1887

Abstract

A novel actinobacterium, designated strain NEAU-YG30, was isolated from the rhizosphere soil of lettuce collected in Heilongjiang province, north-east China. The taxonomic position of the strain was investigated using a polyphasic approach. On the basis of 16S rRNA gene sequence analysis, strain NEAU-YG30 belongs to the genus Nonomuraea , and shared highest sequence similarity to Nonomuraea muscovyensis KCTC 29233 (97.9 %) and Nonomuraea indica CCTCC AA 209050 (97.6 %). The major menaquinone was identified as MK-9(H4). The major fatty acids were 10-methyl C17 : 0, C17 : 0, iso-C16 : 0 2-OH, iso-C16 : 0 and C16 : 0. The polar lipids were diphosphatidylglycerol, phosphatidylethanolamine, hydroxyl-phosphatidylethanolamine, phosphatidylinositol, an unidentified phospholipid and three unidentified lipids. The genomic DNA G+C content of strain NEAU-YG30 was 70.5 mol%. DNA–DNA hybridization values between them were less than 70 %. On the basis of phenotypic, genotypic and phylogenetic data, strain NEAU-YG30 can be characterized to represent a novel species of the genus Nonomuraea , for which the name Nonomuraea lactucae sp. nov. is proposed. The type strain is NEAU-YG30 (=JCM 32549=CGMCC 4.7506).

Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijsem.0.003113
2018-12-12
2019-10-15
Loading full text...

Full text loading...

