1887

INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 68, Issue 11

Streptomyces durbertensis sp. nov., isolated from saline–alkali soil Free

Abstract

A novel strain of actinobacteria, designated NEAU-S1GS20, was isolated from a saline–alkali soil collected from Heilongjiang Province, north-east China, and characterized using a polyphasic approach. Strain NEAU-S1GS20 exhibited morphological, cultural and chemotaxonomic features consistent with its classification as representing a member of the genus Streptomyces . Growth occurred at 18‒45 °C, at pH 6.0‒10.0 and in the presence of 10 % (w/v) NaCl. Whole-cell hydrolysates mainly contained glucose and ribose. The predominant menaquinones were MK–9(H4) and MK–9(H6). The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylinositol and two unidentified phospholipids. The major cellular fatty acids (>10 %) were iso-C16 : 0, iso-C17 : 0, anteiso-C17 : 0 and C16 : 0. The G+C content of the DNA was 72.8 mol%. A phylogenetic tree based on 16S rRNA gene sequences showed that strain NEAU-S1GS20 formed a distinct clade within the genus Streptomyces and was closely related to Streptomyces xinghaiensis CCTCC AA 208049 (98.4 % similarity), Streptomyces chumphonensis JCM 18522 (98.1 %) and Streptomyces palmae JCM 31289 (98.1 %). Multilocus sequence analysis (MLSA) using five housekeeping genes (atpD, gyrB, recA, rpoB and trpB) showed that the MLSA distance of strain NEAU-S1GS20 to the most closely related species was greater than the 0.007 threshold. A combination of DNA–DNA hybridization results and differences in certain phenotypic characteristics demonstrated that strain NEAU-S1GS20 could be distinguished from its closest phylogenetic relatives. Therefore, strain NEAU-S1GS20 represents a novel species of the genus Streptomyces , for which the name Streptomyces durbertensis sp. nov. is proposed. The type strain is NEAU-S1GS20 (=CCTCC AA 2017006=DSM 104538).

