1887

Abstract

A Gram-staining-positive, non-spore-forming and non-motile strain, designated WYH11-7, was isolated from a phosphate mine in Yunnan Province, PR China. The taxonomic position of WYH11-7 was investigated by polyphasic approaches. Phylogenetic analyses based on 16S rRNA gene sequences indicated that WYH11-7 represents a member of the genus Nocardioides . WYH11-7 was closely related to Nocardioidesjensenii DSM 20641, Nocardioidesdubius DSM 19084 and Marmoricolaterrae DSM 27141, and had pairwise 16S rRNA gene sequence similarities of 97.4, 97.2 and 97.0 %, respectively. DNA–DNA relatedness values between WYH11-7 and related type strains N. jensenii DSM 20641 and N. dubius DSM 19084 were found to be 17.6±4.9 and 14.6±3.1 %, respectively. The respiratory menaquinone of WYH11-7 was MK-8 (H4) while the major fatty acids were C18 : 1ω9c, C16 : 0, C17 : 0, C17 : 1ω8c, C18 : 1 10-methyl and summed feature 3 (C16 : 1ω6c and/or C16 : 1ω7c). The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, phosphatidylglycerol and two unidentified phospholipids. Whole-cell hydrolysates contained mannose, ribose, glucose and galactose along with ll-diaminopimelic acid as the diagnostic diamino acid in the peptidoglycan. The DNA G+C content was 71.2 mol%. Phenotypic, phylogenetic and chemotaxonomic data indicated that strain WYH11-7 represents a novel species of the genus Nocardioides , for which the name Nocardioidesphosphatisp. nov. is proposed. The type strain is WYH11-7 (=CGMCC 4.7371=DSM 104026).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.001754
2017-05-30
2019-10-20
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/67/5/1522.html?itemId=/content/journal/ijsem/10.1099/ijsem.0.001754&mimeType=html&fmt=ahah

