Antonie van Leeuwenhoek

, Volume 101, Issue 1, pp 141–146 | Cite as

Saccharothrix yanglingensis sp. nov., an antagonistic endophytic actinomycete isolated from cucumber plant

Original Paper
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Accepted:

Abstract

An endophytic actinomycete strain, designated Hhs.015T, was isolated from roots of cucumber seedlings. The endophytic isolate was identified by means of a polyphasic taxonomic approach. On the basis of 16S rRNA gene sequence similarities, strain Hhs.015T was closely related to members of the genus Saccharothrix. DNA–DNA hybridization with the four closest relatives, Saccharothrix longispora NRRL B-16116T, Saccharothrix xinjiangensis NRRL B-24321T, Saccharothrix autraliensis CGMCC 4.1355T and Saccharothrix espanaensis CGMCC 4.1714T, gave similarity values of 33.8, 28.2, 44.1 and 29.5%, respectively, which indicated that strain Hhs.015T represents a novel species of the genus Saccharothrix. This is consistent with the morphological, physiological and chemotaxonomic data. As a whole, these results suggest that strain Hhs.015T represents a novel Saccharothrix species. The name Saccharothrix yanglingensis sp. nov. is proposed, with the type strain Hhs.015T (=CGMCC 4.5627T = KCTC 19722T).

Keywords

Saccharothrix yanglingensis sp. nov. Endophytic actinomycete Phylogeny 
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Notes

Acknowledgments

This work was supported by Agriculture Project (nyhyzx07–055), National Natural Science Foundation of China (30771396) and the ‘111’ Project from Ministry of Education of China (B07049). The authors are grateful to Dr. Swezey (NRRL) for the type strains of the Saccharothrix species, and to Dr. Yafang Tan for carrying out the quantitative fatty acid analysis on isolate Hhs.015T.

Supplementary material

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Supplementary material 1 (PPT 4834 kb)
10482_2011_9631_MOESM2_ESM.ppt (32 kb)
Supplementary material 2 (PPT 32 kb)

