Abstract
A bacterial strain IB-4, antagonistic to plant pathogenic fungi of the genera Fusarium, Bipolaris, and Alternaria, was isolated from arable soils of the Mechetlinskii district, Bashkortostan. Physiological, biochemical, and culture morphological properties of strain IB-4 supported its classification within the genus Pseudomonas. In spite of some discrepancies in the results of phenotypic and chemotaxonomic research, analysis of the 16S rRNA gene sequence, DNA–DNA hybridization, GC-content, and MALDI mass spectral data provide considerable evidence supporting its identification as a Pseudomonas koreensis strain. P. koreensis strain IB-4 was shown to possess the valuable features characteristic of PGPR microorganisms: antifungal and nitrogenase activities and ability to synthesize indole-3-acetic acid (IAA) and cytokinin-like compounds. Field test, in which potato plants were treated with the culture liquid of P. koreensis strain IB-4 revealed a positive effect on potato yield and resistance to plant pathogens.
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References
Benizri, E., Baudoin, E., and Guckert, A., Root colonization by inoculated plant growth-promoting rhizobacteria, Biocontrol. Sci. Technol., 2001, vol. 11, pp. 557–574.
Camacho, C., Coulouris, G., Avagyan, V., Ma, N., Papadopoulus, J., Bealer, K., and Madden, T.L., BLAST+: architecture and applications, BMC Bioinformatics, 2009, vol. 10, p. 421.
Chetverikov, S.P. and Loginov, O.N., New metabolites of Azotobacter vinelandii exhibiting antifungal activity, Microbiology (Moscow), vol. 78, no. 4, pp. 428–432.
Collins, M.D., Analysis of isoprenoid quinones, Methods Microbiol., 1985, vol. 18, pp. 329–363.
De Ley, J., Cattior, K., and Reynaerts, A., The quantitative measurement of DNA hybridization from renaturation rates, Eur. J. Biochem., 1970, vol. 12, pp. 133–142.
Dzerzhinskaya, I.S., Pitatel’nye sredy dlya vydeleniya i kul’tivirovaniya mikroorganizmov (Nutrient Media for Isolation and Cultivation of Microorganisms), Astrakhan’: AGTU, 2008.
Fox, G.E., Wisotzkey, J.D., and Jurtshak, P., How close is close: 16S RNA sequence identity may not be sufficient to guarantee species identity, Int. J. Syst. Bacteriol., 1992, vol. 42, pp. 166–170.
Gosudarstvennyi katalog pestitsidov i agrokhimikatov, razreshennykh k primeneniyu na territorii Rossiiskoi Federatsii (State Catalogue of Pesticides and Agrochemicals Accepted for Application at the Russian Federation Territory), Moscow: Minsel’khoz Rossii, 2013.
Kimura, M., A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences, J. Mol. Evol., 1980, vol. 16, pp. 111–120.
Korshunova, T.Yu., Mukhamatdyarova, S.R., and Loginov, O.N., Taxonomic classification of the oil destructing bacterium using mass spectrometry methods by the results of analysis of cellular proteins and study of cellular fatty acids, Biol. Bull., 2015, vol. 42, no. 3, pp. 220–225.
Korshunova, T.Yu., Chetverikov, S.P., Mukhamatdyarova, S.R., and Loginov, O.N., Oxidative and nitrogenase activity of bacteria Ochrobactrum sp. IB DT-5.3/1, Izv. Samar. Nauch. Tsentr. RAN, 2013, vol. 15, no. 3(5), pp. 1637–1640.
Kudoyarova, G.R., Veselov, S.Yu., Karavajko, N.N., Gyilizade, V.Z., Cheredova, E.P., Mustafina, A.R., Moshkov, I.E., and Kulaeva, O.N., Immunoenzyme test system for assaying cytokinins, Sov. Plant Physiol., 1990, vol. 37, no. 1, pp. 193–199.
Kwon, S.W., Kim, J.S., Park, I.C., Yoon, S.H., Park, D.H., Lim, C.K., and Go, S.J., Pseudomonas koreensis sp. nov., Pseudomonas umsongensis sp. nov. and Pseudomonas jinjuensis sp. nov., novel species from farm soils in Korea, Int. J. Syst. Evol. Microbiol., 2003, vol. 53, pp. 21–27.