References

  1. Prauser H. Nocardioides, a new genus of the order Actinomycetales. Int J Syst Bacteriol 1976;26:58–65 [CrossRef]
    [Google Scholar]
  2. Huang MJ, Huang HQ, Salam N, Xiao M, Duan YQ et al. Nocardioides intraradicalis sp. nov., isolated from the roots of Psammosilene tunicoides W. C. Wu et C. Y. Wu. Int J Syst Evol Microbiol 2016;66:3841–3847 [CrossRef][PubMed]
    [Google Scholar]
  3. Lee SH, Liu QM, Lee ST, Kim SC, Im WT. Nocardioides ginsengagri sp. nov., isolated from the soil of a ginseng field. Int J Syst Evol Microbiol 2012;62:591–595 [CrossRef][PubMed]
    [Google Scholar]
  4. Sultanpuram VR, Mothe T, Mohammed F. Nocardioides solisilvae sp. nov., isolated from a forest soil. Antonie van Leeuwenhoek 2015;107:1599–1606 [CrossRef][PubMed]
    [Google Scholar]
  5. Yoon JH, Rhee SK, Lee JS, Park YH, Lee ST. Nocardioides pyridinolyticus sp. nov., a pyridine-degrading bacterium isolated from the oxic zone of an oil shale column. Int J Syst Bacteriol 1997;47:933–938 [CrossRef][PubMed]
    [Google Scholar]
  6. Amin A, Ahmed I, Habib N, Abbas S, Xiao M et al. Nocardioides pakistanensis sp. nov., isolated from a hot water spring of Tatta pani in Pakistan. Antonie van Leeuwenhoek 2016;109:1101–1109 [CrossRef][PubMed]
    [Google Scholar]
  7. Cho Y, Jang GI, Cho BC. Nocardioides marinquilinus sp. nov., isolated from coastal seawater. Int J Syst Evol Microbiol 2013;63:2594–2599 [CrossRef][PubMed]
    [Google Scholar]
  8. Deng S, Chang X, Zhang Y, Ren L, Jiang F et al. Nocardioides antarcticus sp. nov., isolated from marine sediment. Int J Syst Evol Microbiol 2015;65:2615–2621 [CrossRef][PubMed]
    [Google Scholar]
  9. Liu Q, Liu HC, Zhang JL, Zhou YG, Xin YH. Nocardioides glacieisoli sp. nov., isolated from a glacier. Int J Syst Evol Microbiol 2015;65:4845–4849 [CrossRef][PubMed]
    [Google Scholar]
  10. Schippers A, Schumann P, Spröer C. Nocardioides oleivorans sp. nov., a novel crude-oil-degrading bacterium. Int J Syst Evol Microbiol 2005;55:1501–1504 [CrossRef][PubMed]
    [Google Scholar]
  11. 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]
  12. Song GC, Yasir M, Bibi F, Chung EJ, Jeon CO et al. Nocardioides caricicola sp. nov., an endophytic bacterium isolated from a halophyte, Carex scabrifolia Steud. Int J Syst Evol Microbiol 2011;61:105–109 [CrossRef][PubMed]
    [Google Scholar]
  13. Yoon JH, Kim IG, Kang KH, Oh TK, Park YH. Nocardioides aquiterrae sp. nov., isolated from groundwater in Korea. Int J Syst Evol Microbiol 2004;54:71–75 [CrossRef][PubMed]
    [Google Scholar]
  14. Zhang DC, Schumann P, Redzic M, Zhou YG, Liu HC et al. Nocardioides alpinus sp. nov., a psychrophilic actinomycete isolated from alpine glacier cryoconite. Int J Syst Evol Microbiol 2012;62:445–450 [CrossRef][PubMed]
    [Google Scholar]
  15. Cho YG, Yoon JH, Park YH, Lee ST. Simultaneous degradation of p-nitrophenol and phenol by a newly isolated Nocardioides sp. J Gen Appl Microbiol 1998;44:303–309 [CrossRef][PubMed]
    [Google Scholar]
  16. Cui Y, Woo SG, Lee J, Sinha S, Kang MS et al. Nocardioides daeguensis sp. nov., a nitrate-reducing bacterium isolated from activated sludge of an industrial wastewater treatment plant. Int J Syst Evol Microbiol 2013;63:3727–3732 [CrossRef][PubMed]
    [Google Scholar]
  17. Ikunaga Y, Sato I, Grond S, Numaziri N, Yoshida S et al. Nocardioides sp. strain WSN05-2, isolated from a wheat field, degrades deoxynivalenol, producing the novel intermediate 3-epi-deoxynivalenol. Appl Microbiol Biotechnol 2011;89:419–427 [CrossRef][PubMed]
    [Google Scholar]
  18. Karthikeyan S, Spain JC. Biodegradation of 2,4-dinitroanisole (DNAN) by Nocardioides sp. JS1661 in water, soil and bioreactors. J Hazard Mater 2016;312:37–44 [CrossRef][PubMed]
    [Google Scholar]
  19. Satsuma K. Mineralization of s-triazine herbicides by a newly isolated Nocardioides species strain DN36. Appl Microbiol Biotechnol 2010;86:1585–1592 [CrossRef][PubMed]
    [Google Scholar]
  20. Sun LN, Zhang J, Gong FF, Wang X, Hu G et al. Nocardioides soli sp. nov., a carbendazim-degrading bacterium isolated from soil under the long-term application of carbendazim. Int J Syst Evol Microbiol 2014;64:2047–2052 [CrossRef][PubMed]
    [Google Scholar]
  21. Matson JA, Bush JA. Sandramycin, a novel antitumor antibiotic produced by a Nocardioides sp. production, isolation, characterization and biological properties. J Antibiot 1989;42:1763–1767 [CrossRef][PubMed]
    [Google Scholar]
  22. Dellweg H, Kurz J, Pflüger W, Schedel M, Vobis G et al. Rodaplutin, a new peptidylnucleoside from Nocardioides albus. J Antibiot 1988;41:1145–1147 [CrossRef][PubMed]