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): MLSA , saline-alkali soil and Streptomyces durbertensis
© 2018 IUMS
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003047
2018-10-10
2024-04-23
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/68/11/3635.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.003047&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. Antony-Babu S, Goodfellow M. Biosystematics of alkaliphilic streptomycetes isolated from seven locations across a beach and dune sand system. Antonie van Leeuwenhoek 2008; 94:581–591 [View Article][PubMed]
     [Google Scholar]
  3. Okoro CK, Brown R, Jones AL, Andrews BA, Asenjo JA et al. Diversity of culturable actinomycetes in hyper-arid soils of the Atacama Desert, Chile. Antonie van Leeuwenhoek 2009; 95:121–133 [View Article][PubMed]
     [Google Scholar]
  4. Antony-Babu S, Stach JE, Goodfellow M. Computer-assisted numerical analysis of colour-group data for dereplication of streptomycetes for bioprospecting and ecological purposes. Antonie van Leeuwenhoek 2010; 97:231–239 [View Article][PubMed]
     [Google Scholar]
  5. Goodfellow M, Fiedler HP. A guide to successful bioprospecting: informed by actinobacterial systematics. Antonie van Leeuwenhoek 2010; 98:119–142 [View Article][PubMed]
     [Google Scholar]
  6. Kim BY, Zucchi TD, Fiedler HP, Goodfellow M. Streptomyces cocklensis sp. nov., a dioxamycin-producing actinomycete. Int J Syst Evol Microbiol 2012; 62:279–283 [View Article][PubMed]
     [Google Scholar]
  7. Veyisoglu A, Tatar D, Cetin D, Guven K, Sahin N. Streptomyces karpasiensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2014; 64:827–832 [View Article][PubMed]
     [Google Scholar]
  8. Duan YY, Ming H, Dong L, Yin YR, Zhang Y et al. Streptomyces calidiresistens sp. nov., isolated from a hot spring sediment. Antonie van Leeuwenhoek 2014; 106:189–196 [View Article][PubMed]
     [Google Scholar]
  9. Kurtböke DI. Biodiscovery from rare actinomycetes: an eco-taxonomical perspective. Appl Microbiol Biotechnol 2012; 93:1843–1852 [View Article][PubMed]
     [Google Scholar]
  10. Tiwari K, Gupta RK. Rare actinomycetes: a potential storehouse for novel antibiotics. Crit Rev Biotechnol 2012; 32:108–132 [View Article][PubMed]
     [Google Scholar]
  11. Hamedi J, Mohammadipanah F, Ventosa A. Systematic and biotechnological aspects of halophilic and halotolerant actinomycetes. Extremophiles 2013; 17:1–13 [View Article][PubMed]
     [Google Scholar]
  12. Lai H, Wei X, Jiang Y, Chen X, Li Q et al. Halopolyspora alba gen. nov., sp. nov., isolated from sediment. Int J Syst Evol Microbiol 2014; 64:2775–2780 [View Article][PubMed]
     [Google Scholar]
  13. Pan T, He H, Li C, Zhao J, Zhang Y et al. Streptomyces daqingensis sp. nov., isolated from saline-alkaline soil. Int J Syst Evol Microbiol 2016; 66:1358–1363 [View Article][PubMed]
     [Google Scholar]
  14. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966; 16:313–340 [View Article]
     [Google Scholar]
  15. Waksman SA. The Actinomycetes. A Summary of Current Knowledge New York: Ronald; 1967
     [Google Scholar]
  16. 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]
  17. Williams ST, Goodfellow M, Alderson G, Wellington EM, Sneath PH et al. Numerical classification of Streptomyces and related genera. J Gen Microbiol 1983; 129:1743–1813 [View Article][PubMed]
     [Google Scholar]
  18. Kampfer P, Kroppenstedt RM, Dott W. A numerical classification of the genera Streptomyces and Streptoverticillium using miniaturized physiological tests. J Gen Microbiol 1991; 137:1831–1891 [View Article]
     [Google Scholar]
  19. Smibert RM, Krieg NR. Phenotypic characterization. In Gerhardt P, Murray RGE, Wood WA, Krieg NR. (editors) Methods for General and Molecular Bacteriology Washington, DC: American Society for Microbiology; 1994 pp. 607–654
     [Google Scholar]
  20. Shen Y, Fu Y, Yu Y, Zhao J, Li J et al. Psychrobacillus lasiicapitis sp. nov., isolated from the head of an ant (Lasius fuliginosus). Int J Syst Evol Microbiol 2017; 67:4462–4467 [View Article][PubMed]
     [Google Scholar]
  21. He H, Liu C, Zhao J, Li W, Pan T et al. Streptomyces zhaozhouensis sp. nov., an actinomycete isolated from candelabra aloe (Aloe arborescens Mill). Int J Syst Evol Microbiol 2014; 64:1096–1101 [View Article][PubMed]
     [Google Scholar]
  22. McKerrow J, Vagg S, Mckinney T, Seviour EM, Maszenan AM et al. A simple HPLC method for analysing diaminopimelic acid diastereomers in cell walls of Gram-positive bacteria. Lett Appl Microbiol 2000; 30:178–182 [View Article][PubMed]
     [Google Scholar]
  23. Lechevalier MP, Lechevalier HA. The chemotaxonomy of actinomycetes. In Dietz A, Thayer J. (editors) Actinomycete Taxonomy (Special Publication no. 6) Arlington, VA: Society for Industrial Microbiology; 1980 pp. 227–291