References

  1. Zhang Z, Wang Y, Ruan J. Reclassification of Thermomonospora and Microtetraspora. Int J Syst Bacteriol 1998;48:411–422 [CrossRef][PubMed]
    [Google Scholar]
  2. Chiba S, Suzuki M, Ando K. Taxonomic re-evaluation of 'Nocardiopsis' sp. K-252T (= NRRL 15532T): a proposal to transfer this strain to the genus Nonomuraea as Nonomuraea longicatena sp. nov. Int J Syst Bacteriol 1999;49:1623–1630 [CrossRef][PubMed]
    [Google Scholar]
  3. Nonomura H, Ohara Y. Distribution of actinomycetes in soil. XI. Some new species of the genus Actinomadura Lechevalier et al. J Ferment Technol 1971;49:904–912
    [Google Scholar]
  4. Nakaew N, Sungthong R, Yokota A, Lumyong S. Nonomuraea monospora sp. nov., an actinomycete isolated from cave soil in Thailand, and emended description of the genus Nonomuraea. Int J Syst Evol Microbiol 2012;62:3007–3012 [CrossRef][PubMed]
    [Google Scholar]
  5. Wang X, Zhao J, Liu C, Wang J, Shen Y et al. Nonomuraea solani sp. nov., an actinomycete isolated from eggplant root (Solanum melongena L.). Int J Syst Evol Microbiol 2013;63:2418–2423 [CrossRef][PubMed]
    [Google Scholar]
  6. Zhang Y, Zhao J, Liu C, Shen Y, Jia F et al. Nonomuraea shaanxiensis sp. nov., a novel actinomycete isolated from a soil sample. Antonie van Leeuwenhoek 2014;105:57–64 [CrossRef][PubMed]
    [Google Scholar]
  7. Li Z, Song W, Zhao J, Zhuang X, Zhao Y et al. Nonomuraea glycinis sp. nov., a novel actinomycete isolated from the root of black soya bean [Glycine max (L.) Merr]. Int J Syst Evol Microbiol 2017;67:5026–5031 [CrossRef][PubMed]
    [Google Scholar]
  8. Fang BZ, Hua ZS, Han MX, Zhang ZT, Wang YH et al. Nonomuraea cavernae sp. nov., a novel actinobacterium isolated from a karst cave sample. Int J Syst Evol Microbiol 2017;67:4692–4697 [CrossRef][PubMed]
    [Google Scholar]
  9. Shen Y, Jia F, Liu C, Li J, Guo S et al. Nonomuraea zeae sp. nov., isolated from the rhizosphere of corn (Zea mays L.). Int J Syst Evol Microbiol 2016;66:2259–2264 [CrossRef][PubMed]
    [Google Scholar]
  10. Sripreechasak P, Phongsopitanun W, Supong K, Pittayakhajonwut P, Kudo T et al. Nonomuraea rhodomycinica sp. nov., isolated from peat swamp forest soil. Int J Syst Evol Microbiol 2017;67:1683–1687 [CrossRef][PubMed]
    [Google Scholar]
  11. Wu H, Liu B. Nonomuraea thermotolerans sp. nov., a thermotolerant actinomycete isolated from mushroom compost. Int J Syst Evol Microbiol 2016;66:894–900 [CrossRef][PubMed]
    [Google Scholar]
  12. Qin S, Zhao GZ, Klenk HP, Li J, Zhu WY et al. Nonomuraea antimicrobica sp. nov., an endophytic actinomycete isolated from a leaf of Maytenus austroyunnanensis. Int J Syst Evol Microbiol 2009;59:2747–2751 [CrossRef][PubMed]
    [Google Scholar]
  13. Li J, Zhao GZ, Huang HY, Zhu WY, Lee JC et al. Nonomuraea endophytica sp. nov., an endophytic actinomycete isolated from Artemisia annua L. Int J Syst Evol Microbiol 2011;61:757–761 [CrossRef][PubMed]
    [Google Scholar]
  14. Rachniyom H, Matsumoto A, Indananda C, Duangmal K, Takahashi Y et al. Nonomuraea syzygii sp. nov., an endophytic actinomycete isolated from the roots of a jambolan plum tree (Syzygium cumini L. Skeels). Int J Syst Evol Microbiol 2015;65:1234–1240 [CrossRef][PubMed]
    [Google Scholar]
  15. Atlas RM. Handbook of microbiological media. Quarterly Review of Biology 2006;2:364–365
    [Google Scholar]
  16. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966;16:313–340 [CrossRef]
    [Google Scholar]
  17. Jones KL. Fresh isolates of actinomycetes in which the presence of sporogenous aerial mycelia is a fluctuating characteristic. J Bacteriol 1949;57:141–145[PubMed]
    [Google Scholar]
  18. Waksman SA. The Actinomycetes, vol. 2, Classification, identification and descriptions of genera and species Baltimore: Williams & Wilkins; 1961
    [Google Scholar]
  19. Waksman SA. The Actinomycetes. A Summary of Current Knowledge New York: Ronald Press; 1967
    [Google Scholar]
  20. Kelly KL. Inter-society colour council-national bureau of standards colour-name charts illustrated with centroid colours published in US 1964
    [Google Scholar]
  21. Jia F, Liu C, Wang X, Zhao J, Liu Q et al. Wangella harbinensis gen. nov., sp. nov., a new member of the family Micromonosporaceae. Antonie van Leeuwenhoek 2013;103:399–408 [CrossRef][PubMed]
    [Google Scholar]
  22. Smibert RM, Krieg NR. Phenotypic characterisation. In Gerhardt P, Murray RGE, Wood WA, Krieg NR. (editors) Methods for general and molecular bacteriology American Society for Microbiology; 1994; pp.607–654
    [Google Scholar]
  23. Gordon RE, Barnett DA, Handerhan JE, Pang CH-N. Nocardia coeliaca, Nocardia autotrophica, and the Nocardin Strain. Int J Syst Bacteriol 1974;24:54–63 [CrossRef]
    [Google Scholar]
  24. Yokota A, Tamura T, Hasegawa T, Huang LH. Catenuloplanes japonicus gen. nov., sp. nov., nom. rev., a New Genus of the Order Actinomycetales. Int J Syst Bacteriol 1993;43:805–812 [CrossRef]
    [Google Scholar]
  25. Mckerrow J, Vagg S, Mckinney T, Seviour EM, Maszenan AM et al. A simple HPLC method for analysing diaminopimelic acid diastereomers in cell walls of Gram-positive bacteria. Lett Appl Microbiol 2000;30:178–182 [CrossRef][PubMed]
    [Google Scholar]
  26. Lechevalier MP, Lechevalier HA. The chemotaxonomy of actinomycetes. In Dietz A, Thayer DW. (editors) Actinomycete taxonomy special publication, Society of Industrial Microbiologyvol. 6 1980; pp.227–291
    [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. Isoprenoid quinone analyses in bacterial classification and identification. Society for Applied Bacteriology Technical 1985;267–284
    [Google Scholar]
  29. Wu C, Lu X, Qin M, Wang Y, Ruan J et al. Analysis of menaquinone compound in microbial cells by HPLC. Microbiology 1989;16:176–178
    [Google Scholar]
  30. Gao R, Liu C, Zhao J, Jia F, Yu C et al. Micromonospora jinlongensis sp. nov., isolated from muddy soil in China and emended description of the genus Micromonospora. Antonie van Leeuwenhoek 2014;105:307–315 [CrossRef][PubMed]
    [Google Scholar]
  31. Xiang W, Liu C, Wang X, Du J, Xi L et al. Actinoalloteichus nanshanensis sp. nov., isolated from the rhizosphere of a fig tree (Ficus religiosa). Int J Syst Evol Microbiol 2011;61:1165–1169 [CrossRef][PubMed]
    [Google Scholar]
  32. Kim SB, Brown R, Oldfield C, Gilbert SC, Iliarionov S et al. Gordonia amicalis sp. nov., a novel dibenzothiophene-desulphurizing actinomycete. Int J Syst Evol Microbiol 2000;50:2031–2036 [CrossRef][PubMed]
    [Google Scholar]
  33. 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 [CrossRef][PubMed]
    [Google Scholar]
  34. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4:406–425 [CrossRef][PubMed]
    [Google Scholar]
  35. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981;17:368–376 [CrossRef][PubMed]
    [Google Scholar]
  36. 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]
  37. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985;39:783–791 [CrossRef][PubMed]
    [Google Scholar]
  38. Kimura M. The neutral theory of molecular evolution Cambridge: Cambridge Universiry Press; 1983
    [Google Scholar]
  39. Mandel M, Marmur J. Use of ultraviolet absorbance temperature profile for determining the guanine plus cytosine content of DNA. Methods Enzymol 1968;12:195–206
    [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 Bacteriol 1987;37:463–464
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijsem.0.003113
Loading
/content/journal/ijsem/10.1099/ijsem.0.003113
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