1887

Abstract

A Gram-stain-positive, aerobic, coccus-shaped, non-spore-forming actinobacterium, designated strain N5BH11, was isolated from a surface-sterilized sample of Briq. collected from Guizhou, PR China and tested by a polyphasic approach to determine its taxonomic position. Strain N5BH11 grew optimally at 30 °C, pH 6.0–7.0. Substrate mycelia and aerial mycelia were not formed, and no diffusible pigments were observed on the media tested. Phylogenetic analysis based on 16S rRNA gene sequence suggested that strain N5BH11 belonged to the genus and had the highest 16S rRNA gene sequence similarity to DS-52 (98.1 %). The DNA GC content of strain N5BH11 was 71.6 mol%. The average nucleotide identity values between strain N5BH11 and the type strains of , and were 74.0, 76.5 and 73.6 %, respectively. The estimated DDH values between strain N5BH11 and the type strains of , and were 20.3%, 21.4 and 20.2 %, respectively. The cell-wall peptidoglycan contained -diaminopimelic acid, and MK-8(H) was the predominant menaquinone. The predominant polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylmonomethylethanolamine and unidentified phospholipids. The major fatty acids were iso-C , anteiso-C , C and C ω7. On the basis of the results of phylogenetic analysis and phenotypic and chemotaxonomic characteristics, strain N5BH11 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is N5BH11 (=KCTC 49196=CGMCC 4.7524).

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2019-11-11
2019-12-11
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References

  1. Yoshimi Y, Hiraishi A, Nakamura K. Isolation and characterization of Microsphaera multipartita gen. nov., sp. nov., a polysaccharide-accumulating Gram-positive bacterium from activated sludge. Int J Syst Bacteriol 1996;46: 519– 525 [CrossRef]
    [Google Scholar]
  2. Tao T-s, Yue YY, Chen WX, Chen WF. Proposal of Nakamurella gen. nov. as a substitute for the bacterial genus Microsphaera Yoshimi et al. 1996 and Nakamurellaceae fam. nov. as a substitute for the illegitimate bacterial family Microsphaeraceae Rainey et al. 1997. Int J Syst Evol Microbiol 2004;54: 999– 1000 [CrossRef]
    [Google Scholar]
  3. Kim KK, Lee KC, Lee J-S. Nakamurella panacisegetis sp. nov. and proposal for reclassification of Humicoccus flavidus Yoon et al., 2007 and Saxeibacter lacteus Lee et al., 2008 as Nakamurella flavida comb. nov. and Nakamurella lactea comb. nov. Syst Appl Microbiol 2012;35: 291– 296 [CrossRef]
    [Google Scholar]
  4. Yoon J-H, Kang S-J, Jung S-Y, Oh T-K. Humicoccus flavidus gen. nov., sp. nov., isolated from soil. Int J Syst Evol Microbiol 2007;57: 56– 59 [CrossRef]
    [Google Scholar]
  5. Franca L, Albuquerque L, Zhang DC, Nouioui I, Klenk HP et al. Nakamurella silvestris sp. nov., an actinobacterium isolated from alpine forest soil. Int J Syst Evol Microbiol 2016;66: 5460– 5464
    [Google Scholar]
  6. Lee SD, Park SK, Yun Y-W, Lee DW. Saxeibacter lacteus gen. nov., sp. nov., an actinobacterium isolated from rock. Int J Syst Evol Microbiol 2008;58: 906– 909 [CrossRef]
    [Google Scholar]
  7. Tuo L, Li F-N, Pan Z, Lou I, Guo M et al. Nakamurella endophytica sp. nov., a novel endophytic actinobacterium isolated from the bark of Kandelia candel. Int J Syst Evol Microbiol 2016;66: 1577– 1582 [CrossRef]
    [Google Scholar]
  8. Kim S-J, Cho H, Joa J-H, Hamada M, Ahn J-H et al. Nakamurella intestinalis sp. nov., isolated from the faeces of Pseudorhynchus japonicus. Int J Syst Evol Microbiol 2017;67: 2970– 2974 [CrossRef]
    [Google Scholar]
  9. Qin S, Wang H-B, Chen H-H, Zhang Y-Q, Jiang C-L et al. Glycomyces endophyticus sp. nov., an endophytic actinomycete isolated from the root of Carex baccans Nees. Int J Syst Evol Microbiol 2008;58: 2525– 2528 [CrossRef]
    [Google Scholar]
  10. Li J, Dai SJ, Tuo L, Jiang ZK, Liu SW et al. Diversity and antimicrobial activity of endophytic actinobacteria isolated from eumangroves collected in Dongzhaigang of Hainan Province. Microbiol China 2016;43: 1753– 1765
    [Google Scholar]
  11. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966;16: 313– 340 [CrossRef]
    [Google Scholar]
  12. WJ L, 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
    [Google Scholar]
  13. Thompson J, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997;25: 4876– 4882 [CrossRef]
    [Google Scholar]
  14. 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]
    [Google Scholar]
  15. 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 [CrossRef]
    [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
    [Google Scholar]
  17. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981;17: 368– 376 [CrossRef]
    [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. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39: 783– 791 [CrossRef]
    [Google Scholar]
  20. Kim M, Oh H-S, Park S-C, Chun J. Towards a taxonomic coherence between average nucleotide identity and 16S rRNA gene sequence similarity for species demarcation of prokaryotes. Int J Syst Evol Microbiol 2014;64: 346– 351 [CrossRef]
    [Google Scholar]
  21. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 2009;106: 19126– 19131 [CrossRef]
    [Google Scholar]
  22. 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]
  23. Xu P 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 [CrossRef]
    [Google Scholar]
  24. Cappuccino JG, Sherman N. Microbiology: a Laboratory Manual, 6th ed. San Francisco: Benjamin Cummings Pearson Education; 2002
    [Google Scholar]
  25. 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 [CrossRef]
    [Google Scholar]
  26. Komagata K, suzuki KI. Lipid and cell wall analysis in bacterial systematics. Methods Microbiol 1987;19: 161– 207
    [Google Scholar]
  27. 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]
  28. Collins MD, Pirouz T, Goodfellow M, Minnikin DE. Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 1977;100: 221– 230 [CrossRef]
    [Google Scholar]
  29. Guo L, Tuo L, Habden X, Zhang Y, Liu J et al. Allosalinactinospora lopnorensis gen. nov., sp. nov., a new member of the family Nocardiopsaceae isolated from soil. Int J Syst Evol Microbiol 2015;65: 206– 213 [CrossRef]
    [Google Scholar]
  30. Sasser M. Identification of bacteria by gas chromatography of cellular fatty acids MIDI Technical Note 101 Newark, DE: MIDI inc; 1990
    [Google Scholar]
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