1887

Abstract

A novel strain, ZFG47, isolated from a cadmium-contaminated soil sample, was taxonomically studied in detail. Strain ZFG47 formed long, flexuous spiral spore chains consisting of elliptoid spores with spiny surfaces. The cell-wall hydrolysates contained -diaminopimelic acid as the diagnostic diamino acid. The major menaquinones consisted of MK-9(H2), MK-9(H4) and MK-9(H8). The major polar lipids contained diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and phosphatidylinositol mannosides. The predominant cellular fatty acids were iso-C, C and anteiso-C. The 16S rRNA gene sequence-based phylogenetic analysis indicated that this strain belongs to the genus , showing the highest sequence similarity to VK-A60 (98.7 %). However, the digital DNA–DNA hybridization value, the average nucleotide identity value and the MLSA evolutionary distance between this strain and VK-A60 showed that it belonged to a distinct species. Furthermore, the novel isolate could be distinctly differentiated from VK-A60 by morphological, physiological and biochemical characteristics. On the basis of the evidence from this polyphasic study, it is concluded that strain ZFG47 represents a novel species of the genus , for which the name sp. nov. is proposed, with strain ZFG47 (CICC 11050=JCM 32897) as the type strain.

Funding
This study was supported by the:
  • Education Department of Hunan Province (Award 16K032)
  • National Key R andD Program of China (Award 2017YFE011760)
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2019-02-04
2024-03-29
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References

  1. Kämpfer P, Glaeser SP, Parkes L, Keulen GV, Dyson P et al. The Family Streptomycetaceae. In Rosenberg E, DeLong E, Lory S, Stackebrandt E, Thompson F et al. (editors) The Prokaryotes-Actinobacteria New York, USA: Springer; 2014
    [Google Scholar]
  2. Muramatsu H, Nagai K. Streptomyces tsukubensis sp. nov., a producer of the immunosuppressant tacrolimus. J Antibiot 2013; 66:251–254 [View Article][PubMed]
    [Google Scholar]
  3. Waksman SA, Henrici AT. The nomenclature and classification of the actinomycetes. J Bacteriol 1943; 46:337–341[PubMed]
    [Google Scholar]
  4. Mosbah R, Sahmoune MN. Biosorption of heavy metals by Streptomyces species—an overview. Cent Eur J Chem 2013; 11:1412–1422 [View Article]
    [Google Scholar]
  5. Briceño G, Schalchli H, Mutis A, Benimeli CS, Palma G et al. Use of pure and mixed culture of diazinon-degrading Streptomyces to remove other organophosphorus pesticides. Int Biodeter Biodegr 2016; 114:193–201 [View Article]
    [Google Scholar]
  6. Alvarez A, Saez JM, Davila Costa JS, Colin VL, Fuentes MS et al. Actinobacteria: current research and perspectives for bioremediation of pesticides and heavy metals. Chemosphere 2017; 166:41–62 [View Article][PubMed]
    [Google Scholar]
  7. Ali A, Guo D, Mahar A, Ma F, Li R et al. Streptomyces pactum assisted phytoremediation in Zn/Pb smelter contaminated soil of Feng County and its impact on enzymatic activities. Sci Rep 2017; 7:1–13 [View Article][PubMed]
    [Google Scholar]
  8. Blánquez A, Rodríguez J, Brissos V, Mendes S, Martins LO et al. Decolorization and detoxification of textile dyes using a versatile Streptomyces laccase-natural mediator system. Saudi J Biol Sci 2018 In Press [View Article]
    [Google Scholar]
  9. Mo P, Zhao J, Li K, Tang X, Gao J. Streptomyces manganisoli sp. nov., a novel actinomycete isolated from manganese-contaminated soil. Int J Syst Evol Microbiol 2018; 68:1890–1895 [View Article][PubMed]
    [Google Scholar]
  10. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966; 16:313–340 [View Article]
    [Google Scholar]
  11. Ridgway R. Color standards and color nomenclature. Published by the author, Washington, DC. 1–43, plate I–LII; 1912
  12. Shieh WY, Chen YW, Chaw SM, Chiu HH. Vibrio ruber sp. nov., a red, facultatively anaerobic, marine bacterium isolated from sea water. Int J Syst Evol Microbiol 2003; 53:479–484 [View Article][PubMed]
    [Google Scholar]
  13. Lh X, Wj L, Liu ZH, Jiang CL. Actinomycetes Systematics: Principles, Methods and Practices Beijing, China: Science Press; 2007 (in Chinese)
    [Google Scholar]
  14. 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]
  15. Kroppenstedt RM. Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Goodfellow M, Minnikin DE. (editors) Chemical Methods in Bacterial Systematics London, England: Academic Press; 1985 pp. 173–199
    [Google Scholar]
  16. Komagata K, Suzuki KI. Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 1987; 19:161–207
    [Google Scholar]
  17. Hasegawa T, Takizawa M, Tanida S. A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 1983; 29:319–322 [View Article]
    [Google Scholar]
  18. 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]
  19. Weisburg WG, Barns SM, Pelletier DA, Lane DJ. 16S ribosomal DNA amplification for phylogenetic study. J Bacteriol 1991; 173:697–703 [View Article][PubMed]
    [Google Scholar]
  20. Lane DJ. 16S/23S r RNA sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics New York, USA: Wiley; 1991 pp. 115–175
    [Google Scholar]
  21. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994; 22:4673–4680 [View Article][PubMed]
    [Google Scholar]
  22. 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]
  23. Kluge AG, Farris JS. Quantitative phyletics and the evolution of anurans. Syst Zool 1969; 18:1–32 [View Article]
    [Google Scholar]
  24. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376[PubMed]
    [Google Scholar]
  25. 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]
  26. 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]
  27. 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]
  28. Yoon SH, Ha SM, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017; 110:1281–1286 [View Article][PubMed]
    [Google Scholar]
  29. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article][PubMed]
    [Google Scholar]
  30. Wright F, Bibb MJ. Codon usage in the G+C-rich Streptomyces genome. Gene 1992; 113:55–65 [View Article][PubMed]
    [Google Scholar]
  31. Stackebrandt E, Ebers J. Taxonomic parameters revisited: tarnished gold standards. Microbiol Today 2006; 33:152–155
    [Google Scholar]
  32. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018; 68:461–466 [View Article][PubMed]
    [Google Scholar]
  33. Goris J, Konstantinidis KT, Klappenbach JA, Coenye T, Vandamme P et al. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 2007; 57:81–91 [View Article][PubMed]
    [Google Scholar]
  34. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009; 106:19126–19131 [View Article][PubMed]
    [Google Scholar]
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