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INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY logo

Volume 58, Issue 12

sp. nov., a chitinolytic streptomycete isolated from cerrado soil in Brazil Free

Abstract

A novel chitinolytic actinomycete isolated from a Brazilian cerrado soil, designated strain RCQ1071, was assigned to the genus on the basis of chemical and morphological characteristics. The almost-complete nucleotide sequence of the 16S rRNA gene of strain RCQ1071 was determined and also placed this strain in the genus . Phylogenetic analyses of 16S rRNA gene sequences showed that strain RCQ1071 formed a long branch in a group related to , sharing approximately 98 % sequence similarity. Levels of DNA–DNA relatedness between strain RCQ1071 and members of this group, namely DSM 40492, DSM 40635 and DSM 41793, were 38.3, 27.8 and 46 %, respectively, strongly indicating that strain RCQ1071 was not a member of any of these species. The relatively long branch length within a stable clade together with the phenotypic data strongly supported that strain RCQ1071 represented a novel species. Based on the combination of physiological, phylogenetic and genomic data, strain RCQ1071 is suggested to represent a novel species of the genus , for which the name sp. nov. is proposed. The type strain is RCQ1071 (=ATCC BAA-1231 =CIP 108852 =DSM 41876).

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2008-12-01
2024-04-19
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References

