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Isolation of bacteria of the genus Paenibacillus from soil and springs of the Valley of Geysers (Kamchatka)

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Abstract

Strains of rod-shaped, facultatively anaerobic, spore-forming bacteria exhibiting negative Gram reaction were revealed after inoculation of soil, water, and silt samples from springs of the Valley of Geysers (Kamchatka) onto complete media at pH 5.0, 7,0, and 9.0 and cultivation at 28–30°C. The bacterial isolates differed in their phenotypic characteristics and in the G + C content of genomic DNA, which ranged from 41.1 to 53 mol %. The analysis of 16S rRNA gene nucleotide sequences of all isolated strains (GenBank EU497635-EU497641) revealed their close homologues among the known species of the genus Paenibacillus. At the same time, all the studied bacilli (Dg-824, Dg-904, Dg-1009, Gi-662, Gi-724, K-58, etc.) differed significantly from the nearest phylogenetic neighbors in their phenotypic characteristics, including the Gram reaction, the DNA G + C content, and a number of other determinative characteristics; therefore, they could not be assigned to previously known species.

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References

  1. Ash, C., Priest, F.G., and Collins, M.D., Molecular Identification of rRNA Group 3 Bacilli (Ash, Farrow, Wallbanks and Collins) Using a PCR Probe Test. Proposal for the Creation of a New Genus Paenibacillus, Antonie van Leeuwenhoek, 1993, vol. 64, pp. 253–260.

    Article  CAS  PubMed  Google Scholar 

  2. Iida, K., Ueda, Y., Kawamura, Y., Ezaki, T., Takade, A., Yoshida, S., and Amako, K., Paenibacillus motobuensis sp. nov., Isolated from a Composting Machine Utilizing Soil from Motobu-Town, Okinawa, Japan, Int. J. Syst. Evol. Microbiol, 2005, vol. 55, pp. 1811–1816.

    Article  CAS  PubMed  Google Scholar 

  3. Šmerda L.J., Sedláĉek I., Páĉová Z., Durnová E., Smíšková A., Havel L. Paenibacillus mendelii sp. nov., from Surface-Sterilized Seeds of Pisum sativum, Int. J. Syst. Evol. Microbiol, 2005, vol. 55, pp. 2351–2354.

    Article  PubMed  Google Scholar 

  4. Elo, S., Suominen, I., Kampfer, P., Juhanoja, J., Salkinoja-Salonen, M., and Haahtela, K., Paenibacillus borealis sp. nov., a Nitrogen-Fixing Species Isolated from Spruce Forest Humus in Finland, Int. J. Syst. Evol. Microbiol, 2001, vol. 51, pp. 535–545.

    CAS  PubMed  Google Scholar 

  5. Takeda, M., Suzuki, I., and Koizumi, J., Paenibacillus hodogayensis sp. nov., Capable of Degrading the Polysaccharide Produced by Sphaerotilus natans, Int. J. Syst. Evol. Microbiol, 2005, vol. 55, pp. 737–741.

    Article  CAS  PubMed  Google Scholar 

  6. Dal-Soo Kim, Cheol-Yong Bae, Jae-Jin Jeon, Sam-Jae Chun Hyun Woo Oh, Soon Gyu Hong, Keun-Sik Baek, Eun Young Moon, and Kyung Sook Bae, Paenibacillus elgii sp. nov., with Broad Antimicrobial Activity, Int. J. Syst. Evol. Microbiol, 2004, vol. 54, pp. 2031–2035.

    Article  CAS  PubMed  Google Scholar 

  7. Saha, P., Mondal, A.K., Mayilraj, S., Krishnamurthi, S., Bhattacharya, A., and Chakrabarti, T., Paenibacillus assamensis sp. nov., a Novel Bacterium Isolated from a Warm Spring in Assam, India, Int. J. Syst. Evol. Microbiol, 2005, vol. 55, pp. 2577–2581.

    Article  CAS  PubMed  Google Scholar 

  8. Montes, M.J., Mercadé, E., Bozal, N., and Guinea, J., Paenibacillus antarcticus sp. nov., a Novel Psychrotolerant Organism from the Antarctic Environment, Int. J. Syst. Evol. Microbiol, 2004, vol. 54, pp. 1521–1526.

