Proposal of gen. nov., sp. nov. and transfer of ( ) to comb. nov. and ( ) to comb. nov. Free

Abstract

The actinomycete strain N74, isolated from cave soil, was studied using a polyphasic taxonomic approach. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain N74 formed a stable, distinct lineage cluster together with NN276 (99.3 % similarity) and JCM 3151 (97.5 %). Strain N74 was observed to produce single spherical spores on aerial mycelium as reported for JCM 3151 and NN276 but different from other known species of the genus , which are characterized by pairs of spores on aerial hyphae. Multilocus sequence analyses based on concatenated partial , , , and 16S rRNA gene sequences showed a clear distinction of strain N74, JCM 3151 and NN276 from other members of the genus , although the chemotaxonomic characteristics of strain N74 were similar to the genus ; the cell wall contained -diaminopimelic acid and the whole-cell hydrolysate contained madurose as the diagnostic sugar. The major menaquinone was MK-9(H). The fatty acid profile contained iso-C. On the basis of morphological, chemotaxonomic and phylogenetic evidence, strain N74 is assigned to a novel species of a new genus, for which the name gen. nov., sp. nov. is proposed. The type strain of is N74 ( = BCC 77604 = NBRC 111481). It is also proposed that and be transferred to this genus as comb. nov. (type strain JCM 3151 = NBRC 14179 = DSM 43048) and comb. nov. (type strain NN276 = BCC 41490 = NBRC 107569), respectively.

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2016-04-01
2024-03-28
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References

  1. Ara I., Kudo T. 2007; Sphaerosporangium gen. nov., a new member of the family Streptosporangiaceae, with descriptions of three new species as Sphaerosporangium melleum sp. nov., Sphaerosporangium rubeum sp. nov. and Sphaerosporangium cinnabarinum sp. nov., and transfer of Streptosporangium viridialbum Nonomura and Ohara 1960 to Sphaerosporangium viridialbum comb. nov. Actinomycetologica 21:11–21 [View Article]
    [Google Scholar]
  2. Azevedo H., Lopes F., Silla P., Hungria M. 2015; A database for the taxonomic and phylogenetic identification of the genus Bradyrhizobium using multilocus sequence analysis. BMC Genomics 16:(Suppl 5)S10 [View Article][PubMed]
    [Google Scholar]
  3. Boondaeng A., Ishida Y., Tamura T., Tokuyama S., Kitpreechavanich V. 2009; Microbispora siamensis sp. nov., a thermotolerant actinomycete isolated from soil. Int J Syst Evol Microbiol 59:3136–3139 [View Article][PubMed]
    [Google Scholar]
  4. Bulina T. I., Alferova I. V., Terekhova L. P. 1997; A novel approach to isolation of actinomycetes involving irradiation of soil samples with microwaves. Microbiology 66:278–282
    [Google Scholar]
  5. Collins M. D., Pirouz T., Goodfellow M., Minnikin D. E. 1977; Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230 [View Article][PubMed]
    [Google Scholar]
  6. Couch J. N. 1955; A new genus and family of the Actinomycetales, with a revision of the genus Actinoplanes . J Elisha Mitchell Sci Soc 71:148–155
    [Google Scholar]
  7. Curtis S. M., Meyers P. R. 2012; Multilocus sequence analysis of the actinobacterial genus Kribbella . Syst Appl Microbiol 35:441–446 [View Article][PubMed]
    [Google Scholar]
  8. Duangmal K., Mingma R., Pathom-aree W., Niyomvong N., Inahashi Y., Matsumoto A., Thamchaipenet A., Takahashi Y. 2012; Microbispora thailandensis sp. nov., an actinomycete isolated from cave soil. J Antibiot (Tokyo) 65:491–494 [View Article][PubMed]
