1887

Abstract

We investigated the taxonomic relationship between , , and . Digital DNA–DNA hybridisation using whole genome sequences and multilocus sequence analysis indicated that and belong to the same genomospecies. Previously reported phenotypic data also supported this synonymy. Therefore, and should be reclassified as later heterotypic synonyms of . The type strain of is NBRC 12839 (=ATCC 23880=CBS 660.68=RIA 1198=CGMCC 4.1591=DSM 40284=JCM 4228=JCM 4621=KCTC 9694=NRRL 2421=NRRL ISP-5284=VKM Ac-1824). This study also revealed that genome sequence-published NRRL F-8817 should be reclassified into .

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2020-01-07
2020-01-24
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References

  1. Waksman SA.Family Actinomycetaceae Buchanan and family Steptomycetaceae Waksman and Henrici In Breed RS, Murray EGD, Smith NR. (editors) Bergey's Manual of Determinative Bacteriology, 7th ed. Baltimore: The Williams & Wilkins Co; 1957; pp744–825
    [Google Scholar]
  2. Shirling EB, Gottlieb D. Cooperative description of type cultures of Streptomyces III. Additional species descriptions from first and second studies. Int J Syst Bacteriol 1968;18:279–392 [CrossRef]
    [Google Scholar]
  3. Gauze GF, Preobrazhenskaya TP, Sveshnikova MA, Terekhova LP, Maximova TS. A Guide for the Determination of Actinomycetes. Genera Streptomyces, Streptoverticillium, and Chainia Nauk, Moscow, URSS; 1983
    [Google Scholar]
  4. Validation List no. 22. Int J Syst Bacteriol 1986;36:573–576
    [Google Scholar]
  5. Goodfellow M, Kumar Y, Labeda DP, Sembiring L. The Streptomyces violaceusniger clade: a home for Streptomycetes with rugose ornamented spores. Antonie van Leeuwenhoek 2007;92:173–199 [CrossRef]
    [Google Scholar]
  6. El-Naggar MY. Kosinostatin, a major secondary metabolite isolated from the culture filtrate of Streptomyces violaceusniger strain HAL64. J Microbiol 2007;45:262–267
    [Google Scholar]
  7. Hayashi K, Hashimoto M, Shigematsu N, Nishikawa M, Ezaki M et al. WS9326A, a novel tachykinin antagonist isolated from Streptomyces violaceusniger no. 9326. I. Taxonomy, fermentation, isolation, physico-chemical properties and biological activities. J Antibiot 1992;45:1055–1063 [CrossRef]
    [Google Scholar]
  8. Kojiri K, Nakajima S, Fuse A, Suzuki H, Suda H. BE-24566B, a new antibiotic produced by Streptomyces violaceusniger. J Antibiot 1995;48:1506–1508 [CrossRef]
    [Google Scholar]
  9. Tripathi CKM, Praveen V, Singh V, Bihari V. Production of antibacterial and antifungal metabolites by Streptomyces violaceusniger and media optimization studies for the maximum metabolite production. Med Chem Res 2004;13:790–799 [CrossRef]
    [Google Scholar]
  10. Ubukata M, Shiraishi N, Kobinata K, Kudo T, Yamaguchi I et al. RS-22A, B and C: new macrolide antibiotics from Streptomyces violaceusniger. I. Taxonomy, fermentation, isolation and biological activities. J Antibiot 1995;48:289–292 [CrossRef]
    [Google Scholar]
  11. Yoshimura S, Otsuka T, Tsurumi Y, Muramatsu Y, Hatanaka H et al. WA8242A1, A2 and B, novel secretory phospholipase A2 inhibitors produced by Streptomyces violaceusniger. I. Taxonomy, production and purification. J Antibiot 1998;51:1–7 [CrossRef]
    [Google Scholar]
  12. Höltzel A, Kempter C, Metzger JW, Jung G, Groth I et al. Spirofungin, a new antifungal antibiotic from Streptomyces violaceusniger Tü 4113. J Antibiot 1998;51:699–707 [CrossRef]
    [Google Scholar]
  13. Rosselló-Móra R, Amann R. Past and future species definitions for bacteria and archaea. Syst Appl Microbiol 2015;38:209–216 [CrossRef]
    [Google Scholar]