    [Google Scholar]
  23. Reasoner DJ, Geldreich EE. A new medium for the enumeration and subculture of bacteria from potable water. Appl Environ Microbiol 1985;49:1–7[PubMed]
    [Google Scholar]
  24. Collins MD, Dorsch M, Stackebrandt E. Transfer of Pimelobacter tumescens to Terrabacter gen. nov. as Terrabacter tumescens comb. nov. and of Pimelobacter jensenii to Nocardioides as Nocardioides jensenii comb. nov. Int J Syst Bacteriol 1989;39:1–6 [CrossRef]
    [Google Scholar]
  25. Yoon JH, Lee CH, Oh TK. Nocardioides dubius sp. nov., isolated from an alkaline soil. Int J Syst Evol Microbiol 2005;55:2209–2212 [CrossRef][PubMed]
    [Google Scholar]
  26. Suzuki M, Nakagawa Y, Harayama S, Yamamoto S. Phylogenetic analysis and taxonomic study of marine Cytophaga-like bacteria: proposal for Tenacibaculum gen. nov. with Tenacibaculum maritimum comb. nov. and Tenacibaculum ovolyticum comb. nov., and description of Tenacibaculum mesophilum sp. nov. and Tenacibaculum amylolyticum sp. nov. Int J Syst Evol Microbiol 2001;51:1639–1652 [CrossRef][PubMed]
    [Google Scholar]
  27. Dong XZ, Cai MY. Determinative Manual for Routine Bacteriology Beijing: Scientific Press (English translation); 2001
    [Google Scholar]
  28. Baik KS, Park SC, Kim EM, Lim CH, Seong CN. Mucilaginibacter rigui sp. nov., isolated from wetland freshwater, and emended description of the genus Mucilaginibacter. Int J Syst Evol Microbiol 2010;60:134–139 [CrossRef][PubMed]
    [Google Scholar]
  29. Zhou Y, Dong J, Wang X, Huang X, Zhang KY et al. Chryseobacterium flavum sp. nov., isolated from polluted soil. Int J Syst Evol Microbiol 2007;57:1765–1769 [CrossRef][PubMed]
    [Google Scholar]
  30. Sambrook J, Russell DW. Molecular Cloning: A Laboratory Manual New York: Cold Spring Harbor; 2001
    [Google Scholar]
  31. Lane DL. 16S/23S rRNA sequencing. In Stackebrandt ER, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics Chichester, United Kingdom: Wiley; 1991; pp.115–175
    [Google Scholar]
  32. 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]
  33. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016;33:1870–1874 [CrossRef][PubMed]
    [Google Scholar]
  34. Thompson JD, 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][PubMed]
    [Google Scholar]
  35. 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]
  36. Yang Z. PAML: a program package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci 1997;13:555–556 [CrossRef][PubMed]
    [Google Scholar]
  37. Felsenstein J. Parsimony in systematics: biological and statistical issues. Annu Rev Ecol Syst 1983;14:313–333 [CrossRef]
    [Google Scholar]
  38. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783–791 [CrossRef]
    [Google Scholar]
  39. Marmur J, Doty P. Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 1962;5:109–118 [CrossRef][PubMed]
    [Google Scholar]
  40. de Ley J, Cattoir H, Reynaerts A. The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 1970;12:133–142 [CrossRef][PubMed]
    [Google Scholar]
  41. Huss VA, Festl H, Schleifer KH. Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 1983;4:184–192 [CrossRef][PubMed]
    [Google Scholar]
  42. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O et al. International committee on systematic bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Evol Microbiol 1987;37:463–464[CrossRef]
    [Google Scholar]
  43. 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]
  44. Collins MD. Isoprenoid Quinine Analysis in Classification and Identification London: Academic Press; 1985
    [Google Scholar]
  45. Hasegawa T, Takizawa M, Tanida S. A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 1983;29:319–322 [CrossRef]
    [Google Scholar]
  46. 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]
  47. Kates M. Techniques of Lipidology, 2nd ed. Amsterdam: Elsevier; 1986
    [Google Scholar]
  48. Kim SJ, Lim JM, Hamada M, Ahn JH, Weon HY et al. Marmoricola solisilvae sp. nov. and Marmoricola terrae sp. nov., isolated from soil and emended description of the genus Marmoricola. Int J Syst Evol Microbiol 2015;65:1825–1830 [CrossRef][PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.001754
Loading
/content/journal/ijsem/10.1099/ijsem.0.001754
Loading

Data & Media loading...

Supplements

Supplementary File 1

PDF

Most Cited This Month

This is a required field
Please enter a valid email address
Approval was a Success
Invalid data
An Error Occurred
Approval was partially successful, following selected items could not be processed due to error