Glycomyces luteolus sp. nov., a novel actinomycete isolated from rhizosphere soil of wheat (Triticum aestivum L.)

  • Liping Duan
  • Wei Song
  • Shanwen Jiang
  • Lulu Qian
  • Xiaowei Guo
  • Xiangjing Wang
  • Junwei Zhao
  • Wensheng Xiang
Original Paper


Three Gram-stain positive, aerobic actinomycete strains, designated NEAU-A15T, NEAU-A13 and NEAU-C4, were isolated from rhizosphere soil of wheat (Triticum aestivum L.) collected from Langfang, Hebei Province, China. Based on their morphological characteristics, biochemical features and molecular phylogenetic studies, these strains were concluded to belong to a new member of the genus Glycomyces. 16S rRNA gene sequence analysis showed that strain NEAU-A15T shares 99.91% and 99.80% 16S rRNA gene sequence similarity with NEAU-A13 and NEAU-C4, respectively, and these three strains showed high sequence similarities to Glycomyces algeriensis DSM 44727T (99.24, 99.45, 99.38%), Glycomyces lechevalierae DSM 44724T (98.97, 99.17, 99.11%) and Glycomyces rutgersensis DSM 43812T (98.83, 99.04, 98.97%). Phylogenetic analysis indicated that these three strains clustered together and formed a cluster with Glycomyces tritici NEAU-C2T (97.30, 97.73, 99.48%), G. algeriensis DSM 44727T, G. lechevalierae DSM 44724T and G. rutgersensis DSM 43812T. These three strains were observed to contain MK-10(H2), MK-10(H6) and MK-11 as menaquinones. The whole cell sugar profiles were found to contain galactose, ribose and xylose. The polar lipids were found to consist of diphosphatidylglycerol, phosphatidylinositol, phosphatidylglycerol, phosphoglycolipid, phosphatidylinositol mannoside and an unidentified glycolipid. The major fatty acids were identified as anteiso-C15:0, iso-C16:0, anteiso-C17:0 and iso-C15:0. The DNA–DNA hybridization values between strain NEAU-A15T and NEAU-A13/NEAU-C4 were 86.2 ± 2.3% and 83.4 ± 3.5%, respectively. The values between these three strains and their close phylogenetic relatives were 48–52%, supporting the conclusion that they belong to a distinct genomic species. An array of phenotypic characteristics also differentiated these isolates from their closely related species. On the basis of the genetic and phenotypic properties, strains NEAU-A15T, NEAU-A13 and NEAU-C4 can be classified as representatives of a novel species of the genus Glycomyces, for which the name Glycomyces luteolus sp. nov., is proposed. The type strain is NEAU-A15T (= DSM 104643T = CGMCC 4.7394T).


Glycomyces luteolus sp. nov. Polyphasic taxonomy 16S rRNA gene 



This work was supported in part by grants from the China Postdoctoral Science Foundation (2018M631907), the Heilongjiang Postdoctoral Fund (LBH-Z17015), the ‘Young Talents’ Project of Northeast Agricultural University (17QC14) and Youth innovation talent program for general undergraduate colleges of Heilongjiang Province (UNPYSCT-2017017). We thank Prof. Aharon Oren (The Hebrew University of Jerusalem) for helping to derive the name luteolus for the three strains.

Author contributions

LD performed the laboratory experiments, analysed the data, and drafted the manuscript. WS contributed to the biochemical characterisation. LQ contributed to the morphological analyses. SJ contributed to the fatty acids determination. XG contributed to the polyphasic taxonomy. XW participated in the discussions of each section of experiments. WX and JZ designed the experiments and revised the manuscript.

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Ethical standards

This article does not contain any studies with human participants and/or animals performed by any of the authors. The formal consent is not required in this study.

