Differentiation of Streptomyces spp. which cause potato scab disease on the basis of partial rpoB gene sequences

• Published in: Systematic and applied microbiology 2007-07, Vol.30 (5), p.401-407
• Main Authors: Mun, Ho-Suk, Oh, Eun-Ju, Kim, Hyun-Ju, Lee, Keun-Hwa, Koh, Young-Hwan, Kim, Chang-Jin, Hyun, Jin-Won, Kim, Bum-Joon
• Format: Article
• Language: English
• Subjects: bacterial diseases of plants; bacterial proteins; Bacteriological methods and techniques used in bacteriology; Bacteriology; Biological and medical sciences; Differentiation; DNA, Ribosomal - analysis; DNA-Directed RNA Polymerases - genetics; Fundamental and applied biological sciences. Psychology; microbial genetics; Microbiology; Molecular Sequence Data; Phylogeny; Plant Diseases - microbiology; Potato scab; potatoes; ribosomal RNA; RNA, Ribosomal, 16S - analysis; RNA, Ribosomal, 16S - genetics; rpoB gene; scab diseases; sequence analysis; Solanum tuberosum; Solanum tuberosum - microbiology; Streptomyces; Streptomyces - classification; Streptomyces - genetics; Streptomyces spp; taxonomy
• ISSN: 0723-2020; 1618-0984
• DOI: 10.1016/j.syapm.2007.01.003

In a previous study, we found that the phylogenetic analysis of partial rpoB sequences can be used effectively to phylogenetically differentiate Streptomyces spp. [B.J. Kim, C.J. Kim, J. Chun, Y.H. Koh, S.H. Lee, J.W. Hyun, C.Y. Cha, Y.H. Kook, Phylogenetic analysis of the genera Streptomyces and Kitasatospora based on partial RNA polymerase beta-subunit gene ( rpoB) sequences, Int. J. Syst. Evol. Microbiol. 54 (2004) 593–598]. In the present study, we analyzed the partial rpoB gene sequences of 19 reference Streptomyces strains associated with potato scab. Furthermore, to empirically confirm the usefulness of rpoB gene analysis for the phylogenetic differentiation of Streptomyces spp., we applied the proposed system to 27 potato scab isolates obtained from the Korean provinces of Jeju-do and Kangwon-do. Phylogenetic relationships among these isolates using the devised rpoB gene-based methods were generally similar to those reported for 16S rRNA gene-based analysis. Isolates from potato scab lesion in Korea were also clearly differentiated into their phylogenetic groups by this method. In addition, the deduced RpoB amino acid sequences were also found to be useful for differentiating these strains. Our data demonstrate that the rpoB gene-based method can be used as a means of complementing other genetic methods such as 16S rRNA gene analysis or DNA–DNA hybridization to phylogenetically differentiate potato scab related Streptomyces spp.