  1. Altschul, S. F., Madden, T. L., Schaffer, A. A., Zhang, J., Zhang, Z., Miller, W. & Lipman, D. J.(1997). Gapped blast and psi-blast: a new generation of protein database search programs. Nucleic Acids Res 25, 3389–3402.[CrossRef] [Google Scholar]
  2. Bryant, T. N.(2004). PIBWin – software for probabilistic identification. J Appl Microbiol 97, 1326–1327.[CrossRef] [Google Scholar]
  3. Cashion, P., Holder-Franklin, M. A., McCully, J. & Franklin, M.(1977). A rapid method for the base ratio determination of bacterial DNA. Anal Biochem 81, 461–466.[CrossRef] [Google Scholar]
  4. Coelho, R. R. R. & Drozdowicz, A.(1978). The occurrence of actinomycetes in a cerrado soil in Brazil. Rev Ecol Biol Sol 15, 459–473. [Google Scholar]
  5. De Ley, J., Cattoir, H. & Reynaerts, A.(1970). The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12, 133–142.[CrossRef] [Google Scholar]
  6. Edwards, U., Rogal, T., Blocker, H., Emde, M. & Bottger, E. C.(1989). Isolation and direct complete nucleotide determination of entire genes. Characterization of a gene coding for 16S ribosomal RNA. Nucleic Acids Res 17, 7843–7853.[CrossRef] [Google Scholar]
  7. Felsenstein, J.(1981). Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17, 368–376.[CrossRef] [Google Scholar]
  8. Gomes, R. C., Semêdo, L. T. A. S., Soares, R. M. A., Alviano, C. S., Linhares, L. F. & Coelho, R. R. R.(2000a). Chitinolytic actinomycetes from a Brazilian tropical soil active against phytopathogenic fungi. World J Microbiol Biotechnol 16, 109–110.[CrossRef] [Google Scholar]
  9. Gomes, R. C., Semêdo, L. T. A. S., Soares, R. M. A., Alviano, C. S., Linhares, L. F. & Coelho, R. R. R.(2000b). Chitinolytic activity of actinomycetes from a cerrado soil and their potential in biocontrol. Lett Appl Microbiol 30, 146–150.[CrossRef] [Google Scholar]
  10. Gomes, R. C., Semêdo, L. T. A. S., Soares, R. M. A., Linhares, L. F., Ulhoa, C. J., Alviano, C. S. & Coelho, R. R. R.(2001). Purification of a thermostable endochitinase from Streptomyces RC1071 isolated from a cerrado soil and its antagonism against phytopathogenic fungi. J Appl Microbiol 90, 653–661.[CrossRef] [Google Scholar]
  11. Goodfellow, M., Ferguson, E. V. & Sanglier, J. J.(1992). Numerical classification and identification of Streptomyces species – a review. Gene 115, 225–233.[CrossRef] [Google Scholar]
  12. 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]
  13. Huang, Y., Li, W., Wang, L., Lanoot, B., Vancanneyt, M., Rodriguez, C., Liu, Z., Swings, J. & Goodfellow, M.(2004).Streptomyces glauciniger sp. nov., a novel mesophilic streptomycete isolated from soil in south China. Int J Syst Evol Microbiol 54, 2085–2089.[CrossRef] [Google Scholar]
  14. Huß, V. A. R., Festl, H. & Schleifer, K. H.(1983). Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4, 184–192.[CrossRef] [Google Scholar]
  15. 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.[CrossRef] [Google Scholar]
  16. Lechevalier, M. P. & Lechevalier, H. A.(1970). Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20, 435–443.[CrossRef] [Google Scholar]
  17. Maidak, B. L., Olsen, G. J., Larsen, N., Overbeek, R., McCaughey, M. J. & Woese, C. R.(1997). The RDP (Ribosomal Database Project). Nucleic Acids Res 25, 109–111.[CrossRef] [Google Scholar]
  18. Nascimento, R. P., Marques, S., Alves, L., Gírio, F., Amaral-Collaço, M. T., Sacramento, D. R., Bon, E. P. S. & Coelho, R. R. R.(2003). A novel strain of Streptomyces malaysiensis isolated from Brazilian soil produces high endo-β-1,4-xylanase titres. World J Microbiol Biotechnol 19, 879–881.[CrossRef] [Google Scholar]
  19. Rintala, H., Nevalainem, A., Rökä, E. & Suutari, M.(2001). PCR primers targeting the 16S rDNA gene for the specific detection of streptomycetes. Mol Cell Probes 15, 337–347.[CrossRef] [Google Scholar]
  20. Saitou, N. & Nei, M.(1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406–425. [Google Scholar]
  21. Sakai, K., Yokota, A., Kurokawa, H., Wakayama, M. & Moriguchi, M.(1998). Purification and characterization of three thermostable endochitinases of a noble Bacillus strain, MH-1, isolated from chitin-containing compost. Appl Environ Microbiol 64, 3397–3402. [Google Scholar]
  22. Semêdo, L. T. A., Gomes, R. C., Linhares, A. A., Duarte, G. F., Nascimento, R. P., Rosado, A. S., Margis-Pinheiro, M., Margis, R., Silva, K. R. A. & other authors(2004).Streptomyces drozdowiczii sp. nov., a novel cellulolytic streptomycete from soil in Brazil. Int J Syst Evol Microbiol 54, 1323–1328.[CrossRef] [Google Scholar]
  23. Shirling, E. B. & Gottlieb, D.(1966). Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16, 313–340.[CrossRef] [Google Scholar]
  24. Tamura, K., Dudley, J., Nei, M. & Kumar, S.(2007).mega4: molecular evolutionary genetics analysis (mega) software version 4.0. Mol Biol Evol 24, 1596–1599.[CrossRef] [Google Scholar]
  25. 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.[CrossRef] [Google Scholar]
  26. Williams, S. T., Goodfellow, M., Anderson, G., Wellington, E. M. H., Sneath, P. H. A. & Sackin, M. J.(1983a). Numerical classification of Streptomyces and related genera. J Gen Microbiol 129, 1743–1813. [Google Scholar]
  27. Williams, S. T., Goodfellow, M., Anderson, G., Wellington, E. M. H., Vickers, J. C., Alderson, G., Sneath, P. H. A., Sackin, M. J. & Mortimer, A. M.(1983b). A probability matrix for identification of some streptomycetes. J Gen Microbiol 129, 1815–1830. [Google Scholar]
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Streptomyces lunalinharesii sp. nov., a chitinolytic streptomycete isolated from cerrado soil in Brazil
Int J Syst Evol Microbiol 58, 2774 (2008); https://doi.org/10.1099/ijs.0.65768-0
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vol. , part 12, pp. 2774 - 2778

Comparative phenotypic properties that separate sp. nov. RCQ1071 from the type strains of chitinolytic species. [PDF](136 KB)

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