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Volume 68, Issue 4

sp. nov., a novel actinobacterium isolated from a soil sample Free

Abstract

An aerobic actinobacterium, strain AN130378, was isolated from a soil sample collected in Korea and subjected to taxonomic investigation using a polyphasic approach. Phylogenetic analysis based on 16S rRNA gene sequence data showed that strain AN130378 is a member of the genus , with sequence similarities of 97.3 % to YIM 45751 and 97.1 % to YIM 64602. The whole-cell hydrolysates contained -diaminopimelic acid as the diagnostic diamino acid, and galactose, glucose and xylose. The major menaquinones were MK-11(H), MK-10(H) and MK-11(H), while the major fatty acids were identified as iso-C, anteiso-C, anteiso-C, iso-C and summed feature 3 (Cω6 and/or Cω7). The polar lipids were identified as diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol, phosphatidylmethylethanolamine, an unidentified aminophospholipid, four unidentified glycolipids, three unidentified phospholipids and two unidentified polar lipids. The G+C content of the genomic DNA was determined to be 67.7 mol%. All chemotaxonomic and genotypic data indicated that the strain belongs to the genus . On the basis of morphological, chemotaxonomic data and phylogenetic analysis, strain AN130378 is considered to represent a novel species within the genus , for which the name sp. nov. is proposed. The type strain is AN130378 (=DSM 103573=KCTC 39809).

  • Received:
  • Accepted:
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Keyword(s): Gosan recreation forest , polyphasic taxonomy and Stackebrandtia soli sp. nov.
© 2018 IUMS
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2018-04-01
2024-04-16
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References

  1. Labeda DP, Kroppenstedt RM. Stackebrandtia nassauensis gen. nov., sp. nov. and emended description of the family Glycomycetaceae. Int J Syst Evol Microbiol 2005; 55:1687–1691 [View Article][PubMed]
     [Google Scholar]
  2. Wang YX, Zhi XY, Zhang YQ, Cui XL, Xu LH et al. Stackebrandtia albiflava sp. nov. and emended description of the genus Stackebrandtia. Int J Syst Evol Microbiol 2009; 59:574–577 [View Article][PubMed]
     [Google Scholar]
  3. Xiong ZJ, Miao CP, Zheng YK, Liu K, Li WJ et al. Stackebrandtia endophytica sp. nov., an actinobacterium isolated from Tripterygium wilfordii. Int J Syst Evol Microbiol 2015; 65:1709–1713 [View Article][PubMed]
     [Google Scholar]
  4. Zhang WQ, Li YQ, Liu L, Salam N, Fang BZ et al. Stackebrandtia cavernae sp. nov., a novel actinobacterium isolated from a karst cave sample. Int J Syst Evol Microbiol 2016; 66:1206–1211 [View Article][PubMed]
     [Google Scholar]
  5. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966; 16:313–340 [View Article]
     [Google Scholar]
  6. Pridham TG, Lyons AJ. Methodologies for Actinomycetales with special reference to streptomycetes and streptoverticillia. In Dietz A, Thayer DW. (editors) Actinomycete Taxonomy, Special Publication No. 6 Arlington, VA: Society for Industrial Microbiology; 1980 pp. 153–224
     [Google Scholar]
  7. Waksman SA. The Actinomycetes: A Summary of Current Knowledge New York: Ronald Press; 1967
     [Google Scholar]
  8. 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]
  9. Xu P, Li WJ, Tang SK, Zhang YQ, Chen GZ et al. Naxibacter alkalitolerans gen. nov., sp. nov., a novel member of the family 'Oxalobacteraceae' isolated from China. Int J Syst Evol Microbiol 2005; 55:1149–1153 [View Article][PubMed]
     [Google Scholar]
  10. Gonzalez C, Gutierrez C, Ramirez C. Halobacterium vallismortis sp. nov. an amylolytic and carbohydrate-metabolizing, extremely halophilic bacterium. Can J Microbiol 1978; 24:710–715 [View Article]
     [Google Scholar]
  11. Gordon RE, Barnett DA, Handerhan JE, Pang CHN. Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol 1974; 24:54–63 [View Article]
     [Google Scholar]
  12. 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 Systemic Bacteriology, vol. 4 Baltimore: Williams & Wilkins; 1989 pp. 2453–2492
     [Google Scholar]
  13. Groth I, Rodríguez C, Schütze B, Schmitz P, Leistner E et al. Five novel Kitasatospora species from soil: Kitasatospora arboriphila sp. nov., K. gansuensis sp. nov., K. nipponensis sp. nov., K. paranensis sp. nov. and K. terrestris sp. nov. Int J Syst Evol Microbiol 2004; 54:2121–2129 [View Article][PubMed]
     [Google Scholar]
  14. Li WJ, Xu P, Schumann P, Zhang YQ, Pukall R et al. 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 2007; 57:1424–1428 [View Article][PubMed]
     [Google Scholar]
  15. 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]
  16. Thompson J. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997; 25:4876–4882 [View Article]
     [Google Scholar]
  17. Tamura K, Peterson D, Peterson N, Stecher G, Nei M et al. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 2011; 28:2731–2739 [View Article][PubMed]
     [Google Scholar]
  18. 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]
  19. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article]
     [Google Scholar]
  20. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic tree. Mol Biol Evol 1987; 4:406–425
     [Google Scholar]
  21. 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]
     [Google Scholar]
  22. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article][PubMed]
     [Google Scholar]
  23. Marmur J. A procedure for the isolation of deoxyribonucleic acid from micro-organisms. J Mol Biol 1961; 3:208–218 [View Article]
     [Google Scholar]
  24. Mesbah M, Premachandran U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 1989; 39:159–167 [View Article]
     [Google Scholar]
  25. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977; 100:221–230 [View Article]
     [Google Scholar]
  26. Tamaoka J, Katayama-Fujimura Y, Kuraishi H. Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. J Appl Bacteriol 1983; 54:31–36 [View Article]
     [Google Scholar]
  27. Rhuland LE, Work E, Denman RF, Hoare DS. The behavior of the isomers of 2,6-diaminopimelic acid on paper chromatograms. J Am Chem Soc 1955; 77:4844–4846 [View Article]
     [Google Scholar]
  28. Staneck JK, Roberts GD. Simplified approach to identification of aerobic actinomycetes by thin layer chromatography. Appl Microbiol 1974; 28:226–231
     [Google Scholar]
  29. Minnikin DE, Collins MD, Goodfellow M. Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. J Appl Bacteriol 1979; 47:87–95 [View Article]
     [Google Scholar]
  30. Collins MD, Jones D. Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2, 4-diaminobutyric acid. J Appl Bacteriol 1980; 48:459–470 [View Article]
     [Google Scholar]
  31. Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 1990; 20:16
     [Google Scholar]
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Stackebrandtia soli sp. nov., a novel actinobacterium isolated from a soil sample
Int J Syst Evol Microbiol 68, 1215 (2018); https://doi.org/10.1099/ijsem.0.002654
/content/journal/ijsem/10.1099/ijsem.0.002654
/content/journal/ijsem/10.1099/ijsem.0.002654
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