Supplementary material

10482_2018_1200_MOESM1_ESM.docx (3.8 mb)
Supplementary material 1 (DOCX 3908 kb)


  1. Collins MD (1985) Chemical methods in bacterial systematics. In: Goodfellow M, Minnikin DE (eds) Isoprenoid quinone analyses in bacterial classification and identification. Academic Press, London, pp 267–284Google Scholar
  2. De Ley J, Cattoir H, Reynaerts A (1970) The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142CrossRefGoogle Scholar
  3. Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376CrossRefGoogle Scholar
  4. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791CrossRefGoogle Scholar
  5. Gao RX, Liu CX, Zhao JW, Jia FY, Yu C, Yang LY, Wang XJ, Xiang WS (2014) Micromonospora jinlongensis sp. nov., isolated from muddy soil in China and emended description of the genus Micromonospora. Antonie Van Leeuwenhoek 105:307–315CrossRefGoogle Scholar
  6. Gordon RE, Barnett DA, Handerhan JE, Pang C (1974) Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol 24:54–63CrossRefGoogle Scholar
  7. Guan XJ, Liu CX, Zhao JW, Fang BZ, Zhang YJ, Li LL, Jin PJ (2015) Streptomyces maoxianensis sp. nov., a novel actinomycete isolated from soil in Maoxian, China. Antonie Van Leeuwenhoek 107:1119–1126CrossRefGoogle Scholar
  8. Huss VAR, Festl H, Schleifer KH (1983) Studies on the spectrometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4:184–192CrossRefGoogle Scholar
  9. Jones KL (1949) Fresh isolates of actinomycetes in which the presence of sporogenous aerial mycelia is a fluctuating characteristic. J Bacteriol 57:141–145PubMedPubMedCentralGoogle Scholar
  10. Kelly KL (1964) Inter-society color council-national bureau of standards color-name charts illustrated with centroid colors. US Government Printing Office, WashingtonGoogle Scholar
  11. Kim SB, Brown R, Oldfield C, Gilbert SC, Iliarionov S, Goodfellow M (2000) Gordonia amicalis sp. nov., a novel dibenzothiophene-desulphurizing actinomycete. Int J Syst Evol Microbiol 50:2031–2036CrossRefGoogle Scholar
  12. Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120CrossRefGoogle Scholar
  13. Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33:1870–1874CrossRefGoogle Scholar
  14. Labeda DP, Kroppenstedt RM (2004) Emended description of the genus Glycomyces and description of Glycomyces algeriensis sp. nov., Glycomyces arizonensis sp. nov. and Glycomyces lechevalierae sp. nov. Int J Syst Evol Microbiol 54:2343–2346CrossRefGoogle Scholar
  15. Labeda DP, Testa RT, Lechevalier MP, Lechevalier HA (1985) Glycomyces, a new genus of the Actinomycetales. Int J Syst Bacteriol 35:417–421CrossRefGoogle Scholar
  16. Lechevalier MP, Lechevalier HA (1980) The chemotaxonomy of actinomycetes. In: Dietz A, Thayer DW (eds) Actinomycete taxonomy special publication, vol 6. Society of Industrial Microbiology, Arlington, pp 227–291Google Scholar
  17. Li WC, Liu CX, Guo XW, Song W, Sun TY, Duan LP, Wang XJ, Zhao JW, Xiang WS (2017) Glycomyces tritici sp. nov., isolated from rhizosphere soil of wheat (Triticum aestivum L.) and emended description of the genus Glycomyces. Antonie Van Leeuwenhoek 111(7):1087–1093CrossRefGoogle Scholar
  18. Mandel M, Marmur J (1968) Use of ultraviolet absorbance temperature profile for determining the guanine plus cytosine content of DNA. Methods Enzymol 12:195–206CrossRefGoogle Scholar
  19. McKerrow J, Vagg S, McKinney T, Seviour EM, Maszenan AM, Brooks P, Se-viour RJ (2000) A simple HPLC method for analysing diaminopimelic acid diastereomers in cell walls of Gram-positive bacteria. Lett Appl Microbiol 30:178–182CrossRefGoogle Scholar