     [Google Scholar]
  24. 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]
  25. Collins MD. Isoprenoid quinone analyses in bacterial classification and identification. In Goodfellow M, Minnikin DE. (editors) Chemical Methods in Bacterial Systematics London: Academic Press; 1985 pp. 267–284
     [Google Scholar]
  26. Wu C, Lu X, Qin M, Wang Y, Ruan J. Analysis of menaquinone compound in microbial cells by HPLC. Microbiology 1989; 16:176–178
     [Google Scholar]
  27. Xiang W, Liu C, Wang X, Du J, Xi L et al. Actinoalloteichus nanshanensis sp. nov., isolated from the rhizosphere of a fig tree (Ficus religiosa). Int J Syst Evol Microbiol 2011; 61:1165–1169 [View Article][PubMed]
     [Google Scholar]
  28. Sambrook J, Fritsch EF, Maniatis T. Molecular Cloning: A Laboratory Manual, 2nd ed. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory; 1989
     [Google Scholar]
  29. Woese CR, Gutell R, Gupta R, Noller HF. Detailed analysis of the higher-order structure of 16S-like ribosomal ribonucleic acids. Microbiol Rev 1983; 47:621–669[PubMed]
     [Google Scholar]
  30. Guo Y, Zheng W, Rong X, Huang Y. A multilocus phylogeny of the Streptomyces griseus 16S rRNA gene clade: use of multilocus sequence analysis for streptomycete systematics. Int J Syst Evol Microbiol 2008; 58:149–159 [View Article][PubMed]
     [Google Scholar]
  31. Rong X, Guo Y, Huang Y. Proposal to reclassify the Streptomyces albidoflavus clade on the basis of multilocus sequence analysis and DNA-DNA hybridization, and taxonomic elucidation of Streptomyces griseus subsp. solvifaciens. Syst Appl Microbiol 2009; 32:314–322 [View Article][PubMed]
     [Google Scholar]
  32. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article][PubMed]
     [Google Scholar]
  33. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article][PubMed]
     [Google Scholar]
  34. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed]
     [Google Scholar]
  35. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20:406–416 [View Article]
     [Google Scholar]
  36. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
     [Google Scholar]
  37. 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]
  38. Mandel M, Marmur J. Use of ultraviolet absorbance temperature profile for determining the guanine plus cytosine content of DNA. Methods Enzymol 1968; 12B:195–206
     [Google Scholar]
  39. De Ley J, Cattoir H, Reynaerts A. The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 1970; 12:133–142 [View Article][PubMed]
     [Google Scholar]
  40. Huss VA, Festl H, Schleifer KH. Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 1983; 4:184–192 [View Article][PubMed]
     [Google Scholar]
  41. 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]
  42. Kroppenstedt RM. Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Goodfellow M, Minnikin DE. (editors) Chemical Methods in Bacterial Systematics London: Academic Press; 1985 pp. 173–199
     [Google Scholar]
  43. Korn-Wendisch F, Kutzner HJ. The family Streptomycetaceae. In Balows A, Trüper HG, Dworkin M, Harder W, Schleifer KH et al. (editors) The Prokaryotes New York: Springer; 1992 pp. 921–995
     [Google Scholar]
  44. Williams ST, Goodfellow M, Alderson G. Genus Streptomyces Waksman and Henrici 1943, 339AL. In Williams ST, Sharpe ME, Holt JG. (editors) Bergey’s Manual of Systematic Bacteriology vol. 4 Baltimore: Williams & Wilkins; 1989 pp. 2452–2492
     [Google Scholar]
  45. Manfio GP, Zakrzewska-Czerwinska J, Atalan E, Goodfellow M. Towards minimal standards for the description of Streptomyces species. Biotekhnologiia 1995; 8:228–237
     [Google Scholar]
  46. Anderson AS, Wellington EM. The taxonomy of Streptomyces and related genera. Int J Syst Evol Microbiol 2001; 51:797–814 [View Article][PubMed]
     [Google Scholar]
  47. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O et al. International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation ofapproaches to bacterial systematics. Int J Syst Bacteriol 1987; 37:463–464
     [Google Scholar]
  48. Rong X, Huang Y. Taxonomic evaluation of the Streptomyces hygroscopicus clade using multilocus sequence analysis and DNA-DNA hybridization, validating the MLSA scheme for systematics of the whole genus. Syst Appl Microbiol 2012; 35:7–18 [View Article][PubMed]
     [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003047
Loading
Streptomyces durbertensis sp. nov., isolated from saline–alkali soil
Int J Syst Evol Microbiol 68, 3635 (2018); https://doi.org/10.1099/ijsem.0.003047
/content/journal/ijsem/10.1099/ijsem.0.003047
/content/journal/ijsem/10.1099/ijsem.0.003047
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

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