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Abstract

A novel actinomycete, designated strain NEAU-C151, was isolated from soil collected from Mount Song and characterized using a polyphasic approach. Analysis of the 16S rRNA gene sequence indicated that strain NEAU-C151 belongs to the genus and exhibited 97.5, 97.4 and 97.4 % similarities to NRRL 2936, AS-0823, and ISP 5166, respectively. The assignment of strain NEAU-C151 to the genus was confirmed by chemotaxonomic data: -C, C, -C, C (ω7c) and -C as the major cellular fatty acids; whole-cell sugars contained ribose and glucose; phospholipid profile consisted of diphosphatidylglycerol (DPG), phosphatidylethanolamine (PE), unidentified phospholipid (PL), unidentified lipids (L) and phosphatidylinositol mannoside (PIM); the menaquinones were MK-9(H), MK-9(H), MK-10(H) and MK-9(H). However, multilocus sequence analysis based on five other house-keeping genes (DBA, B and B), DNA–DNA relatedness and phenotypic data showed that strain NEAU-C151 could be distinguished from its closest relatives. Consequently, strain NEAU-C151 represents a novel species of the genus , for which the name sp. nov. is proposed. The type strain is NEAU-C151 (=CGMCC 4.7498=DSM 107808).

Funding
This study was supported by the:
  • the National Natural Science Foundation of China (Award 31872037)
    • Principle Award Recipient: Wensheng Xiang
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2020-04-24
2024-04-24
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References

