1887

Abstract

A novel actinobacterium, designated strain C4-31, was isolated from soil collected from a cave. Cells were aerobic, Gram-reaction-positive, oxidase-negative, catalase-positive and non-motile cocci. Comparison of 16S rRNA gene sequences showed that the organism occupied a distinct phylogenetic position within the suborder , with sequence similarity values of less than 93.2 % to members of this suborder. The diagnostic diamino acid in the cell-wall peptidoglycan was -diaminopimelic acid. The major menaquinone was MK-9(H). The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol, phosphatidylinositol mannoside, an unknown aminophospholipid and an unknown phospholipid. The major fatty acids were iso-C, Cω6 and C. The G+C content of the DNA was 62.8 mol%. On the basis of morphological and chemotaxonomic data as well as phylogenetic evidence, strain C4-31 ( = KCTC 39556 = DSM 100065) is considered to represent the type strain of a novel species of a new genus in the suborder , for which the name gen. nov., sp. nov. is proposed.

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2015-12-01
2024-04-25
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References

  1. Ahrens R., Moll G. ( 1970;). Ein neues knospendes Bakterium aus der Ostee. Arch Mikrobiol 70 243265 [View Article] [PubMed].
    [Google Scholar]
  2. Brunchorst J. ( 1886;). Über einige Wurzelanschwellungen besonders diejenigen von Alnus und den Elaeagnaceen. Bot Inst Tubingen 2 151177.
    [Google Scholar]
  3. Carlsohn M. R., Groth I., Saluz H.-P., Schumann P., Stackebrandt E. ( 2008;). Fodinicola feengrottensis gen. nov., sp. nov., an actinomycete isolated from a medieval mine. Int J Syst Evol Microbiol 58 15291536 [View Article] [PubMed].
    [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 221230 [View Article] [PubMed].
    [Google Scholar]
  5. Felsenstein J. ( 1981;). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17 368376 [View Article] [PubMed].
    [Google Scholar]
  6. Felsenstein J. ( 1985;). Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39 783791 [View Article].
    [Google Scholar]
  7. Fitch W. M. ( 1971;). Towards defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20 406416 [View Article].
    [Google Scholar]
  8. Jukes T. H., Cantor C. R. ( 1969;). Evolution of protein molecules. . In Mammalian Protein Metabolism, pp. 21132. Edited by Munro H. N. New York: Academic Press; [View Article].
    [Google Scholar]
  9. Kim K. K., Lee K. C., Lee J.-S. ( 2012a;). Nakamurella panacisegetis sp. nov. and proposal for reclassification of Humicoccus flavidus Yoon et al., 2007 and Saxeibacter lacteus Lee et al., 2008 as Nakamurella flavida comb. nov. and Nakamurella lactea comb. nov. Syst Appl Microbiol 35 291296 [View Article] [PubMed].
    [Google Scholar]
  10. Kim O. S., Cho Y. J., Lee K., Yoon S. H., Kim M., Na H., Park S. C., Jeon Y. S., Lee J. H., other authors. ( 2012b;). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62 716721 [View Article] [PubMed].
    [Google Scholar]
  11. 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. 173199. Edited by Goodfellow M., Minnikin D. E. London: Academic Press;.
    [Google Scholar]
  12. Lane D. J. ( 1991;). 16S/23S rRNA sequencing. . In Nucleic Acid Techniques in Bacterial Systematics, pp. 115175. Edited by Stackebrandt E., Goodfellow M. Chichester: Wiley;.
    [Google Scholar]
  13. Lechevalier M. P. ( 1994;). Taxonomy of the genus Frankia (Actinomycetales). Int J Syst Bacteriol 44 18 [View Article].
    [Google Scholar]
  14. Lechevalier M. P., Lechevalier H., Holbert P. E. ( 1968;). Sporichthya, un nouveau genre de Streptomycetaceae . Ann Inst Pasteur (Paris) 114 277286 [PubMed].
    [Google Scholar]
  15. Lee S. D. ( 2006;). Actinocorallia cavernae sp. nov., isolated from a natural cave in Jeju, Korea. Int J Syst Evol Microbiol 56 10851088 [View Article] [PubMed].
    [Google Scholar]
  16. Lee S. D. ( 2008;). Jiangella alkaliphila sp. nov., an actinobacterium isolated from a cave. Int J Syst Evol Microbiol 58 11761179 [View Article] [PubMed].
    [Google Scholar]
  17. Lee S. D. ( 2012;). Motilibacter peucedani gen. nov., sp. nov., isolated from rhizosphere soil. Int J Syst Evol Microbiol 62 315321 [View Article] [PubMed].
    [Google Scholar]
  18. Lee S. D. ( 2013;). Proposal of Motilibacteraceae fam. nov., with the description of Motilibacter rhizosphaerae sp. nov. Int J Syst Evol Microbiol 63 38183822 [View Article] [PubMed].
    [Google Scholar]
  19. Lee S. D., Park S. K., Yun Y.-W., Lee D. W. ( 2008;). Saxeibacter lacteus gen. nov., sp. nov., an actinobacterium isolated from rock. Int J Syst Evol Microbiol 58 906909 [View Article] [PubMed].
    [Google Scholar]
  20. Luedemann G. M. ( 1968;). Geodermatophilus, a new genus of the Dermatophilaceae (Actinomycetales). J Bacteriol 96 18481858 [PubMed].
    [Google Scholar]
  21. Luedemann G. M., Fonseca A. F. ( 1989;). Genus Geodermatophilus Luedemann 1968, 1857AL . . In Bergey's Manual of Systematic Bacteriology, vol. 4, pp. 24062409. Edited by Williams S. T., Sharpe M. E., Holt J. G. Baltimore, MD: Williams & Wilkins;.