  14. Saito H, Miura K. Preparation of transforming deoxyribonucleic acid by phenol treatment. Biochim Biophys Acta 1963;72:619–629 [CrossRef]
    [Google Scholar]
  15. Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M. Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 2013;14:60 [CrossRef]
    [Google Scholar]
  16. Komaki H, Ichikawa N, Oguchi A, Hamada M, Tamura T et al. Genome analysis-based reclassification of Streptomyces endus and Streptomyces sporocinereus as later heterotypic synonyms of Streptomyces hygroscopicus subsp. hygroscopicus. Int J Syst Evol Microbiol 2017;67:343–345 [CrossRef]
    [Google Scholar]
  17. Yoon S, Ha S, Lim J, Kwon S, Chun J. A large-scale evaluation of algorithms to calculate average nucleotide identity. Antonie van Leeuwenhoek 2017;110:1281–1286 [CrossRef]
    [Google Scholar]
  18. Yoon S, Ha S, 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]
    [Google Scholar]
  19. Wayne LG, Moore WEC, Stackebrandt E, Kandler O, Colwell RR et al. 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]
  20. 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]
  21. Rong X, Huang Y. Taxonomic evaluation of the Streptomyces hygroscopicus clade using multilocus sequence analysis and DNA-DNA hybridization, validating the MLSA scheme for systematics of the whole genus. Syst Appl Microbiol 2012;35:7–18 [CrossRef]
    [Google Scholar]
  22. Kämpfer P.Genus I. Streptomyces Waksman and Henrici 1943, 399AL emend. Witt and Stackbrandt 1990, 370 emend. Wellington, Stackebrandt, Sanders, Wolstrup and Jorgensen 1992, 159 In Whitman WB, Parte A, Goodfellow M, Kämpfer P, Busse H. (editors) Bergey's Manual of Systematic Bacteriology: The Actinobacteria Part A New York: Springer; 2012; pp1455–1781
    [Google Scholar]
  23. Kumar Y, Goodfellow M. Five new members of the Streptomyces violaceusniger 16S rRNA gene clade: Streptomyces castelarensis sp. nov., comb. nov., Streptomyces himastatinicus sp. nov., Streptomyces mordarskii sp. nov., Streptomyces rapamycinicus sp. nov. and Streptomyces ruanii sp. nov. Int J Syst Evol Microbiol 2008;58:1369–1378 [CrossRef]
    [Google Scholar]
  24. Hatanaka H, Iwami M, Kino T, Goto T, Okuhara M. FR-900520 and FR-900523, novel immunosuppressants isolated from a Streptomyces. I. Taxonomy of the producing strain. J Antibiot 1988;41:1586–1591 [CrossRef]
    [Google Scholar]
  25. Saintpierre D, Amir H, Pineau R, Sembiring L, Goodfellow M. Streptomyces yatensis sp. nov., a novel bioactive streptomycete isolated from a New-Caledonian ultramafic soil. Antonie van Leeuwenhoek 2003;83:21–26 [CrossRef]
    [Google Scholar]
  26. Cercós AP. Streptomyces rutgersensis var. castelarense n. var. Nuevas propiedades de la canfomicina. Rev Invest Agric 1954;8:263–283
    [Google Scholar]
  27. Leben C, Stessel GJ, Keitt GW. Helixin, an antibiotic active against certain fungi and bacteria. Mycologia 1952;44:159–169 [CrossRef]
    [Google Scholar]
  28. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987;4:406–425 [CrossRef]
    [Google Scholar]
  29. Kumar S, Stecher G, Li M, Knyaz C, Tamura K. MEGA X: Molecular Evolutionary Genetics Analysis Across Computing Platforms. Mol Biol Evol 2018;35:1547–1549 [CrossRef]
    [Google Scholar]
  30. Ikeda H, Ishikawa J, Hanamoto A, Shinose M, Kikuchi H et al. Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis. Nat Biotechnol 2003;21:526–531 [CrossRef]
    [Google Scholar]
  31. Suroto DA, Kitani S, Arai M, Ikeda H, Nihira T. Characterization of the biosynthetic gene cluster for cryptic phthoxazolin A in Streptomyces avermitilis. PLoS One 2018;13:e0190973 [CrossRef]
    [Google Scholar]
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