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f Nocardioides immobilis sp. nov., isolated from iron mine soil

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Nocardioides immobilis sp. nov., isolated from iron mine soil, Page 1 of 1

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  • A Gram-positive, non-motile, rod-shaped aerobic bacterial strain FLL521 was isolated from iron mine soil. Phylogenetic trees based on 16S rRNA gene sequences showed that strain FLL521 belonged to genus Nocardioides in family Nocardioidaceae , with the highest sequence identity to Nocardioides panacisoli GSoil 346 (96.3 %). The DNA G+C content of strain FLL521 was 70.3 mol%. The cell-wall peptidoglycan type was ll-2,6-diaminopimelic acid. The major respiratory quinone was MK-8(H4), and the predominant fatty acids (>5 %) were iso-C16 : 0, C18 : 1ω9c and C17 : 1ω8c. The polar lipids of strain FLL521 were phosphatidylglycerol, diphosphatidylglycerol, phosphatidylinositol and three unidentified phospholipids. Strain FLL521 showed physiological and biochemical differences with the related strains in the Voges-Proskauer test, hydrolysis of l-arginine, utilization of d-mannose, inositol, phenylalanine and acid production from l-arabinose. Based on the phenotypic, genotypic and phylogenetic analyses, strain FLL521 represents a novel species of Nocardioides , for which the name Nocardioides immobilis sp. nov. is proposed. The type strain is FLL521 (=KCTC 39931=CCTCC AB 2017083).

  • The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of Nocardioides immobilis FLL521 is KY684256.

  • One supplementary table and four supplementary figures are available with the online version of this article.

