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INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo International Journal of Systematic and Evolutionary Microbiology

Volume 70, Issue 3

sp. nov., isolated from an island soil Free

Abstract

A mycolic acid-containing actinobacterium designated strain MMS17-SY073 was isolated from island soil. The isolate showed best growth at 25 °C, pH 6, and 0 % (w/v) NaCl. The phylogenetic analysis based on 16S rRNA gene sequences indicated that strain MMS17-SY073 belongs to the genus , and is mostly related to the type strains of (98.5 % sequence similarity), (98.1%), and (97.8%). The genome-based comparisons showed a clear distinction between the strain and the two neighbouring species, and , with the average nucleotide identities (ANI) of 75.8 and 76.3 %, respectively. Notably, the genome of strain MMS17-SY073 was the largest in total stretch and gene counts among the complete genomes of , and contained a number of biosynthetic gene clusters for secondary metabolites, in particular those for non-ribosomal peptide synthetases. The major polar lipids were diphosphatidyl glycerol (DPG), phosphatidyl glycerol (PG), phosphatidyl ethanolamine (PE), phosphatidyl inositol (PI) and phosphatidyl inositol mannoside (PIM). The isoprenoid quinone was MK-9(H), and the main fatty acids were C (30.2%) and 10-methyl-C (33.7%). The whole cell hydrolysates contained galactose, arabinose, and -diaminopimelic acid. The DNA G+C content was 67.4 mol%. Based on phenotypic, chemotaxonomic and genetic analysis, strain MMS17-SY073 should be classified as a new species of the genus , for which the name sp. nov. is proposed (type strain=MMS17-SY073=KCTC 49257=JCM 33277).

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  • Accepted:
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  • Published Online:
Keyword(s): actinobacterium , biosynthetic gene cluster , Gordonia insulae and island soil
© 2020 The Authors
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2020-01-29
2025-04-19
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References

  1. Tsukamura M. Proposal of a new genus, Gordona, for slightly acid-fast organisms occurring in sputa of patients with pulmonary disease and in soil. J Gen Microbiol 1971; 68:15–26 [View Article]
     [Google Scholar]
  2. Arenskötter M, Bröker D, Steinbüchel A, Daniel B, Alexander S. Biology of the metabolically diverse genus Gordonia . Appl Environ Microbiol 2004; 70:3195–3204 [View Article]
     [Google Scholar]
  3. Euzeby JP. 2007; In list of prokaryotic names with standing in nomenclature. www.bacterio.net/ accessed 2018
  4. Linos A, Steinbüchel A, Spröer C, Kroppenstedt RM. Gordonia polyisoprenivorans sp. nov., a rubber-degrading actinomycete isolated from an automobile tyre. Int J Syst Bacteriol 1999; 49:1785–1791 [View Article]
     [Google Scholar]
  5. Xue Y, Sun X, Zhou P, Liu R, Liang F et al. Gordonia paraffinivorans sp. nov., a hydrocarbon-degrading actinomycete isolated from an oil-producing well. Int J Syst Evol Microbiol 2003; 53:1643–1646 [View Article]
     [Google Scholar]
  6. Kim KK, Lee KC, Klenk H-P, Oh H-M, Lee J-S. Gordonia kroppenstedtii sp. nov., a phenol-degrading actinomycete isolated from a polluted stream. Int J Syst Evol Microbiol 2009; 59:1992–1996 [View Article]
     [Google Scholar]
  7. Franzetti A, Caredda P, Ruggeri C, La Colla P, Tamburini E et al. Potential applications of surface active compounds by Gordonia sp. strain BS29 in soil remediation technologies. Chemosphere 2009; 75:801–807 [View Article]
     [Google Scholar]
  8. Kovacs N. Identification of Pseudomonas pyocyanea by the oxidase reaction. Nature 1956; 178:703 [View Article]
     [Google Scholar]
  9. Park J, Kim YR, Kim M-K, Jo JH, Im W-T et al. Humibacter soli sp. nov., isolated from soil. Int J Syst Evol Microbiol 2016; 66:2509–2514 [View Article]
     [Google Scholar]
  10. Staneck JL, Roberts GD. Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 1974; 28:226–231 [View Article]
     [Google Scholar]
  11. Yassin AAF. Detection and characterization of mycolic acids and their use in taxonomy and classification. Meth Microbiol 2011; 8:207–237
     [Google Scholar]
  12. Jeon Y-S, Lee K, Park S-C, Kim B-S, Cho Y-J et al. EzEditor: a versatile sequence alignment editor for both rRNA- and protein-coding genes. Int J Syst Evol Microbiol 2014; 64:689–691 [View Article]
     [Google Scholar]
  13. Jukes T, Cantor C. Evolution of protein molecules. In Munro HN. editor ‘‘Mammalian Protein Metabolism’’ New York: Academic Press; 1969 pp 21–132
     [Google Scholar]
  14. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article]
     [Google Scholar]
  15. Kim M-K, Park S, Kim T-S, Joung Y, Han J-H et al. Mucibacter soli gen. nov., sp. nov., a new member of the family Chitinophagaceae producing mucin. J Microbiol 2019; 57:356–361 [View Article]
     [Google Scholar]
  16. Lee I, Ouk Kim Y, Park S-C, Chun J. OrthoANI: an improved algorithm and software for calculating average nucleotide identity. Int J Syst Evol Microbiol 2016; 66:1100–1103 [View Article]
     [Google Scholar]
  17. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article]
     [Google Scholar]
  18. Kim M-K, Kang H-J, Roh SG, Park JS, Kim SB. Streptomyces fodineus sp. nov., an actinobacterium with antifungal activity isolated from mine area soil. Int J Syst Evol Microbiol 2019; 69:1350–1354 [View Article]
     [Google Scholar]
  19. Blin K, Wolf T, Chevrette MG, Lu X, Schwalen CJ et al. antiSMASH 4.0—improvements in chemistry prediction and gene cluster boundary identification. Nucleic Acids Res 2017; 45:W36–W41 [View Article]
     [Google Scholar]
  20. Goodfellow M, Kumar Y, Maldonado LA. Genus II. Gordonia . In Goodfellow M, Kampfer P, Busse HJ, Trujillo ME, Suzuki KI. (editors) In Bergey’s Manual of Systematic Bacteriology 5, 2nd ed. New York: Springer; 2012 pp 419–435
     [Google Scholar]
  21. Shen F-T, Goodfellow M, Jones AL, Chen Y-P, Arun AB et al. Gordonia soli sp. nov., a novel actinomycete isolated from soil. Int J Syst Evol Microbiol 2006; 56:2597–2601 [View Article]
     [Google Scholar]
  22. Park S, Kang S-J, Kim W, Yoon J-H. Gordonia hankookensis sp. nov., isolated from soil. Int J Syst Evol Microbiol 2009; 59:3172–3175 [View Article]
     [Google Scholar]
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Gordonia insulae sp. nov., isolated from an island soil
Int J Syst Evol Microbiol 70, 2079 (2020); https://doi.org/10.1099/ijsem.0.004023
/content/journal/ijsem/10.1099/ijsem.0.004023
/content/journal/ijsem/10.1099/ijsem.0.004023
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