 was 72.0 mol%. The diagnostic cell-wall diamino acid was -diaminopimelic acid. The predominant menaquinone was MK-8(H). Mycolic acids were not detected. The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and two unknown phospholipids. The major cellular fatty acids were C 9 and C. These chemotaxonomic properties, together with data from phylogenetic analysis, enabled the novel isolate to be differentiated from all other members of the family. A novel species in a new genus, gen. nov., sp. nov., is proposed, with strain YIM C003 (=DSM 21208 =CCTCC AA 208036) as the type strain of .

  • Published Online:
Keyword(s): DAP, diaminopimelic acid
© SGM
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.006882-0
2009-09-01
2025-04-22
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/59/9/2185.html?itemId=/content/journal/ijsem/10.1099/ijs.0.006882-0&mimeType=html&fmt=ahah

References

  1. Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J.(1990). Basic local alignment search tool. J Mol Biol 215, 403–410.[CrossRef] [Google Scholar]
  2. Becker, B., Lechevalier, M. P. & Lechevalier, H. A.(1965). Chemical composition of cell-wall preparation from strains of various form-genera of aerobic actinomycetes. Appl Microbiol 13, 236–243. [Google Scholar]
  3. Collins, M. D. & Jones, D.(1980). Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2,4-diaminobutyric acid. J Appl Bacteriol 48, 459–470.[CrossRef] [Google Scholar]
  4. Collins, M. D., Pirouz, T., Goodfellow, M. & Minnikin, D. E.(1977). Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100, 221–230.[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. Collins, M. D., Routh, J., Saraswathy, A., Lawson, P. A., Schumann, P., Welinder-Olsson, C. & Falsen, E.(2004).Arsenicicoccus bolidensis gen. nov., sp. nov., a novel actinomycete isolated from contaminated lake sediment. Int J Syst Evol Microbiol 54, 605–608.[CrossRef] [Google Scholar]
  7. Cowan, S. T. & Steel, K. J.(1965).Manual for the Identification of Medical Bacteria. London: Cambridge University Press.
  8. Cui, X. L., Mao, P. H., Zeng, M., Li, W. J., Zhang, L. P., Xu, L. H. & Jiang, C. L.(2001).Streptimonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae. Int J Syst Evol Microbiol 51, 357–363. [Google Scholar]
  9. Felsenstein, J.(1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef] [Google Scholar]
  10. 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]
  11. Gregersen, T.(1978). Rapid method for distinction of Gram-negative from Gram-positive bacteria. Eur J Appl Microbiol Biotechnol 5, 123–127.[CrossRef] [Google Scholar]
  12. 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]
  13. Groth, I., Schumann, P., Weiss, N., Schuetze, B., Augsten, K. & Stackebrandt, E.(2001).Ornithinimicrobium humiphilum gen. nov., sp. nov., a novel soil actinomycete with l-ornithine in the peptidoglycan. Int J Syst Evol Microbiol 51, 81–87. [Google Scholar]
  14. Groth, I., Schumann, P., Schütze, B., Augsten, K. & Stackebrandt, E.(2002).Knoellia sinensis gen. nov., sp. nov. and Knoellia subterranean sp. nov., two novel actinobacteria isolated from a cave. Int J Syst Evol Microbiol 52, 77–84. [Google Scholar]
  15. 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]
  16. Imamura, Y., Ikeda, M., Yoshida, S. & Kuraishi, H.(2000).Janibacter brevis sp. nov., a new trichloroethylene-degrading bacterium isolated from polluted environments. Int J Syst Evol Microbiol 50, 1899–1903. [Google Scholar]
  17. Jung, S. Y., Kim, H. S., Song, J. J., Lee, S. G., Oh, T. K. & Yoon, J. H.(2006).Kribbia dieselivorans gen. nov., sp. nov., a novel member of the family Intrasporangiaceae. Int J Syst Evol Microbiol 56, 2427–2432.[CrossRef] [Google Scholar]
  18. Kageyama, A., Takahashi, Y., Seki, T., Tomoda, H. & Ōmura, S.(2005).Oryzihumus leptocrescens gen. nov., sp. nov. Int J Syst Evol Microbiol 55, 2555–2559.[CrossRef] [Google Scholar]
  19. Kageyama, A., Takahashi, Y. & Ōmura, S.(2007).Humihabitans oryzae gen. nov., sp. nov. Int J Syst Evol Microbiol 57, 2163–2166.[CrossRef] [Google Scholar]