  20. Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M, Schaal K, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241CrossRefGoogle Scholar
  21. Qin S, Wang HB, Chen HH, Zhang YQ, Jiang CL, Xu LH, Li WJ (2008) Glycomyces endophyticus sp. nov., an endophytic actinomycete isolated from the root of Carex baccans Nees. Int J Syst Evol Microbiol 58:2525–2528CrossRefGoogle Scholar
  22. Rosselló-Móra R, Trujillo ME, Sutcliffe IC (2017) Introducing a digital protologue: a timely move towards a database-driven systematics of Archaea and Bacteria. Syst Appl Microbiol 40(3):121–122CrossRefGoogle Scholar
  23. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425PubMedGoogle Scholar
  24. Shirling EB, Gottlieb D (1966) Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340CrossRefGoogle Scholar
  25. Smibert RM, Krieg NR (1994) Phenotypic characterisation. In: Gerhardt P, Murray RGE, Wood WA, Krieg NR (eds) Methods for general and molecular bacteriology. American Society for Microbiology, Washington DC, pp 607–654Google Scholar
  26. Waksman SA (1961) The actinomycetes. Classification, identification and descriptions of genera and species, vol 2. Williams and Wilkins, BaltimoreGoogle Scholar
  27. Waksman SA (1967) The actinomycetes a summary of current knowledge. Ronald Press, New YorkGoogle Scholar
  28. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore WEC, Murray RGE (1987) International committee on systematic bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464CrossRefGoogle Scholar
  29. Williams ST, Goodfellow M, Alderson G (1989) Genus Streptomyces Waksman and Henrici 1943, 339AL. In: Williams ST, Sharpe ME, Holt JG (eds) Bergey’s Manual of Systematic Bacteriology, vol 4. Williams and Wilkins, Baltimore, pp 2452–2492Google Scholar
  30. Wu C, Lu X, Qin M, Wang Y, Ruan J (1989) Analysis of menaquinone compound in microbial cells by HPLC. Microbiology 16:176–178Google Scholar
  31. Xiang WS, Liu CX, Wang XJ, Du J, Xi LJ, Huang Y (2011) Actinoalloteichus nanshanensis sp. nov., isolated from the rhizosphere of a fig tree (Ficus religiosa). Int J Syst Evol Microbiol 61:1165–1169CrossRefGoogle Scholar
  32. Xie QY, Lin HP, Li L, Brown R, Goodfellow M, Deng Z, Hong K (2012) Verrucosispora wenchangensis sp. nov., isolated from mangrove soil. Antonie Van Leeuwenhoek 102:1–7CrossRefGoogle Scholar
  33. Yokota A, Tamura T, Hasegawa T, Huang LH (1993) Catenuloplanes japonicas gen. nov., sp. nov., nom. rev., a new genus of the order Actinomycetales. Int J Syst Bacteriol 43:805–812CrossRefGoogle Scholar
  34. Yoon SH, Ha SM, Kwon S, Lim J, Kim Y, Seo H, Chun J (2017) Introducing EzBioCloud: a taxonomically united database of 16S rRNA and whole genome assemblies. Int J Syst Evol Microbiol 67:1613–1617CrossRefGoogle Scholar

Copyright information

© Springer Nature Switzerland AG 2018

Authors and Affiliations

  • Liping Duan
    • 1
  • Wei Song
    • 1
  • Shanwen Jiang
    • 1
  • Lulu Qian
    • 1
  • Xiaowei Guo
    • 1
  • Xiangjing Wang
    • 1
  • Junwei Zhao
    • 1
  • Wensheng Xiang
    • 1
    • 2
  1. 1.Key Laboratory of Agriculture Biological Functional Gene of Heilongjiang Provincial Education CommitteeNortheast Agricultural UniversityHarbinPeople’s Republic of China
  2. 2.State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant ProtectionChinese Academy of Agricultural SciencesBeijingPeople’s Republic of China

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