1887

Abstract

The taxonomic position of an actinomycete, designated SCSIO 00231, isolated from a sediment sample collected from the northern South China Sea, was determined by using a polyphasic approach. The organism formed fragmented substrate hyphae and sparse aerial mycelium on modified ISP 2 medium. Phylogenetic analysis based on the 16S rRNA gene sequence showed that strain SCSIO 00231 fell into the family , in which it formed a distinct lineage and was loosely associated with DSM 44069, with 93 % similarity. The other closest phylogenetic neighbours were NRRL 2338 (92.6 % similarity) and DSM 44468 (93.1 % similarity). The isolate had cell-wall type IV (-diaminopimelic acid and whole-cell sugars arabinose, galactose and glucose) and phospholipid type III. The predominant menaquinone was MK-9(H). The G+C content of the genomic DNA was 69 mol%. Based on these data, strain SCSIO 00231 can be readily distinguished from previously described organisms and represents a new genus within the family . The name gen. nov. is proposed, with the novel species sp. nov. The type strain of is SCSIO 00231 (=KCTC 19433 =CCTCC AA208009).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.001982-0
2009-02-01
2024-03-28
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/59/2/222.html?itemId=/content/journal/ijsem/10.1099/ijs.0.001982-0&mimeType=html&fmt=ahah