  20. Kalakoutskii, L. V., Kirillova, I. P. & Krasil'nikov, N. A.(1967). A new genus of the Actinomycetales – Intrasporangium gen. nov. J Gen Microbiol 48, 79–85.[CrossRef] [Google Scholar]
  21. 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]
  22. Kimura, M.(1983).TheNeutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
  23. Kovacs, N.(1956). Identification of Pseudomonas pyocyanea by oxidase reaction. Nature 178, 703 [Google Scholar]
  24. Lee, S. D.(2006).Phycicoccus jejuensis gen. nov., sp. nov., an actinomycete isolated from seaweed. Int J Syst Evol Microbiol 56, 2369–2373.[CrossRef] [Google Scholar]
  25. Lee, S. D. & Lee, D. W.(2007).Lapillicoccus jejuensis gen. nov., sp. nov., a novel actinobacterium of the family Intrasporangiaceae, isolated from stone. Int J Syst Evol Microbiol 57, 2794–2798.[CrossRef] [Google Scholar]
  26. Lee, J. E., Seo, J. P., Lee, D. W., Ko, Y. H. & Lee, S. D.(2008).Terrabacter lapilli sp. nov., an actinomycete isolated from stone. Int J Syst Evol Microbiol 58, 1084–1088.[CrossRef] [Google Scholar]
  27. 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]
  28. 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]
  29. 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]
  30. Minnikin, D. E., Alshamaony, L. & Goodfellow, M.(1975). Differentiation of Mycobacterium, Nocardia, and related taxa by thin-layer chromatographic analysis of whole-organism methanolysates. J Gen Microbiol 88, 200–204.[CrossRef] [Google Scholar]
  31. Minnikin, D. E., Collins, M. D. & Goodfellow, M.(1979). Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. J Appl Bacteriol 47, 87–95.[CrossRef] [Google Scholar]
  32. Montero-Barrientos, M., Rivas, R., Velázquez, E., Monte, E. & Roig, M. G.(2005).Terrabacter terrae sp. nov., a novel actinomycete isolated from soil in Spain. Int J Syst Evol Microbiol 55, 2491–2495.[CrossRef] [Google Scholar]
  33. 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]
  34. Pridham, T. G. & Gottlieb, D.(1948). The utilization of carbon compounds by some actinomycetales as an aid for species determination. J Bacteriol 56, 107–114. [Google Scholar]
  35. Saitou, N. & Nei, M.(1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425. [Google Scholar]
  36. Sasser, M.(1990). Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 20, 16 [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. 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]
  39. Stackebrandt, E., Rainey, F. A. & Ward-Rainey, N. L.(1997). Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 47, 479–491.[CrossRef] [Google Scholar]
  40. Tamaoka, J., Katayama-Fujimura, Y. & Kuraishi, H.(1983). Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. J Appl Bacteriol 54, 31–36.[CrossRef] [Google Scholar]
  41. 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]
  42. Weon, H. Y., Kim, B. Y., Schumann, P., Kroppenstedt, R. M., Noh, H. J., Park, C. W. & Kwon, S. W.(2007).Knoellia aerolata sp. nov., isolated from an air sample in Korea. Int J Syst Evol Microbiol 57, 2861–2864.[CrossRef] [Google Scholar]
  43. Yi, H., Schumann, P., Sohn, K. & Chun, J.(2004).Serinicoccus marinus gen. nov., sp. nov., a novel actinomycete with l-ornithine and l-serine in the peptidoglycan. Int J Syst Evol Microbiol 54, 1585–1589.[CrossRef] [Google Scholar]
  44. 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]
  45. 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]
  46. Yoon, J. H., Lee, S. Y., Kang, S. J. & Oh, T. K.(2008).Phycicoccus dokdonensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 58, 597–600.[CrossRef] [Google Scholar]
/content/journal/ijsem/10.1099/ijs.0.006882-0
Loading
Fodinibacter luteus gen. nov., sp. nov., an actinobacterium isolated from a salt mine
Int J Syst Evol Microbiol 59, 2185 (2009); https://doi.org/10.1099/ijs.0.006882-0
/content/journal/ijsem/10.1099/ijs.0.006882-0
/content/journal/ijsem/10.1099/ijs.0.006882-0
Loading

Data & Media loading...

Supplements

vol. , part 9, pp. 2185 - 2190

Transmission electron micrograph of cells of strain YIM C003 grown on GTM agar medium for 7 days at 28 °C. Bar, 1 µm.

IMAGE

Most cited Most Cited RSS feed

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