Lane, D. J., 16S/23S rRNA sequencing, in Nucleic Acid Techniques in Bacterial Systematic, Stackebrandt, E. and Goodfellow, M., Eds., Chichester: Wiley, 1991, pp. 115–177.
Loginov, O.N., Chetverikov, S.P., Davletshin, T.K., and Kuzina, E.V., RF Patent no. 2529958, Bull. Izobr., 2013, no. 28.
Manual of Methods for General Bacteriology, Gerhardt, P., Murray, R.G.E., Costilow, R.N., Nester, E.W., Wood, W.A., Krieg, N.R., and Phillips, G.B., Eds., Washington: Amer. Soc. Microbiol., 1981.
Owen, R.J., Hill, L.R., and Lapage S.P., Determination of DNA base composition from melting profiles in delute buffers, Biopolimers, 1969, vol. 7, pp. 503–516.
Palleroni, N.J., Genus I. Pseudomonas Migula 1894, in Bergey’s Manual of Systematic Bacteriology, 2nd ed., Boone, D.R., Brenner, R.W., and Staley, J.T., Eds., New York: Springer, 2005, vol. 2, Part B, pp. 323–379.
Pattern, C.L. and Glick, B.R., Role of Pseudomonas putida indolacetic acid in development of the host plant root system, Appl. Environ. Microbiol., 2002, vol. 68, pp. 3795–3801.
Praktikum po mikrobiologii (Practical Course in Microbiology), Netrusov, A.I., Ed., Moscow: Akademiya, 2005.
Tombolini, R., van der Gaag, D.J., Gerhardson, B., and Janson, J., Colonization pattern of the biocontrol strain Pseudomonas chlororaphis MA342 on barley seeds visualized by using green fluorescent protein, Appl. Environ. Microbiol., 1999, vol. 65, pp. 3674–3680.
Saitou, N. and Nei, M., The neighbor-joining method: a new method for reconstructing phylogenetic trees, Mol. Biol. Evol., 1987, vol. 4, pp. 406–425.
Shirokov, A.V., Melent’ev, A.I., Loginov, O.N., and Aktuganov, G.E., Protein and peptide factors from Bacillus sp. 739 inhibit the growth of phytopathogenic fungi, Appl. Biochem. Microbiol., 2002, vol. 38, no. 2, pp. 629–634.
Stackebrandt, E. and Goebel, B.M., Taxonomic note: a place for DNA–DNA reassociation and 16S RNA sequence analysis in the present species definition in bacteriology, Int. J. Syst. Bacteriol., 1994, vol. 44, pp. 846–849.
Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., and Kumar, S., MEGA5: Molecular Evolutionary Genetics Analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods, Mol. Biol. Evol., 2011, vol. 28, pp. 2731–2739.
Tindall, B.J., Rosselló-Móra, R., Busse, H.J., Ludwig, W., and Kämpfer, P., Notes on the characterization of prokaryote strains for taxonomic purposes, Int. J. Syst. Evol. Microbiol., 2010, vol. 60, pp. 249–266.
Welker, M. and Moore, E.R.B., Applications of whole-cell matrix-assisted laser-desorption/ionization time-of-flight mass spectrometry in systematic microbiology, Syst. Appl. Microbiol., 2011, vol. 34, pp. 2–11.
Wilson, K., Preparation of genomic DNA from bacteria, in Current Protocols in Molecular Biology, Ausubel, F.M., Brent, R., Kingston, R.E., Moore, D.D., Seidman, J.G., Smith, J.A., and Struhl, K., Eds., New York: Green Publishing Associates, 1995, pp. 241–245.
Wu, F., Wan Judy Hon, C., Wu, S., and Wong, M., Effects of eathworms and plant growth-promoting rizobacteria (PGPR) on availability of nitrogen, phosphorus, and potassium in soil, J. Plant Nutr. Soil Sci., 2012, vol. 14, pp. 1–4.
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Original Russian Text © G.F. Rafikova, T.Yu. Korshunova, L.F. Minnebaev, S.P. Chetverikov, O.N. Loginov, 2016, published in Mikrobiologiya, 2016, Vol. 85, No. 3, pp. 317–326.
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Rafikova, G.F., Korshunova, T.Y., Minnebaev, L.F. et al. A new bacterial strain, Pseudomonas koreensis IB-4, as a promising agent for plant pathogen biological control. Microbiology 85, 333–341 (2016). https://doi.org/10.1134/S0026261716030115
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DOI: https://doi.org/10.1134/S0026261716030115