    [Google Scholar]
  9. Ezaki T., Hashimoto Y., Yabuuchi E. 1989; Fluorometric deoxyribonucleic acid–deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39:224–229 [View Article]
    [Google Scholar]
  10. Felsenstein J. 1981; Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376 [View Article][PubMed]
    [Google Scholar]
  11. Felsenstein J. 1985; Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791 [View Article]
    [Google Scholar]
  12. Fitch W. M. 1971; Toward defining the course of evolution: minimal change for a specific tree topology. Syst Zool 20:406–416 [View Article]
    [Google Scholar]
  13. Gerber N. N., Lechevalier M. P. 1964; Phenazines and phenoxazinones from Waksmania aerata sp. nov. and Pseudomonas iodina . Biochemistry 3:598–602 [View Article][PubMed]
    [Google Scholar]
  14. Gevers D., Cohan F. M., Lawrence J. G., Spratt B. G., Coenye T., Feil E. J., Stackebrandt E., Van de Peer Y., Vandamme P., other authors. 2005; Opinion: Re-evaluating prokaryotic species. Nat Rev Microbiol 3:733–739 [View Article][PubMed]
    [Google Scholar]
  15. Goodfellow M., Stanton L. J., Simpson K. E., Minnikin D. E. 1990; Numerical and chemical classification of Actinoplanes and some related actinomycetes. Microbiology 136:19–36
    [Google Scholar]
  16. Goodfellow M., Maldonado L. A., Quintana E. T. 2005; Reclassification of Nonomuraea flexuosa (Meyer 1989) Zhang et al. 1998 as Thermopolyspora flexuosa gen. nov., comb. nov., nom. rev. Int J Syst Evol Microbiol 55:1979–1983 [View Article][PubMed]
    [Google Scholar]
  17. Gordon R. E., Mihm J. M. 1957; A comparative study of some strains received as nocardiae. J Bacteriol 73:15–27[PubMed]
    [Google Scholar]
  18. Gordon R. E., Barnett D. A., Handerhan J. E., Pang C.H.-N. 1974; Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol 24:54–63 [View Article]
    [Google Scholar]
  19. Hall T. A. 1999; BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98
    [Google Scholar]
  20. Hasegawa T., Takizawa M., Tanida S. 1983; A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 29:319–322 [View Article]
    [Google Scholar]
  21. Hayakawa M., Nonomura H. 1987; Humic acid–vitamin agar, a new medium for the selective isolation of soil actinomycetes. J Ferment Technol 65:501–509 [View Article]
    [Google Scholar]
  22. Jacobson E., Grauville W. C., Fogs C. E. 1958 Color Harmony Manual, 4th edn. Chicago: Container Corporation of America;
    [Google Scholar]
  23. Kieser T., Bibb M. J., Buttner M. J., Chater K. F., Hopwood D. A. 2000 Practical Streptomyces Genetics Norwich: John Innes Foundation;
    [Google Scholar]
  24. Kimura M. 1980; A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16:111–120 [View Article][PubMed]
    [Google Scholar]
  25. Kroppenstedt R. M. 1985; Fatty acid and menaquinone analysis of actinomycetes and related organisms. In Chemical Methods in Bacterial Systematics pp 173–199Edited by Goodfellow M., Minnikin D. E. London: Academic Press;
    [Google Scholar]
  26. Kroppenstedt R. M., Goodfellow M. 1992; The family Thermomonosporaceae . In The Prokaryotes pp 1085–1114Edited by Balows A., Trüper H. G., Dworkin M., Harder W., Schleifer K.-H. New York: Springer;
    [Google Scholar]