    Article  CAS  PubMed  Google Scholar 

  9. Young Ryun Chung, Chung Hwan Kim, Inhwan Hwang, and Jongsik Chun, Paenibacillus koreensis sp. nov., a New Species That Produces an Iturin-Like Antifungal Compound, Int. J. Syst. Evol. Microbiol, 2000, vol. 50, pp. 1495–1500.

    CAS  PubMed  Google Scholar 

  10. Ajithkumar, V.P., Ajithkumar, B., Mori, K., Takamizawa, K., Iriye, R., and Tabata, S., A Novel Filamentous Bacillus sp., Strain NAF001, Forming Endospores and Budding Cells, Microbiology (UK), 2001, vol. 147, pp. 1415–1423.

    CAS  Google Scholar 

  11. Heyrman, J., Vanparys, B., Logan, N.A., Balcaen, A., Rodry’guez-Daz, M., Felske, A., and De Vos, P., Bacillus novalis sp. nov., Bacillus vireti sp. nov., Bacillus soli sp. nov., Bacillus bataviensis sp. nov. and Bacillus drentensis sp. nov., from the Drentse A Grasslands, Int. J. Syst. Evol. Microbiol, 2004, vol. 54, pp. 47–57.

    Article  CAS  PubMed  Google Scholar 

  12. Uetanabaro, P., Wahrenburg, C., Hunger, W., Pukall, R., Sproer, C., Stackebrandt, E., de Canhos, V.P., Claus, D., and Fritze, D., Paenibacillus agarexedens sp. nov., nom. rev., and Paenibacillus agaridevorans sp. nov., Int. J. Syst. Evol. Microbiol, 2003, vol. 53, pp. 1051–1057.

    Article  CAS  PubMed  Google Scholar 

  13. Rodríguez-Díaz M., Lebbe L., Rodelas B., Heyrman J., De Vos P., Logan, N.A., Paenibacillus wynnii sp. nov., a Novel Species Harbouring the nifH Gene, Isolated from Alexander Island, Antarctica, Int. J. Syst. Evol. Microbiol, 2005, vol. 55, pp. 2093–2099.

    Article  PubMed  Google Scholar 

  14. Fortina, M.G., Pukall, R., Schumann, P., Mora, D., Parini, C., Manachini, P.L., and Stackebrandt, E., Ureibacillus gen. nov., a New Genus to Accommodate Bacillus thermosphaericus (Andersson et al. 1995), Emendation of Ureibacillus thermosphaericus and Description of Ureibacillus terrenus sp. nov, Int. J. Syst. Evol. Microbiol, 2001, vol. 51, pp. 447–455.

    CAS  PubMed  Google Scholar 

  15. Touzel, J.P., O’Donohue, M., Debeire, P., Samain, E., and Breton, C., Thermobacillus xylanilyticus gen. nov., sp. nov., a New Aerobic Thermophilic Xylan-Degrading Bacterium Isolated from Farm Soil, Int. J. Syst. Evol. Microbiol, 2000, vol. 50, pp. 315–320.

    CAS  PubMed  Google Scholar 

  16. Takeda, M., Suzuki, I., and Koizumi, J., Paenibacillus hodogayensis sp. nov., Capable of Degrading the Polysaccharide Produced by Sphaerotilus natans, Int. J. Syst. Evol. Microbiol, 2005, vol. 55, pp. 737–741.

    Article  CAS  PubMed  Google Scholar 

  17. Takeda, M., Kamagata, Y., Shinmaru, S., Nishiyama, T., and Koizumi, J., Paenibacillus koleovorans sp. nov., Able to Grow on the Sheath of Sphaerotilus natans, Int. J. Syst. Evol. Microbiol, 2002, vol. 52, pp. 1597–1601.

    Article  CAS  PubMed  Google Scholar 

  18. Kanso, S., Greene, A.C., and Patel, B.K.C., Bacillus subterraneus sp. nov., an Iron- and Manganese-Reducing Bacterium from a Deep Subsurface Australian Thermal Aquifer, Int. J. Syst. Evol. Microbiol, 2002, vol. 52, pp. 869–874.

    Article  CAS  PubMed  Google Scholar 

  19. Yumoto, I., Yamazaki, K., Sawabe, T., Nakano, K., Kawasaki, K., Ezura, Y., and Shinano, H., Bacillus horti sp. nov., a New Gram-Negative Alkaliphilic Bacillus, Int. J. Syst. Bacteriol., 1998, vol. 48, pp. 565–571.

