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http://dx.doi.org/10.7845/kjm.2017.7059

Complete genome sequence of Herbaspirillum sp. meg3 isolated from soil  

Kim, Ye-Eun (Department of Biology, Jeju National University)
Do, Kyoung-Tag (Department of Animal Biotechnology, Jeju National University)
Unno, Tatsuya (Department of Molecular Biotechnology, Jeju National University)
Park, Soo-Je (Department of Biology, Jeju National University)
Publication Information
Korean Journal of Microbiology / v.53, no.4, 2017 , pp. 326-328 More about this Journal
Abstract
Herbaspirillum sp. meg3 belonging to Betaproteobacteria was isolated from soil in Jeju island. Here, we report the complete genome sequence of strain meg3 with a size of approximately 5.47 Mb and a mean G + C content of 57.1%. The genome included 4,816 coding sequences, and 9 ribosomal RNA and 51 transfer RNA genes. In the genome, two incomplete prophage regions have been identified. Also, we propose that strain meg3 has a potential capability for aromatic-compounds degradation based on the result of genome analysis.
Keywords
Herbaspirillum; genome; soil;
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1 Bajerski, F., Ganzert, L., Mangelsdorf, K., Lipski, A., Busse, H.J., Padur, L., and Wagner, D. 2013. Herbaspirillum psychrotolerans sp. nov., a member of the family Oxalobacteraceae from a glacier forefield. Int. J. Syst. Evol. Microbiol. 63, 3197-3203.   DOI
2 Baldani, J.I., Baldani, V.L.D., Seldin, L., and Döbereiner, J. 1986. Characterization of Herbaspirillum seropedicae gen. nov., sp. nov., a root-associated nitrogen-fixing bacterium. Int. J. Syst. Bacteriol. 36, 86-93.   DOI
3 Baldani, J.I., Pot, B., Kirchhof, G., Falsen, E., Baldani, V.L., Olivares, F.L., Hoste, B., Kersters, K., Hartmann, A., Gillis, M., et al. 1996. Emended description of Herbaspirillum; inclusion of [Pseudomonas] rubrisubalbicans, a milk plant pathogen, as Herbaspirillum rubrisubalbicans comb. nov.; and classification of a group of clinical isolates (EF group 1) as Herbaspirillum species 3. Int. J. Syst. Bacteriol. 46, 802-810.   DOI
4 Carro, L., Rivas, R., Leon-Barrios, M., Gonzalez-Tirante, M., Velazquez, E., and Valverde, A. 2012. Herbaspirillum canariense sp. nov., Herbaspirillum aurantiacum sp. nov. and Herbaspirillum soli sp. nov., isolated from volcanic mountain soil, and emended description of the genus Herbaspirillum. Int. J. Syst. Evol. Microbiol. 62, 1300-1306.   DOI
5 Ding, L. and Yokota, A. 2004. Proposals of Curvibacter gracilis gen. nov., sp. nov. and Herbaspirillum putei sp. nov. for bacterial strains isolated from well water and reclassification of [Pseudomonas] huttiensis, [Pseudomonas] lanceolata, [Aquaspirillum] delicatum and [Aquaspirillum] autotrophicum as Herbaspirillum huttiense comb. nov., Curvibacter lanceolatus comb. nov., Curvibacter delicatus comb. nov. and Herbaspirillum autotrophicum comb. nov. Int. J. Syst. Evol. Microbiol. 54, 2223-2230.   DOI
6 Dobritsa, A.P., Reddy, M.C., and Samadpour, M. 2010. Reclassification of Herbaspirillum putei as a later heterotypic synonym of Herbaspirillum huttiense, with the description of H. huttiense subsp. huttiense subsp. nov. and H. huttiense subsp. putei subsp. nov., comb. nov., and description of Herbaspirillum aquaticum sp. nov. Int. J. Syst. Evol. Microbiol. 60, 1418-1426.   DOI
7 Grissa, I., Vergnaud, G., and Pourcel, C. 2007. CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats. Nucleic Acids Res. 35, W52-W57.   DOI
8 Im, W.T., Bae, H.S., Yokota, A., and Lee, S.T. 2004. Herbaspirillum chlorophenolicum sp. nov., a 4-chlorophenol-degrading bacterium. Int. J. Syst. Evol. Microbiol. 54, 851-855.   DOI
9 Jung, S.Y., Lee, M.H., Oh, T.K., and Yoon, J.H. 2007. Herbaspirillum rhizosphaerae sp. nov., isolated from rhizosphere soil of Allium victorialis var. platyphyllum. Int. J. Syst. Evol. Microbiol. 57, 2284-2288.   DOI
10 Kirchhof, G., Eckert, B., Stoffels, M., Baldani, J.I., Reis, V.M., and Hartmann, A. 2001. Herbaspirillum frisingense sp. nov., a new nitrogen-fixing bacterial species that occurs in C4-fibre plants. Int. J. Syst. Evol. Microbiol. 51, 157-168.   DOI
11 Lagier, J.C., Gimenez, G., Robert, C., Raoult, D., and Fournier, P.E. 2012. Non-contiguous finished genome sequence and description of Herbaspirillum massiliense sp. nov. Stand Genomic Sci. 7, 200-209.
12 Rothballer, M., Schmid, M., Klein, I., Gattinger, A., Grundmann, S., and Hartmann, A. 2006. Herbaspirillum hiltneri sp. nov., isolated from surface-sterilized wheat roots. Int. J. Syst. Evol. Microbiol. 56, 1341-1348.   DOI
13 Seemann, T. 2014. Prokka: rapid prokaryotic genome annotation. Bioinformatics 30, 2068-2069.   DOI
14 Valverde, A., Velazquez, E., Gutierrez, C., Cervantes, E., Ventosa, A., and Igual, J.M. 2003. Herbaspirillum lusitanum sp. nov., a novel nitrogen-fixing bacterium associated with root nodules of Phaseolus vulgaris. Int. J. Syst. Evol. Microbiol. 53, 1979-1983.   DOI
15 Zhou, Y., Liang, Y., Lynch, K.H., Dennis, J.J., and Wishart, D.S. 2011. PHAST: a fast phage search tool. Nucleic Acids Res. 39, W347-W352.   DOI