© 2017 IUMS | Published by the Microbiology Society

  • 1. Prauser H. Nocardioides, a new genus of the order Actinomycetales. Int J Syst Bacteriol 1976; 26: 58– 65 [CrossRef]
    [Google Scholar]
  • 2. Singh H, du J, Trinh H, Won K, Yang JE et al. Nocardioides albidus sp. nov., an actinobacterium isolated from garden soil. Int J Syst Evol Microbiol 2016; 66: 371– 378 [CrossRef] [PubMed]
    [Google Scholar]
  • 3. Han JH, Kim TS, Joung Y, Kim MN, Shin KS et al. Nocardioides endophyticus sp. nov. and Nocardioides conyzicola sp. nov., isolated from herbaceous plant roots. Int J Syst Evol Microbiol 2013; 63: 4730– 4734 [CrossRef] [PubMed]
    [Google Scholar]
  • 4. Xu H, Zhang S, Cheng J, Asem MD, Zhang MY et al. Nocardioides ginkgobilobae sp. nov., an endophytic actinobacterium isolated from the root of the living fossil Ginkgo biloba L. Int J Syst Evol Microbiol 2016; 66: 2013– 2018 [CrossRef] [PubMed]
    [Google Scholar]
  • 5. Kämpfer P, Glaeser SP, Mcinroy JA, Busse HJ. Nocardioides zeicaulis sp. nov., an endophyte actinobacterium of maize. Int J Syst Evol Microbiol 2016; 66: 1869– 1874 [CrossRef] [PubMed]
    [Google Scholar]
  • 6. Wang L, Li J, Zhang G. Nocardioides rotundus sp. nov., isolated from deep seawater. Int J Syst Evol Microbiol 2016; 66: 1932– 1936 [CrossRef] [PubMed]
    [Google Scholar]
  • 7. Cho Y, Jang GI, Hwang CY, Kim EH, Cho BC. Nocardioides salsibiostraticola sp. nov., isolated from biofilm formed in coastal seawater. Int J Syst Evol Microbiol 2013; 63: 3800– 3806 [CrossRef] [PubMed]
    [Google Scholar]
  • 8. Dastager SG, Lee JC, Ju YJ, Park DJ, Kim CJ. Nocardioides sediminis sp. nov., isolated from a sediment sample. Int J Syst Evol Microbiol 2009; 59: 280– 284 [CrossRef] [PubMed]
    [Google Scholar]
  • 9. Liu Q, Xin YH, Liu HC, Zhou YG, Wen Y. Nocardioides szechwanensis sp. nov. and Nocardioides psychrotolerans sp. nov., isolated from a glacier. Int J Syst Evol Microbiol 2013; 63: 129– 133 [CrossRef] [PubMed]
    [Google Scholar]
  • 10. Yoon JH, Kang SJ, Park S, Kim W, Oh TK. Nocardioides caeni sp. nov., isolated from wastewater. Int J Syst Evol Microbiol 2009; 59: 2794– 2797 [CrossRef] [PubMed]
    [Google Scholar]
  • 11. Wang S, Zhou Y, Zhang G. Nocardioides flavus sp. nov., isolated from marine sediment. Int J Syst Evol Microbiol 2016; 66: 5275– 5280 [CrossRef] [PubMed]
    [Google Scholar]
  • 12. O'Donnell AG, Goodfellow M, Minnikin DE. Lipids in the classification of Nocardioides: reclassification of Arthrobacter simplex (Jensen) lochhead in the genus Nocardioides (Prauser) emend. O'Donnell et al. as Nocardioides simplex comb. nov. Arch Microbiol 1982; 133: 323– 329 [CrossRef] [PubMed]
    [Google Scholar]
  • 13. Cho CH, Lee JS, An DS, Whon TW, Kim SG. Nocardioides panacisoli sp. nov., isolated from the soil of a ginseng field. Int J Syst Evol Microbiol 2010; 60: 387– 392 [CrossRef] [PubMed]
    [Google Scholar]
  • 14. Fan H, Su C, Wang Y, Yao J, Zhao K et al. Sedimentary arsenite-oxidizing and arsenate-reducing bacteria associated with high arsenic groundwater from Shanyin, Northwestern China. J Appl Microbiol 2008; 105: 529– 539 [CrossRef] [PubMed]
    [Google Scholar]
  • 15. Kim OS, Cho YJ, Lee K, Yoon SH, Kim M et al. Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 2012; 62: 716– 721 [CrossRef] [PubMed]
    [Google Scholar]
  • 16. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4: 406– 425 [PubMed]
    [Google Scholar]
  • 17. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17: 368– 376 [CrossRef] [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 [CrossRef]
    [Google Scholar]
  • 19. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30: 2725– 2729 [CrossRef] [PubMed]
    [Google Scholar]
  • 20. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39: 783– 791 [CrossRef] [PubMed]
    [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 [CrossRef] [PubMed]
    [Google Scholar]
  • 22. Cappuccino JG, Sherman N. Microbiology: A Laboratory Manual, 6th ed. San Francisco: Pearson Education, Inc. Benjamin Cummings; 2002
    [Google Scholar]
  • 23. Cowan ST, Steel KJ. Manual for the Identification of Medical Bacteria London: Cambridge University Press; 1965
    [Google Scholar]
  • 24. Dong XZ, Cai MY. Determinative Manual for Routine Bacteriology Beijing: Scientific Press; 2001
    [Google Scholar]
  • 25. 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]
  • 26. Tamaoka J, Komagata K. Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 1984; 25: 125– 128 [CrossRef]
    [Google Scholar]
  • 27. Xie CH, Yokota A. Phylogenetic analyses of Lampropedia hyalina based on the 16S rRNA gene sequence. J Gen Appl Microbiol 2003; 49: 345– 349 [CrossRef] [PubMed]
    [Google Scholar]
  • 28. Komagata K, Suzuki K. Lipid and cell-wall analysis in bacterial systematics. Methods Microbiol 1987; 19: 161– 207 [Crossref]
    [Google Scholar]
  • 29. Sasser M. Identification of Bacteria by Gas Chromatography of Cellular Fatty Acids, MIDI Technical Note 101. Newark, DE: MIDI Inc; 1990
    [Google Scholar]
  • 30. 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 [CrossRef]
    [Google Scholar]
  • 31. Kim MK, Srinivasan S, Park MJ, Sathiyaraj G, Kim YJ et al. Nocardioides humi sp. nov., a beta-glucosidase-producing bacterium isolated from soil of a ginseng field. Int J Syst Evol Microbiol 2009; 59: 2724– 2728 [CrossRef] [PubMed]
    [Google Scholar]
  • 32. Qin S, Yuan B, Zhang YJ, Bian GK, Tamura T et al. Nocardioides panzhihuaensis sp. nov., a novel endophytic actinomycete isolated from medicinal plant Jatropha curcas L. Antonie van Leeuwenhoek 2012; 102: 353– 360 [CrossRef] [PubMed]
    [Google Scholar]
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2017-10-25
2019-02-20
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