    Article  CAS  PubMed  Google Scholar 

  20. Manual of Methods for General Bacteriology, Gerhardt, P. et al., Eds., Washington: Amer. Soc. Microbiol., 1981 [Russ. Transl. Moscow: Mir, 1984].

    Google Scholar 

  21. Bergey’s Manual of Systematic Bacteriology, 8th ed., vol. 1–2, Holt, J.G., Ed., Baltimore-London: Williams and Wilkins, 1986.

    Google Scholar 

  22. Praktikum po mikrobiologii (Practical guide in Microbiology) N.S,, Ed., Moscow: Mosk. Gos. Univ., 1976, pp. 245–247.

    Google Scholar 

  23. Marmur, J. and Doty, P., Determination of the Base Composition of Deoxyribonucleic Acid from Its Thermal Denaturation Temperature, J. Mol. Biol., 1962, vol. 5, pp. 109–118.

    Article  CAS  PubMed  Google Scholar 

  24. Chomczynski, P. and Sacchi, N., Single-Step Method of RNA Isolation by Acid Guanidinium Thiocyanate-Phenol-Chloroform Extraction, Anal. Biochem., 1987, vol. 162, pp. 156–159.

    Article  CAS  PubMed  Google Scholar 

  25. Tamura, K., Dudley, J., Nei, M., and Kumar, S., MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0, Mol. Biol. Evol., 2007, vol. 24, pp. 1596–1599.

    Article  CAS  PubMed  Google Scholar 

  26. Meehan, C., Bjourson, A.J., and McMullan, G., Paenibacillus azoreducens sp. nov., a Synthetic Azo Dye Decolorizing Bacterium from Industrial Wastewater, Int. J. Syst. Bacteriol., 2001, vol. 51, pp. 1681–1685.

    CAS  Google Scholar 

  27. Shida, J., Takagi, H., Kadowaki, K., Nakamura, L.K., and Komagata, K., Emended Description of Paenibacillus amylolyticus and Description of Paenibacillus illinoisensis sp. nov. and Paenibacillus chibensis sp. nov., Int. J. Syst. Bacteriol., 1997, vol. 47, no. 2, pp. 299–306.

    Article  CAS  PubMed  Google Scholar 

  28. Logan, N.A., De Clerck, E., Lebbe, L., Verhelst, A., Goris, J., Forsyth, G., Rodríguez-Díaz, M., Heyndrickx, M., and De Vos, P., Paenibacillus cineris sp. nov. and Paenibacillus cookii sp. nov., from Antarctic Volcanic Soils and a Gelatin-Processing Plant, Int. J. Syst. Evol. Microbiol, 2004, vol. 54, pp. 1071–1076.

    Article  CAS  PubMed  Google Scholar 

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Authors and Affiliations

  1. Vector State Research Center of Virology and Biotechnology, Rospotrebnadzor, Koltsovo, Novosibirsk oblast, Russia

    I. S. Andreeva, N. I. Pechurkina, E. K. Emel’yanova & L. I. Puchkova

  2. Institute of Chemical Biology and Fundamental Medicine, Siberian Branch, Russian Academy of Sciences, Novosibirsk, Russia

    I. V. Morozov, O. V. Morozova, E. I. Ryabchikova, I. V. Saranina, V. V. Vlasov & V. E. Repin

  3. Center for Environmental Biotechnology, Lawrence Berkeley National Laboratory, Berkley, CA, USA

    T. T. Torok

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  1. I. S. Andreeva
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Correspondence to I. S. Andreeva.

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Original Russian Text © I.S. Andreeva, I.V. Morozov, N.I. Pechurkina, O.V. Morozova, E.I. Ryabchikova, I.V. Saranina, E.K. Emel’yanova, L.I. Puchkova, T.T. Torok, V.V. Vlasov, V.E. Repin, 2010, published in Mikrobiologiya, 2010, Vol. 79, No. 5, pp. 705–713.

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Andreeva, I.S., Morozov, I.V., Pechurkina, N.I. et al. Isolation of bacteria of the genus Paenibacillus from soil and springs of the Valley of Geysers (Kamchatka). Microbiology 79, 696–704 (2010). https://doi.org/10.1134/S0026261710050152

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  • DOI: https://doi.org/10.1134/S0026261710050152

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