  1. Liu DL, Yan R, YS F, Wang XJ, Zhang J et al. Antifungal, plant growth-promoting and genomic properties of an endophytic actinobacterium Streptomyces sp. NEAU-S7GS2. Front Microbiol 2017; 2019:10
    [Google Scholar]
  2. Li C, He H, Wang J, Liu H, Wang H et al. Characterization of a LAL-type regulator NemR in nemadectin biosynthesis and its application for increasing nemadectin production in Streptomyces cyaneogriseus . Sci China Life Sci 2019; 62:394–405 [View Article][PubMed][PubMed]
    [Google Scholar]
  3. Zhao J, Han L, Yu M, Cao P, Li D et al. Characterization of Streptomyces sporangiiformans sp. nov., a novel soil actinomycete with antibacterial activity against Ralstonia solanacearum . Microorganisms 2019; 7:360 [View Article][PubMed][PubMed]
    [Google Scholar]
  4. Atlas RM. Handbook of microbiological media. In Parks LC. editor Microbiology Boca Raton: CRC Press; 1993
    [Google Scholar]
  5. Shirling EB, Gottlieb D. Methods for characterization of Streptomyces species. Int J Syst Bacteriol 1966; 16:313–340 [View Article]
    [Google Scholar]
  6. Jin L, Zhao Y, Song W, Duan L, Jiang S et al. Streptomyces inhibens sp. nov., a novel actinomycete isolated from rhizosphere soil of wheat (Triticum aestivum L.). Int J Syst Evol Microbiol 2019; 69:688–695 [View Article][PubMed][PubMed]
    [Google Scholar]
  7. Jones KL. Fresh isolates of actinomycetes in which the presence of sporogenous aerial mycelia is a fluctuating characteristic. J Bacteriol 1949; 57:141–145 [View Article][PubMed][PubMed]
    [Google Scholar]
  8. Kelly KL. Inter-society colour council-national Bureau of standards colour-name charts illustrated with centroid colours published in US; 1964
  9. Fu Y, Yan R, Liu D, Jiang S, Cui L et al. Trinickia diaoshuihuensis sp. nov., a plant growth promoting bacterium isolated from soil. Int J Syst Evol Microbiol 2019; 69:291–296 [View Article][PubMed][PubMed]
    [Google Scholar]
  10. 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 [View Article][PubMed][PubMed]
    [Google Scholar]
  11. 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 [View Article]
    [Google Scholar]
  12. Yokota A, Tamura T, Hasegawa T, Huang LH. Catenuloplanes japonicas gen. nov., sp. nov., nom. rev., a new genus of the order Actinomycetales . Int J Syst Bacteriol 1993; 43:805–812 [View Article]
    [Google Scholar]
  13. Williams ST, Goodfellow M, Alderson G. Genus Streptomyces Waksman and Henrici 1943, 339AL . In Williams ST, Sharpe ME, Holt JG. (editors) Bergey’s Manual of Systematic Bacteriology 4 Baltimore: Williams & Willkins; 1989 pp 2453–2492
    [Google Scholar]
  14. 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 [View Article][PubMed][PubMed]
    [Google Scholar]
  15. Lechevalier MP, Lechevalier HA. The chemotaxonomy of actinomycetes. In Dietz A, Thayer DW. (editors) Actinomycete Taxonomy Special Publication 6 Society of Industrial Microbiology; 1980 pp 227–291
    [Google Scholar]
  16. 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 [View Article]
    [Google Scholar]
  17. Collins MD. Chemical Methods in Bacterial Systematics. In Goodfellow M, Minnikin DE. (editors) Isoprenoid Quinone Analyses in Bacterial Classification and Identification London: Academic Press; 1985 pp 267–284
    [Google Scholar]
  18. Wu C, Lu X, Qin M, Wang Y, Ruan J. Analysis of menaquinone compound in microbial cells by HPLC. Microbiology 1989; 16:176–178
    [Google Scholar]
  19. 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 [View Article][PubMed][PubMed]
    [Google Scholar]
  20. 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 [View Article][PubMed][PubMed]
    [Google Scholar]
  21. 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 Pt 6:2031–2036 [View Article][PubMed][PubMed]
    [Google Scholar]
  22. Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 1994; 22:4673–4680 [View Article][PubMed][PubMed]
    [Google Scholar]
  23. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4:406–425 [View Article][PubMed][PubMed]
    [Google Scholar]
  24. Felsenstein J. Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 1981; 17:368–376 [View Article][PubMed][PubMed]
    [Google Scholar]
  25. Kumar S, Stecher G, Tamura K. MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 2016; 33:1870–1874 [View Article][PubMed][PubMed]
    [Google Scholar]
  26. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39:783–791 [View Article]
    [Google Scholar]
  27. 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 [View Article][PubMed][PubMed]
    [Google Scholar]
  28. Yoon S-H, Ha S-M, 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 [View Article][PubMed][PubMed]
    [Google Scholar]
  29. Chun J, Oren A, Ventosa A, Christensen H, Arahal DR et al. Proposed minimal standards for the use of genome data for the taxonomy of prokaryotes. Int J Syst Evol Microbiol 2018; 68:461–466 [View Article][PubMed][PubMed]
    [Google Scholar]
  30. De Ley J, Cattoir H, Reynaerts A. The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 1970; 12:133–142 [View Article][PubMed][PubMed]
    [Google Scholar]
  31. Huss VA, Festl H, Schleifer KH. Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 1983; 4:184–192 [View Article][PubMed][PubMed]
    [Google Scholar]
  32. Yoon S-H, Ha S-M, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017; 110:1281–1286 [View Article][PubMed][PubMed]
    [Google Scholar]
  33. Meier-Kolthoff JP, Auch AF, Klenk H-P, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013; 14:60 [View Article][PubMed][PubMed]
    [Google Scholar]
  34. Li R, Zhu H, Ruan J, Qian W, Fang X et al. De novo assembly of human genomes with massively parallel short read sequencing. Genome Res 2010; 20:265–272 [View Article][PubMed][PubMed]
    [Google Scholar]
  35. Li R, Li Y, Kristiansen K, Wang J. Soap: short oligonucleotide alignment program. Bioinformatics 2008; 24:713–714 [View Article][PubMed][PubMed]
    [Google Scholar]
  36. 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]
  37. Richter M, Rosselló-Móra R. Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci U S A 2009; 106:19126–19131 [View Article][PubMed][PubMed]
    [Google Scholar]
  38. Chun J, Rainey FA. Integrating genomics into the taxonomy and systematics of the bacteria and archaea. Int J Syst Evol Microbiol 2014; 64:316–324 [View Article][PubMed][PubMed]
    [Google Scholar]
  39. Zhao J, Li D, Jiang H, Han L, Jiang S et al. Streptomyces xiangluensis sp. nov., a novel actinomycete isolated from soil. Antonie van Leeuwenhoek 2018; 111:2249–2256 [View Article][PubMed][PubMed]
    [Google Scholar]
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