References

  1. Al-Zarban, S. S., Al-Musallam, A. A., Abbas, I., Stackebrandt, E. & Kroppenstedt, R. M.(2002).Saccharomonospora halophila sp. nov., a novel halophilic actinomycete isolated from marsh soil in Kuwait. Int J Syst Evol Microbiol 52, 555–558. [Google Scholar]
  2. 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]
  3. Felsenstein, J.(1985). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39, 783–791.[CrossRef] [Google Scholar]
  4. Fenical, W. & Jensen, P. R.(2006). Developing a new resource for drug discovery: marine actinomycete bacteria. Nat Chem Biol 2, 666–673.[CrossRef] [Google Scholar]
  5. Fiedler, H. P., Bruntner, C., Bull, A. T., Ward, A. C., Goodfellow, M., Potterat, O., Puder, C. & Mihm, G.(2005). Marine actinomycetes as a source of novel secondary metabolites. Antonie van Leeuwenhoek 87, 37–42.[CrossRef] [Google Scholar]
  6. Gontang, E. A., Fenical, W. & Jensen, P. R.(2007). Phylogenetic diversity of Gram-positive bacteria cultured from marine sediments. Appl Environ Microbiol 73, 3272–3282.[CrossRef] [Google Scholar]
  7. Gonzalez, C., Gutierrez, C. & Ramirez, C.(1978).Halobacterium vallismortis sp. nov., an amylolytic and carbohydrate-metabolizing, extremely halophilic bacterium. Can J Microbiol 24, 710–715.[CrossRef] [Google Scholar]
  8. Goodfellow, M., Kim, S. B., Minnikin, D. E., Whitehead, D., Zhou, Z. H. & Mattinson-Rose, A. D.(2001).Amycolatopsis sacchari sp. nov., a moderately thermophilic actinomycete isolated from vegetable matter. Int J Syst Evol Microbiol 51, 187–193. [Google Scholar]
  9. Groth, I., Rodríguez, C., Schütze, B., Schmitz, P., Leistner, E. & Goodfellow, M.(2004). Five novel Kitasatospora species from soil: Kitasatospora arboriphila sp. nov., K. gansuensis sp. nov., K. nipponensis sp. nov., K. paranensis sp. nov. and K. terrestris sp. nov. Int J Syst Evol Microbiol 54, 2121–2129.[CrossRef] [Google Scholar]
  10. Jensen, P. R., Mincer, T. J., Williams, P. G. & Fenical, W.(2005a). Marine actinomycete diversity and natural product discovery. Antonie van Leeuwenhoek 87, 43–48.[CrossRef] [Google Scholar]
  11. Jensen, P. R., Gontang, E., Mafnas, C., Mincer, T. J. & Fenical, W.(2005b). Culturable marine actinomycete diversity from tropical Pacific Ocean sediments. Environ Microbiol 7, 1039–1048.[CrossRef] [Google Scholar]
  12. Jiang, Y., Wiese, J., Tang, S. K., Xu, L. H., Imhoff, J. F. & Jiang, C. L.(2008).Actinomycetospora chiangmaiensis gen. nov., sp. nov., a new member of the family Pseudonocardiaceae. Int J Syst Evol Microbiol 58, 408–413.[CrossRef] [Google Scholar]
  13. Kelly, K. L.(1964).Inter-Society Color CouncilNational Bureau of Standards Color Name Charts Illustrated with Centroid Colors. Washington, DC: US Government Printing Office.
  14. 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]
  15. Kimura, M.(1983).The Neutral Theory of Molecular Evolution. Cambridge: Cambridge University Press.
  16. Korn-Wendisch, F., Kempf, A., Grund, E., Kroppenstedt, R. M. & Kutzner, H. J.(1989). Transfer of Faenia rectivirgula Kurup and Agre 1983 to the genus Saccharopolyspora Lacey and Goodfellow 1975, elevation of Saccharopolyspora hirsuta subsp. taberi Labeda 1987 to species level, and emended description of the genus Saccharopolyspora. Int J Syst Bacteriol 39, 430–441.[CrossRef] [Google Scholar]
  17. Korn-Wendisch, F., Rainey, F., Kroppenstedt, R. M., Kempf, A., Majazza, A., Kutzner, H. J. & Stackebrandt, E.(1995).Thermocrispum gen. nov., a new genus of the order Actinomycetales, and description of Thermocrispum municipale sp. nov. and Thermocrispum agreste sp. nov. Int J Syst Bacteriol 45, 67–77.[CrossRef] [Google Scholar]
  18. Kroppenstedt, R. M.(1982). Separation of bacterial menaquinones by HPLC using reverse phase (RP18) and a silver loaded ion exchanger as stationary phases. J Liq Chromatogr 5, 2359–2367.[CrossRef] [Google Scholar]
  19. Kroppenstedt, R. M., Korn-Wendisch, F., Fowler, V. J. & Stackebrandt, E.(1981). Biochemical and molecular genetic evidence for a transfer of Actinoplanes armeniacus into the family Streptomycetaceae. Zentralbl Bakteriol Mikrobiol Hyg 1 Abt Orig C 2, 254–262. [Google Scholar]
  20. Laatsch, H.(2006). Marine bacterial metabolites. In Frontiers in Marine Biotechnology, pp. 225–288. Edited by P. Proksch & W. E. G. Müller. Wymondham, UK: Horizon Bioscience.