  27. Kudo T., Itoh T., Miyadoh S., Shomura T., Seino A. 1993; Herbidospora gen. nov., a new genus of the family Streptosporangiaceae Goodfellow et al. 1990. Int J Syst Bacteriol 43:319–328 [View Article][PubMed]
    [Google Scholar]
  28. Lechevalier M. P., Lechevalier H. 1970; Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20:435–443 [View Article]
    [Google Scholar]
  29. Lechevalier H. A., Lechevalier M. P., Gerber N. N. 1971; Chemical composition as a criterion in the classification of actinomycetes. Adv Appl Microbiol 14:47–72 [View Article][PubMed]
    [Google Scholar]
  30. Lechevalier M. P., De Bievre C., Lechevalier H. A. 1977; Chemotaxonomy of aerobic Actinomycetes: phospholipid composition. Biochem Syst Ecol 5:249–260 [View Article]
    [Google Scholar]
  31. Li C., Zhang Y., Liu C., Wang H., Zhao J., Li L., Zhang Z., Wang X., Xiang W. 2015; Microbispora bryophytorum sp. nov., an actinomycete isolated from moss (Bryophyta). Int J Syst Evol Microbiol 65:1274–1279 [View Article][PubMed]
    [Google Scholar]
  32. Minnikin D. E., Patel P. V., Alshamaony L., Goodfellow M. 1977; Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 27:104–117 [View Article]
    [Google Scholar]
  33. Miyadoh S., Amano S., Tohyama H., Shomura T. 1990; A taxonomic review of the genus Microbispora and a proposal to transfer two species to the genus Actinomadura and to combine ten species into Microbispora rosea . J Gen Microbiol 136:1905–1913 [View Article][PubMed]
    [Google Scholar]
  34. Nakajima Y., Kitpreechavanich V., Suzuki K., Kudo T. 1999; Microbispora corallina sp. nov., a new species of the genus Microbispora isolated from Thai soil. Int J Syst Bacteriol 49:1761–1767 [View Article][PubMed]
    [Google Scholar]
  35. Nonomura H., Ohara Y. 1957; Distribution of actinomycetes in the soil. II. Microbispora, a new genus of the Streptomycetaceae . J Ferment Technol 35:307–311
    [Google Scholar]
  36. Nonomura H., Ohara Y. 1960; Distribution of the actinomycetes in soil. IV. The isolation and classification of the genus Microbispora . J Ferment Technol 38:401–405
    [Google Scholar]
  37. Nonomura H., Ohara Y. 1971; Distribution of actinomycetes in soil. X. New genus and species of monosporic actinomycetes. J Ferment Technol 49:895–903
    [Google Scholar]
  38. Pan H. Q., Cheng J., Zhang D. F., Yu S. Y., Khieu T. N., Son C. K., Jiang Z., Hu J. C., Li W. J. 2015; Streptomyces bohaiensis sp. nov., a novel actinomycete isolated from Scomberomorus niphonius in the Bohai Sea. J Antibiot (Tokyo) 68:246–252 [View Article][PubMed]
    [Google Scholar]
  39. Runmao H., Guizhen W., Junying L. 1993; A new genus of actinomycetes, Planotetraspora gen. nov. Int J Syst Bacteriol 43:468–470 [View Article]
    [Google Scholar]
  40. Saito H., Miura K. I. 1963; Preparation of transforming deoxyribonucleic acid by phenol treatment. Biochim Biophys Acta 72:619–629 [View Article][PubMed]
    [Google Scholar]
  41. Saitou N., Nei M. 1987; The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425[PubMed]
    [Google Scholar]
  42. Shirling E. B., Gottlieb D. 1966; Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340 [View Article]
    [Google Scholar]
  43. Staneck J. L., Roberts G. D. 1974; Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28:226–231[PubMed]
    [Google Scholar]
  44. Také A., Matsumoto A., O¯mura S., Takahashi Y. 2015; Streptomyces lactacystinicus sp. nov. and Streptomyces cyslabdanicus sp. nov., producing lactacystin and cyslabdan, respectively. J Antibiot (Tokyo) 68:322–327 [View Article][PubMed]
