1887

Abstract

A novel actinomycete, strain SR2-123, belonging to the genus , was isolated from a soil sample collected from the Sakaerat Environmental Research Station, Thailand Institute of Scientific and Technological Research, Nakhon Ratchasima Province, Thailand. The taxonomic position of the strain was characterized using a polyphasic study. Strain SR2-123 contained -diaminopimelic acid, glucose, mannose and ribose in whole-cell hydrolysates. The -acyl type of muramic acid was acetyl. Menaquinones were MK-9(H), MK-9(H) and MK-9(H). The predominant cellular fatty acids were iso-C, anteiso-C, iso-C, anteiso-C and iso-C. The major polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylinositol, an unknown phospholipid, unknown glycolipids, an unknown aminophospholipid, unknown lipids and an unknown aminolipid. The DNA G+C content was 74.8 mol%. The strain was closely related to JCM 4359 (98.5 %), JCM 4753 (98.5 %), NBRC 12758 (98. 5 %) and JCM 4615 (98.4 %), based on 16S rRNA gene sequence similarities. The novel strain exhibited low DNA–DNA relatedness values with the type strains (11.4–25.0 %) of closely related species. On the basis of phenotypic and genotypic characteristics, strain SR2-123 could be distinguished from closely related species of the genus and represents a novel species of the genus for which the name sp. nov. is proposed. The type strain is SR2-123 (=TISTR 2493=KCTC 39909).

Keyword(s): soil , Streptomyces and xylanase activity
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.002282
2017-10-01
2024-11-09
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/10/4189.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.002282&mimeType=html&fmt=ahah

References

  1. Waksman SA, Henrici AT. The nomenclature and classification of the actinomycetes. J Bacteriol 1943; 46:337–341[PubMed]
    [Google Scholar]
  2. Kämpfer P. Genus I. Streptomyces Waksman and Henrici 1943, 339AL emend. Witt and Stackebrandt 1990, 370 emend. Wellington, Stackebrandt, Sanders, Wolstrup and Jorgensen 1992, 159. In Goodfellow M, Kämpfer P, Busse HJ, Trujillo ME, Suzuki KI et al. (editors) Bergey’s Manual of Systematic Bacteriology Part B, 2nd ed. vol. 5 New York: Springer; 2012 pp. 1455–1767 [Crossref]
    [Google Scholar]
  3. Lechevalier MP, Lechevalier H. Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 1970; 20:435–443 [View Article]
    [Google Scholar]
  4. Bérdy J. Bioactive microbial metabolites. J Antibiot 2005; 58:1–26 [View Article][PubMed]
    [Google Scholar]
  5. Currie CR, Scott JA, Summerbell RC, Malloch D. Fungus-growing ants use antibiotic-producing bacteria to control garden parasites. Nature 1999; 398:701–704 [View Article]
    [Google Scholar]
  6. Mingma R, Duangmal K, Thamchaipenet A, Trakulnaleamsai S, Matsumoto A et al. Streptomyces oryzae sp. nov., an endophytic actinomycete isolated from stems of rice plant. J Antibiot 2015; 68:368–372 [View Article][PubMed]
    [Google Scholar]
  7. Xu LH, Tiang YQ, Zhang YF, Zhao LX, Jiang CL. Streptomyces thermogriseus, a new species of the genus Streptomyces from soil, lake and hot-spring. Int J Syst Bacteriol 1998; 48:1089–1093 [View Article][PubMed]
    [Google Scholar]
  8. Silva FS, Souza DT, Zucchi TD, Pansa CC, de Figueiredo Vasconcellos RL et al. Streptomyces atlanticus sp. nov., a novel actinomycete isolated from marine sponge Aplysina fulva (Pallas, 1766). Antonie van Leeuwenhoek 2016; 109:1467–1474 [View Article][PubMed]
    [Google Scholar]
  9. Phongsopitanun W, Kudo T, Ohkuma M, Pittayakhajonwut P, Suwanborirux K et al. Streptomyces verrucosisporus sp. nov., isolated from marine sediments. Int J Syst Evol Microbiol 2016; 66:3607–3613 [View Article][PubMed]
    [Google Scholar]
  10. Hayakawa M, Nonomura H. Humic acid-vitamin agar, a new medium for the selective isolation of soil actinomycetes. J Ferment Technol 1987; 65:501–509 [View Article]
    [Google Scholar]
  11. Samanta AK, Kolte AP, Senani S, Sridhar M, Jayapal N. A simple and efficient diffusion technique for assay of endo β-1,4-xylanase activity. Braz J Microbiol 2011; 42:1349–1353 [View Article][PubMed]
    [Google Scholar]
  12. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966; 16:313–340 [View Article]
    [Google Scholar]
  13. Kelly KL. Inter-Society Color Council - National Bureau of Standards Color Name Charts Illustrated with Centroid Colors Washington, DC: US Government Printing Office; 1964
    [Google Scholar]
  14. Arai T. Culture Media for Actinomycetes Tokyo: The Society for Actinomycetes Japan; 1975
    [Google Scholar]
  15. Staneck JL, Roberts GD. Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 1974; 28:226–231[PubMed]
    [Google Scholar]
  16. Uchida K, Aida K. An improved method for the glycolate test for simple identification of the acyl type of bacterial cell walls. J Gen Appl Microbiol 1984; 30:131–134 [View Article]
    [Google Scholar]
  17. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2:233–241 [View Article]
    [Google Scholar]
  18. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977; 100:221–230 [View Article][PubMed]
    [Google Scholar]
  19. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc.; 1990
    [Google Scholar]
  20. Tamaoka J, Komagata K. Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 1984; 25:125–128 [View Article]
    [Google Scholar]
  21. Takahashi Y, Matsumoto A, Seino A, Ueno J, Iwai Y et al. Streptomyces avermectinius sp. nov., an avermectin-producing strain. Int J Syst Evol Microbiol 2002; 52:2163–2168 [View Article][PubMed]
    [Google Scholar]
  22. Lane DJ. 16S/23S rRNA sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics Chichester: Wiley; 1991 pp. 115–148
    [Google Scholar]
  23. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y et al. Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 2017; 67:1613–1617 [View Article][PubMed]
    [Google Scholar]
  24. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425[PubMed]
    [Google Scholar]
  25. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
    [Google Scholar]
  26. Kluge AG, Farris JS. Quantitative phyletics and the evolution of anurans. Syst Zool 1969; 18:1–32 [View Article]
    [Google Scholar]
  27. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30:2725–2729 [View Article][PubMed]
    [Google Scholar]
  28. Kimura M. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 1980; 16:111–120 [View Article][PubMed]
    [Google Scholar]
  29. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
    [Google Scholar]
  30. Ezaki T, Hashimoto Y, Yabuuchi E. Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 1989; 39:224–229 [View Article]
    [Google Scholar]
  31. Lechevalier MP, de Bievre C, Lechevalier H. Chemotaxonomy of aerobic actinomycetes: phospholipid composition. Biochem Syst Ecol 1977; 5:249–260 [View Article]
    [Google Scholar]
  32. Wayne LG, Moore WEC, Stackebrandt E, Kandler O, Colwell RR et al. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Evol Microbiol 1987; 37:463–464 [View Article]
    [Google Scholar]
/content/journal/ijsem/10.1099/ijsem.0.002282
Loading
/content/journal/ijsem/10.1099/ijsem.0.002282
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF
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