    [Google Scholar]
  22. Madhaiyan M., Hu C. J., Kim S.-J., Weon H.-Y., Kwon S.-W., Ji L. ( 2013;). Jatrophihabitans endophyticus gen. nov., sp. nov., an endophytic actinobacterium isolated from a surface-sterilized stem of Jatropha curcas L. Int J Syst Evol Microbiol 63 12411248 [View Article] [PubMed].
    [Google Scholar]
  23. 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 159167 [View Article].
    [Google Scholar]
  24. Mevs U., Stackebrandt E., Schumann P., Gallikowski C. A., Hirsch P. ( 2000;). Modestobacter multiseptatus gen. nov., sp. nov., a budding actinomycete from soils of the Asgard Range (Transantarctic Mountains). Int J Syst Evol Microbiol 50 337346 [View Article] [PubMed].
    [Google Scholar]
  25. Minnikin D. E., Patel P. V., Alshamaony L., Goodfellow M. ( 1977;). Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 27 104117 [View Article].
    [Google Scholar]
  26. Minnikin D. E., Hutchinson I. G., Caldicott A. B., Goodfellow M. ( 1980;). Thin layer chromatography of methanolysates of mycolic acid-containing bacteria. J Chromatogr A 188 221233 [View Article].
    [Google Scholar]
  27. 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 233241 [View Article].
    [Google Scholar]
  28. Mirza M. S., Janse J. D., Hahn D., Akkermans A. D. L. ( 1991;). Identification of atypical Frankia strains by fatty acid analysis. FEMS Microbiol Lett 83 9198 [View Article].
    [Google Scholar]
  29. Mohagheghi A., Grohmann K., Himmel M., Leighton L., Updegraff D. M. ( 1986;). Isolation and characterization of Acidothermus cellulolyticus gen. nov., sp. nov., a new genus of thermophilic, acidophilic, cellulolytic bacteria. Int J Syst Bacteriol 36 435443 [View Article].
    [Google Scholar]
  30. Rainey F. A., Schumann P., Prauser H., Toalster R., Stackebrandt E. ( 1993;). Sporichthya polymorpha represents a novel line of descent within the order Actinomycetales . FEMS Microbiol Lett 109 263267 [View Article].
    [Google Scholar]
  31. Saitou N., Nei M. ( 1987;). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4 406425 [PubMed].
    [Google Scholar]
  32. Seo J. P., Yun Y.-W., Lee S. D. ( 2007;). Nocardia speluncae sp. nov., isolated from a cave. Int J Syst Evol Microbiol 57 29322935 [View Article] [PubMed].
    [Google Scholar]
  33. Shirling E. B., Gottlieb D. ( 1966;). Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16 313340 [View Article].
    [Google Scholar]
  34. 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 479491 [View Article].
    [Google Scholar]
  35. Staneck J. L., Roberts G. D. ( 1974;). Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28 226231 [PubMed].
    [Google Scholar]
  36. Tamura T., Hayakawa M., Hatano K. ( 1998;). A new genus of the order Actinomycetales, Cryptosporangium gen. nov., with descriptions of Cryptosporangium arvum sp. nov. and Cryptosporangium japonicum sp. nov. Int J Syst Bacteriol 48 9951005 [View Article] [PubMed].
    [Google Scholar]
  37. Tamura T., Hayakawa M., Hatano K. ( 1999;). Sporichthya brevicatena sp. nov. Int J Syst Bacteriol 49 17791784 [View Article] [PubMed].
    [Google Scholar]
  38. Tao T.-S., Yue Y.-Y., Chen W.-X., Chen W.-F. ( 2004;). Proposal of Nakamurella gen. nov. as a substitute for the bacterial genus Microsphaera Yoshimi et al. 1996 and Nakamurellaceae fam. nov. as a substitute for the illegitimate bacterial family Microsphaeraceae Rainey et al. 1997. Int J Syst Evol Microbiol 54 9991000 [View Article] [PubMed].
    [Google Scholar]
  39. 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 48764882 [View Article] [PubMed].
    [Google Scholar]
  40. Urzı` C., Salamone P., Schumann P., Rohde M., Stackebrandt E. ( 2004;). Blastococcus saxobsidens sp. nov., and emended descriptions of the genus Blastococcus Ahrens and Moll 1970 and Blastococcus aggregatus Ahrens and Moll 1970. Int J Syst Evol Microbiol 54 253259 [View Article] [PubMed].
    [Google Scholar]
  41. Yoon J.-H., Kang S.-J., Jung S.-Y., Oh T.-K. ( 2007;). Humicoccus flavidus gen. nov., sp. nov., isolated from soil. Int J Syst Evol Microbiol 57 5659 [View Article] [PubMed].
    [Google Scholar]
  42. Yoshimi Y., Hiraishi A., Nakamura K. ( 1996;). Isolation and characterization of Microsphaera multipartida gen. nov., sp. nov., a polysaccharide-accumulating Gram-positive bacterium from activated sludge. Int J Syst Bacteriol 46 519525 [View Article].
    [Google Scholar]
  43. Zhang Y.-Q., Chen J., Liu H.-Y., Zhang Y.-Q., Li W.-J., Yu L.-Y. ( 2011;). Geodermatophilus ruber sp. nov., isolated from rhizosphere soil of a medicinal plant. Int J Syst Evol Microbiol 61 190193 [View Article] [PubMed].
    [Google Scholar]
  44. Zhi X.-Y., Li W.-J., Stackebrandt E. ( 2009;). An update of the structure and 16S rRNA gene sequence-based definition of higher ranks of the class Actinobacteria, with the proposal of two new suborders and four new families and emended descriptions of the existing higher taxa. Int J Syst Evol Microbiol 59 589608 [View Article] [PubMed].
    [Google Scholar]
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