  21. Lam, K. S.(2006). Discovery of novel metabolites from marine actinomycetes. Curr Opin Microbiol 9, 245–251.[CrossRef] [Google Scholar]
  22. Lechevalier, M. P., De Bièvre, C. & Lechevalier, H. A.(1977). Chemotaxonomy of aerobic actinomycetes: phospholipid composition. Biochem Syst Ecol 5, 249–260.[CrossRef] [Google Scholar]
  23. Lee, S. D., Kim, E. S., Kang, S. O. & Hah, Y. C.(2002).Pseudonocardia spinosispora sp. nov., isolated from Korean soil. Int J Syst Evol Microbiol 52, 1603–1608.[CrossRef] [Google Scholar]
  24. Li, W.-J., Xu, P., Schumann, P., Zhang, Y.-Q., Pukall, R., Xu, L.-H., Stackebrandt, E. & Jiang, C.-L.(2007).Georgenia ruanii sp. nov., a novel actinobacterium isolated from forest soil in Yunnan (China), and emended description of the genus Georgenia. Int J Syst Evol Microbiol 57, 1424–1428.[CrossRef] [Google Scholar]
  25. Majumdar, S., Prabhagaran, S. R., Shivaji, S. & Lal, R.(2006). Reclassification of Amycolatopsis orientalis DSM 43387 as Amycolatopsis benzoatilytica sp. nov. Int J Syst Evol Microbiol 56, 199–204.[CrossRef] [Google Scholar]
  26. Maldonado, L. A., Stach, J. E. M., Pathom-aree, W., Ward, A. C., Bull, A. T. & Goodfellow, M.(2005). Diversity of cultivable actinobacteria in geographically widespread marine sediments. Antonie van Leeuwenhoek 87, 11–18.[CrossRef] [Google Scholar]
  27. Mertz, F. P. & Yao, R. C.(1993).Amycolatopsis alba sp. nov., isolated from soil. Int J Syst Bacteriol 43, 715–720.[CrossRef] [Google Scholar]
  28. 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]
  29. 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]
  30. 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]
  31. Saitou, N. & Nei, M.(1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425. [Google Scholar]
  32. Sasser, M.(1990). Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 20, 16 [Google Scholar]
  33. Schleifer, K. H.(1985). Analysis of the chemical composition and primary structure of murein. Methods Microbiol 18, 123–156. [Google Scholar]
  34. Schleifer, K. H. & Kandler, O.(1972). Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36, 407–477. [Google Scholar]
  35. Shirling, E. B. & Gottlieb, D.(1966). Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16, 313–340.[CrossRef] [Google Scholar]
  36. Smibert, R. M. & Krieg, N. R.(1981). General characterization. In Manual of Methods for General Bacteriology, pp. 409–443. Edited by P. Gerhardt, R. G. E. Murray, R. N. Costilow, E. W. Nester, W. A. Wood, N. R. Krieg & G. B. Phillips. Washington, DC: American Society for Microbiology.
  37. Stach, J. E. M., Maldonado, L. A., Ward, A. C., Goodfellow, M. & Bull, A. T.(2003). New primers for the class Actinobacteria: application to marine and terrestrial environments. Environ Microbiol 5, 828–841.[CrossRef] [Google Scholar]
  38. 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]
  39. Staneck, J. L. & Roberts, G. D.(1974). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28, 226–231. [Google Scholar]
  40. Tamura, K., Dudley, J., Nei, M. & Kumar, S.(2007).mega4: molecular evolutionary genetics analysis (mega) software version 4.0. Mol Biol Evol 24, 1596–1599.[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. Tomita, K., Hoshino, Y. & Miyaki, T.(1993).Kibdelosporangium albatum sp. nov., producer of the antiviral antibiotics cycloviracins. Int J Syst Bacteriol 43, 297–301.[CrossRef] [Google Scholar]
  43. Waksman, S. A.(1961).The Actinomycetes, vol. II, Classification, Identification and Description of Genera and Species. Baltimore: Williams & Wilkins.
  44. Xu, P., Li, W. J., Tang, S. K., Zhang, Y. Q., Chen, G. Z., Chen, H. H., Xu, L. H. & Jiang, C. L.(2005).Naxibacter alkalitolerans gen. nov., sp. nov., a novel member of the family Oxalobacteraceae isolated from China. Int J Syst Evol Microbiol 55, 1149–1153.[CrossRef] [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.001982-0
Loading
/content/journal/ijsem/10.1099/ijs.0.001982-0
Loading

Data & Media loading...

Supplements

Scanning electron micrographs showing fragmented substrate mycelium and sparse aerial mycelium of gen. nov., sp. nov. SCSIO 00231 after incubation on modified ISP 2 medium for 4 weeks at 28 °C.

IMAGE

Scanning electron micrographs showing fragmented substrate mycelium and sparse aerial mycelium of gen. nov., sp. nov. SCSIO 00231 after incubation on modified ISP 2 medium for 4 weeks at 28 °C.

IMAGE
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