References

  1. Becker B, Lechevalier MP, Gordon RE, Lechevalier HA (1964) Rapid differentiation between Nocardia and Streptomyces by paper chromatography of whole-cell hydrolysates. Appl Microbiol 12:421–423PubMedGoogle Scholar
  2. Collins MD (1985) Isoprenoid quinone analysis in classification and identification. In: Goodfellow M, Minnikin DE (eds) Chemical methods in bacterial systematics. Academic Press, London, pp 267–287Google Scholar
  3. Collins MD, Pirouz T, Goodfellow M, Minnikin DE (1977) Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230Google Scholar
  4. Coombs JT, Franco CMM (2003) Isolation and identification of actinobacteria from surface-sterilized wheat roots. Appl Environ Microbiol 69:5603–5608PubMedCrossRefGoogle Scholar
  5. De Ley J, Cattoir H, Reynaerts A (1970) The quantitative measurements of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142PubMedCrossRefGoogle Scholar
  6. Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376PubMedCrossRefGoogle Scholar
  7. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–789CrossRefGoogle Scholar
  8. Fitch WM (1971) Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416CrossRefGoogle Scholar
  9. Goodfellow M (1971) Numerical taxonomy of some nocardioform bacteria. J Gen Microbiol 69:33–80PubMedGoogle Scholar
  10. Gordon RE, Barnett DA, Handerhan JE, Pang CHN (1974) Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol 24:54–63CrossRefGoogle Scholar
  11. Hu YT, Zhou PJ, Zhou YG, Liu ZH, Liu SJ (2004) Saccharothrix xinjiangensis sp. nov., a pyrene-degrading actinomycete isolated from Tianchi Lake, Xinjiang, China. Int J Syst Evol Microbiol 54:2091–2094Google Scholar
  12. Igarashi M, Nakamura H, Naganawa H, Takeuchi T (1997) Formamicin, a novel antifungal antibiotic produced by a strain of Saccharothrix sp. 2. Structure elucidation of formamicin. J Antibiot 50:932–936PubMedGoogle Scholar
  13. Kelly KL (1964) Inter-Society Colour Council-National Bureau of Standards Colour Name Charts Illustrated with Centroid Colours. US Government Printing Office, Washington, DCGoogle Scholar
  14. Kim BY, Brown R, Labeda DP, Goodfellow M (2011) Reclassification of Dactylosporangium variesporum as Saccharothrix variisporea corrig. (ex Tomita et al. 1977) sp. nov., nom. rev. Int J Syst Evol Microbiol 61:310PubMedCrossRefGoogle Scholar
  15. Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120PubMedCrossRefGoogle Scholar
  16. Kimura T, Nakammura K, Takahashi E (1995) Phosphonothrixin, a novel herbicidal antibiotic produced by Saccharothirx sp. ST-888A.2. Structure determination. J Antibiot 48:1130–1133PubMedGoogle Scholar
  17. Kumar S, Tamura K, Nei M (2004) MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5:150–163PubMedCrossRefGoogle Scholar
  18. Labeda DP, Kroppenstedt RM (2000) Phylogenetic analysis of Saccharothrix and related taxa: proposal for Actinosynnemataceae fam. nov. Int J Syst Evol Microbiol 50:331–336PubMedCrossRefGoogle Scholar
  19. Labeda DP, Lyons AJ (1989) Saccharothrix texasensis sp. nov. and Saccharothrix waywayandensis sp. nov. Int J Syst Bacteriol 39:355–358CrossRefGoogle Scholar
  20. Labeda DP, Testa RT, Lechevalier M, Pand HA (1984) Saccharothrix: a New Genus of the Actinomycetales Related to Nocardiopsis. Int J Syst Bacteriol 34:426–431CrossRefGoogle Scholar
  21. Lechevalier MP, Lechevalier HA (1970) Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 34:435–444CrossRefGoogle Scholar
  22. Lechevalier MP, Stern AE, Lechevalier HA (1981) Phospholipids in the taxonomy of actinomycetes. In Actinomycetes. Gustav Fischer, New York, pp 111–116Google Scholar
  23. Li WJ, Xu P, Schumann P, Zhang YQ R, Pukall XuLH, Stackebrandt E, Jiang CL (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 57:1424–1428PubMedCrossRefGoogle Scholar
  24. Marchal N, Bourdon JL (1973) Milieux de Culture et Identification Biochimique des Bacteries. Doin, Paris (in French)Google Scholar
  25. Minnikin DE, Patel PV, Alshamaony L, Goodfellow M (1977) Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 27:104–107CrossRefGoogle Scholar
  26. Minnikin DE, Hutchinson IG, Caldicott AB, Goodfellow M (1980) Thin-layer chromatography of methanolysates of mycolic acid-containing bacteria. J Chromatogr 188:221–233CrossRefGoogle Scholar
  27. Otoguro M, Tamura T, Suzuki K, Hayakawa M (2009) Saccharothrix violaceirubra sp. nov., isolated from soil and plant litter. Int J Syst Evol 59:1504–1507Google Scholar
  28. Qin QM, Vallad GE, Wu BM, Subbarao KV (2006) Phylogenetic analyses of phytopathogenic isolates of Verticillium spp. Phytopathology 96:582–592PubMedCrossRefGoogle Scholar
  29. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425PubMedGoogle Scholar
  30. Shirling EB, Gottlieb D (1966) Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340CrossRefGoogle Scholar
  31. Stackebrandt E, Rainey FA, Ward-Rainey NL (1997) Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int J Syst Bacteriol 47:479–491CrossRefGoogle Scholar
  32. Thompson JD, Gibson TJ, Plewniak F, Jeanmou-gin F, Higgins DG (1997) The CLUSTAL X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882PubMedCrossRefGoogle Scholar
  33. Van de Peer Y, De WachterR (1994) TREECON for Windows: a software package for the construction and drawing of evolutionary trees for the Microsoft Windows environment. Comput Appl Biosci 10:569–570PubMedGoogle Scholar
  34. Vertesy L, Barbone FP, Cashmen E, Decker H, Ehrlich K, Jordan B, Knauf M, Schummer D, Segeth MP, Wink J, Seibert G (2001) Pluraflavins, potent antitumor antibiotics from Saccharothrix sp DSM 12931. J Antibiot 54:718–729PubMedGoogle Scholar
  35. Waksman SA (1967) The Actinomycetes. A Summary of Current Knowledge. Ronald Press, New YorkGoogle Scholar
  36. Yao M, Tu X, Huang LL, Wang MY, Kang ZS (2007) Screening of antagonistic endophytic actinomycetes against tomato pathogens and biocontrol effect on tomato leaf mould. J Northw A & F Univ 35:146–150Google Scholar
  37. Zhang J, Liu Z, Goodfellow M (2003) Nocardia caishijiensis sp. nov., a novel soil actinomycete. Int J Syst Evol Microbiol 53:999–1004Google Scholar
  38. Zitouni A, Boudjella H, Mathieu F, Sabaou N, Lebrihi A (2004a) Mutactimycin PR, a new anthracycline antibiotic from Saccharothrix sp SA 103-I. Taxonomy, fermentation, isolation and biological activities. J Antibiot 57:373–378PubMedGoogle Scholar
  39. Zitouni A, Lamari L, Boudjella H, Badji B, Sabaou N, Gaouar A, Mathieu F, Lebrihi A, Labeda DP (2004b) Saccharothrix algeriensis sp. nov., isolated from Saharan soil. Int J Syst Evol Microbiol 54:1377–1381PubMedCrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media B.V. 2011

Authors and Affiliations

  1. 1.State Key Laboratory of Crop Stress Biology in Arid AreasNorthwest A&F UniversityYanglingChina
  2. 2.College of Plant ProtectionNorthwest A&F UniversityYanglingChina
  3. 3.College of Life SciencesNorthwest A&F UniversityYanglingChina

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