    [Google Scholar]
  45. Tamaoka J., Komagata K. 1984; Determination of DNA base composition by reversed-phase high-performance liquid chromatography. FEMS Microbiol Lett 25:125–128 [View Article]
    [Google Scholar]
  46. Tamura T., Suzuki S., Hatano K. 2000; Acrocarpospora gen. nov., a new genus of the order Actinomycetales . Int J Syst Evol Microbiol 50:1163–1171 [View Article][PubMed]
    [Google Scholar]
  47. Tamura T., Matsuzawa T., Oji S., Ichikawa N., Hosoyama A., Katsumata H., Yamazoe A., Hamada M., Suzuki K., other authors. 2012; A genome sequence-based approach to taxonomy of the genus Nocardia . Antonie van Leeuwenhoek 102:481–491 [View Article][PubMed]
    [Google Scholar]
  48. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. 2013; mega6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729 [View Article][PubMed]
    [Google Scholar]
  49. Thiemann J. E., Beretta G. 1968; A new genus of the Actinoplanaceae: Planobispora, gen. nov. Arch Mikrobiol 62:157–166 [View Article][PubMed]
    [Google Scholar]
  50. Thiemann J. E., Pagani H., Beretta G. 1967; A new genus of the Actinoplanaceae: Planomonospora, gen. nov. Giorn Microbiol 15:27–38
    [Google Scholar]
  51. Thiemann J. E., Pagani H., Beretta G. 1968; A new genus of the Actinomycetales: Microtetraspora gen. nov. J Gen Microbiol 50:295–303 [View Article][PubMed]
    [Google Scholar]
  52. Tomiyasu I. 1982; Mycolic acid composition and thermally adaptative changes in Nocardia asteroides . J Bacteriol 151:828–837[PubMed]
    [Google Scholar]
  53. Uchida K., Aida K. 1977; Acyl type of bacterial cell wall: its simple identification by a colorimetric method. J Gen Appl Microbiol 23:249–260 [View Article]
    [Google Scholar]
  54. Wayne L. G., Brenner D. J., Colwell R. R., Grimont P. A. D., Kandler O., Krichevsky M. I., Moore L. H., Moore W. E. C., Murray R. G. E., other authors. 1987; International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464 [View Article]
    [Google Scholar]
  55. Xu X. X., Wang H. L., Lin H. P., Wang C., Qu Z., Xie Q. Y., Ruan J. S., Hong K. 2012; Microbispora hainanensis sp. nov., isolated from rhizosphere soil of Excoecaria agallocha in a mangrove. Int J Syst Evol Microbiol 62:2430–2434 [View Article][PubMed]
    [Google Scholar]
  56. Zhang Z., Wang Y., Ruan J. 1998; Reclassification of Thermomonospora and Microtetraspora . Int J Syst Bacteriol 48:411–422 [View Article][PubMed]
    [Google Scholar]
  57. Zhang Y.-Q., Liu H.-Y., Yu L.-Y., Lee J.-C., Park D.-J., Kim C.-J., Xu L.-H., Jiang C.-L., Li W.-J. 2011; Sinosporangium album gen. nov., sp. nov., a new member of the suborder Streptosporangineae . Int J Syst Evol Microbiol 61:592–597 [View Article][PubMed]
    [Google Scholar]
  58. Zhou E.-M., Yang L.-L., Song Z.-Q., Yu T.-T., Nie G.-X., Ming H., Zhou Y., Tang S.-K., Li W.-J. 2012a; Thermocatellispora tengchongensis gen. nov., sp. nov., a new member of the family Streptosporangiaceae . Int J Syst Evol Microbiol 62:2417–2423 [View Article][PubMed]
    [Google Scholar]
  59. Zhou E.-M., Tang S.-K., Sjøholm C., Song Z.-Q., Yu T.-T., Yang L.-L., Ming H., Nie G.-X., Li W.-J. 2012b; Thermoactinospora rubra gen. nov., sp. nov., a thermophilic actinomycete isolated from Tengchong, Yunnan province, south-west China. Antonie van Leeuwenhoek 102:177–185 [View Article][PubMed]
    [Google Scholar]
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