JOURNAL BROWSE
Search
Advanced SearchSearch Tips
Phylogenetic characteristics of actinobacterial population in bamboo (Sasa borealis) soil
facebook(new window)  Pirnt(new window) E-mail(new window) Excel Download
 Title & Authors
Phylogenetic characteristics of actinobacterial population in bamboo (Sasa borealis) soil
Lee, Hyo-Jin; Han, Song-Ih; Whang, Kyung-Sook;
  PDF(new window)
 Abstract
In this study, a pyrosequencing was performed and analyzed to verify the phylogenetic diversity of actinomycetes in the bamboo (Sasa borealis) soil as a base study to obtain the genetic resources of actinomycetes. It was found that the rhizosphere soil had much various distribution in bacterial communities showing a diversity of 8.15 with 2,868 OTUs, while the litter layer showed a diversity of 7.55 with 2,588 OTUs. The bacterial community in the bamboo soil was composed of 35 phyla and the predominant phyla were Proteobacteria (51-60%), Bacteroidetes (16-20%), Acidobacteria (4-16%) and Actinobacteria (4-14%). In particular, Actinobacteria including Micromonosporaceae and Streptomycetaceae had a diverse distribution of actinomycetes within the six orders, 35 families and 121 genera, and it was characterized that about 83% of actinomycetes within Actinomycetales belonged to the 28 families. Among the dominant actinobacterial populations, Micromonosporaceae, Pseudonocardiaceae and Streptomycetaceae were representative family groups in the bamboo soils.
 Keywords
Actinomycetales;actinobacterial diversity;bamboo (Sasa borealis);pyrosequencing;
 Language
Korean
 Cited by
 References
1.
Berdy, J. 2005. Bioactive microbial metabolites. J. Antibiot. (Tokyo). 58, 1-26. crossref(new window)

2.
Cole, J.R., Wang, Q., Cardenas, E., Fish, J., Chai, B., Farris, R.J., Kulam-Syed-Mohideen, A.S., McGarrell, D.M., Marsh, T., Garrity, G.M., et al. 2009. The Ribosomal Database Project: improved alignments and new tools for rRNA analysis. Nucleic Acids Res. 37, 141-145.

3.
Cordovez, V., Carrion, V.J., Etalo, D.W., Mumm, R., Zhu, H., van Wezel, G.P., and Raaijmakers, J.M. 2015. Diversity and functions of volatile organic compounds produced by Streptomyces from a disease-suppressive soil. Front. Microbiol. 6, 1081.

4.
Edgar, R.C., Haas, B.J., Clemente, J.C., Quince, C., and Knight, R. 2011. Uchime improves sensitivity and speed of chimera detection. Bioinformatics 27, 2194-2200. crossref(new window)

5.
Hayakawa, M. 2008. Studies on the isolation and distribution of rare actinomycetes in soil. Actinomycetol. 22, 12-19. crossref(new window)

6.
Jog, R., Nareshkumar, G., and Rajkumar, S. 2012. Plant growth promoting potential and soil enzyme production of the most abundant Streptomyces spp. from wheat rhizosphere. J. Appl. Microbiol. 113, 1154-1164. crossref(new window)

7.
Kim, P.K., Kwon, O.S., Lim, C.Y., Park, D.J., and Kim, C.J. 1997. Genus distribution of soil actinomycetes on different depth. Kor. J. Appl. Microbiol. Biotechnol. 5, 534-536.

8.
Lee, H.W., Ahn, J.H., Kim, M.W., Weon, H.Y., Song, J.K., Lee, S.J., and Kim, B.Y. 2013. Diversity and antimicrobial activity of actinomycetes from fecal sample of rhinoceros beetle larvae. Kor. J. Microbiol. 49, 156-164. crossref(new window)

9.
Lee, H.J. and Whang, K.S. 2010. Biodiversity and phylogenetic analysis of Streptomyces collected from bamboo forest soil. Kor. J. Microbiol. 46, 262-269.

10.
Miyadoh, S. 1993. Research on antibiotic screening in Japan over the last decade: a producing microorganism approach. Actinomycetologica 7, 100-106. crossref(new window)

11.
Morales, D.K., Ocampo, W., and Zambrano, M.M. 2007. Efficient removal of hexavalent chromium by a tolerant Streptomyces sp. affected by the toxic effect of metal exposure. J. Appl. Microbiol. 103, 2704-2712. crossref(new window)

12.
Nimnoi, P., Pongsilp, N., and Lumyong, S. 2010. Genetic diversity and community of endophytic actinomycetes within the roots of Aquilaria crassna Pierre ex Lec assessed by actinomycetes-specific PCR and PCR-DGGE of 16S rRNA gene. Biochem. Syst. Ecol. 38, 595-601. crossref(new window)

13.
Olano, C., Mendez, C., and Salas, J.A. 2009. Antitumor compounds from marine actinomycetes. Mar. Drugs 7, 210-248. crossref(new window)

14.
Piepersberg, W. 1994. Pathway engineering in secondary metabolite-producing actinomycetes. Crit. Rev. Biotechnol. 14, 251-285. crossref(new window)

15.
Quince, C., Lanzen, A., Davenport, R.J., and Turnbaugh, P.J. 2011. Removing noise from pyrosequenced amplicons. BMC Bioinformatics 12, 38. crossref(new window)

16.
Schloss, P.D., Westcott, S.L., Ryabin, T., Hall, J.R., Hartmann, M., Hollister, E.B., Lesniewski, R.A., Oakley, B.B., Parks, D.H., Robinson, C.J., et al. 2009. Introducing mothur: open-source, platform-independent, community supported software for describing and comparing microbial communities. Appl. Environ. Microbiol. 75, 7537-7541. crossref(new window)

17.
Sun, W., Dai, S., Jiang, S., Wang, G., Liu, G., Wu, H., and Li, X. 2010. Culture-dependent and culture-independent diversity of Actinobacteria associated with the marine sponge Hymeniacidon perleve from the South China Sea. Antonie van Leeuwenhoek 98, 65-75. crossref(new window)

18.
Takada-Hoshino, Y. and Matsumoto, M. 2004. An improved DNA extraction method using skim milk from soils that strongly adsorb DNA. Microbes Environ. 19, 13-19. crossref(new window)

19.
Warnecke, F., Amann, R., and Pernthaler, J. 2004. Actinobacterial 16S rRNA genes from freshwater habitats cluster in four distinct lineages. Environ. Microbiol. 6, 242-253. crossref(new window)

20.
Whang, K.S. 2001. Taxonomic characteristics of nitrogen-fixing oligotrophic bacteria from forest soil. Kor. J. Microbiol. 37, 114-119.

21.
Yadav, A.K., Kumar, R., Saikia, R., Bora, T.C., and Arora, D.K. 2009. Novel copper resistant and antimicrobial Streptomyces isolated from Bay of Bengal, India. J. Med. Mycol. 19, 234-240. crossref(new window)

22.
Yasir, M., Aslam, Z., Song, G.C., Bibi, F., Jeon, C.O., and Chung, Y.R. 2011. Chitinophaga vermicomposti sp. nov., with antifungal activity, isolated from vermicompost. Int. J. Syst. Evol. Microbiol. 61, 2373-2378. crossref(new window)