Skip to main content
SpringerLink
Log in

Methylobacillus caricis sp. nov., an obligate methylotroph isolated from roots of sedge (Carex sp.)

  • Experimental Articles
  • Published:
Microbiology Aims and scope Submit manuscript

Abstract

A new obligately methylotrophic bacterium, strain OVT, was isolated from roots of sedge (Carex sp.). The isolate was represented by aerobic gram-negative motile, non-spore-forming rods, which divided by binary fission. Optimal growth occurred at 22−29°C and pH 7.5−8.5 in the presence of 0.5−2% NaCl; growth was inhibited by 3.5% NaCl. Strain OVT utilized methanol as the only carbon and energy source. The organism used the KDPG variant of the ribulose monophosphate pathway (RuMP) of С1 metabolism. Ammonium was assimilated by reductive amination of α-ketoglutarate. The major cellular fatty acids were C16:0 (45.5%), C16:1ω7c (40.7%), and C17cyc (8.0%). The major ubiquinone was Q8. The dominant phospholipids were phosphatidylethanolamine, phosphatidylglycerol, and diphosphatidylglycerol. The DNA G + C content of strain OVT was 51.4 mol % (Tm). While the 16S rRNA gene sequence of strain OVT exhibited high similarity to those of Methylobacillus species: M. gramineus LapT (99.6%) and M. glycogenes TK 0113T (98.7%), the DNA-DNA hybridization level between strain OVT and M. gramineus LapT was only 52%. Based on the data obtained, strain OVT was assigned to the new species Methylobacillus caricis sp. nov. (=VKM B-3158T = JCM 32031T).

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Similar content being viewed by others

References

  • Balachandar, D., Raja, P., and Sundaram, S.P., Genetic and metabolic diversity of pink-pigmented facultative methylotrophs in phyllosphere of tropical plants, Braz. J. Microbiol., 2008, vol. 39, pp. 68–73.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Collins, M.D., Analysis of isoprenoid quinones, in Methods in Microbiology, Gottschalk, G., Ed., New York: Academic, 1985, vol. 18, pp. 329–366.

    Google Scholar 

  • Doronina, N.V., Gogleva, A.A., and Trotsenko, Y.A., Methylophilus glucosoxydans sp. nov., a restricted facultative methylotroph from rice rhizosphere, Int. J. Syst. Evol. Microbiol., 2012, vol. 62, pp. 196–201.

    Article  CAS  PubMed  Google Scholar 

  • Doronina, N.V., Govorukhina, N.I., Lysenko, A.M., and Trotsenko, Y.A., Analysis of DNA–DNA homology in obligately methylotrophic bacteria, Microbiology (Moscow), 1988, vol. 57, pp. 509–513.

    Google Scholar 

  • Doronina, N.V., Trotsenko, Y.A., Kolganova, T.V., Tourova, T.P., and Salkinoja-Salonen, M.S., Methylobacillus pratensis sp. nov., a novel non-pigmented, aerobic, obligately methylotrophic bacterium isolated from meadow grass, Int. J. Syst. Evol. Microbiol., 2004, vol. 54, pp. 1453–1457.

    Article  CAS  PubMed  Google Scholar 

  • Gogleva, A.A., Kaparullina, E.N., Doronina, N.V., and Trotsenko, Y.A., Methylobacillus arboreus sp. nov. and Methylobacillus gramineus sp. nov., novel non-pigmented obligately methylotrophic bacteria associated with plants, Syst. Appl. Microbiol., 2011, vol. 34, pp. 477–481.

    Article  CAS  PubMed  Google Scholar 

  • Gordon, S.A. and Weber, R.P., Colorimetric estimation of indoleacetic acid, Plant Physiol., 1951, vol. 26, pp. 192–195.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Govorukhina, N.I., Kletsova, L.V., Tsygankov, Yu.D., Trotsenko, Yu.A., and Netrusov, A.I., Characteristics of a new obligate methylotroph, Microbiology (Moscow), 1987, vol. 56, pp. 673–678.

    Google Scholar 

  • Kaparullina, E.N., Doronina, N.V., Mustakhimov, I.I., Agafonova, N.V., and Trotsenko, Yu.A., Biodiversity of aerobic methylobacteria associated with the phyllosphere of the southern Moscow region, Microbiology (Moscow), 2017, vol. 86, no. 1, pp. 113–118.

    Article  CAS  Google Scholar 

  • Kaparullina, E.N., Trotsenko, Yu.A., and Doronina, N.V., Methylobacillus methanolivorans sp. nov., a novel non-pigmented obligately methylotrophic bacterium, Int. J. Syst. Evol. Microbiol., 2017, vol. 67, pp. 425–431.

    Article  PubMed  Google Scholar 

  • Lane, D.J., 16S/23S rRNA sequencing, in Nucleic Acid Techniques in Bacterial Systematics, Stackebrandt, E. and Goodfellow, M., Eds., Chichester: Wiley, 1991, pp. 115–175.

    Google Scholar 

  • Lowry, O.H., Rosebrough, N.J., Farr, A.L., and Randall, R.J., Protein measurement with the Folin phenol reagent, J. Biol. Chem., 1951, vol. 193, pp. 265–275.

    CAS  PubMed  Google Scholar 

  • Madhaiyan, M., Poonguzhali, S., Senthilkumar, M., Pragatheswari, D., Lee, K.-C., and Lee, J.-S., Methylobacillus rhizosphaerae sp. nov., a novel plant-associated methylotrophic bacterium isolated from rhizosphere of red pepper, Antonie van Leeuwenhoek, 2013, vol. 103, pp. 475–484.

    Article  CAS  PubMed  Google Scholar 

  • McDonald, I.R. and Murrell, J.C., The methanol dehydrogenase structural gene mxaF and its use as a functional gene probe for methanotrophs and methylotrophs, Appl. Environ. Microbiol., 1997, vol. 63, pp. 3218–3224.

    CAS  PubMed  PubMed Central  Google Scholar 

  • Owen, R.J. and Lapage, S.P., The thermal denaturation of partly purified bacterial deoxyribonucleic acid and its taxonomic applications, J. Appl. Bacteriol., 1976, vol. 41, pp. 335–340.

    Article  CAS  PubMed  Google Scholar 

  • Saitou, N. and Nei, M., The neighbour-joining method: a new method for reconstructing phylogenetic trees, Mol. Biol. Evol., 1987, vol. 4, pp. 405–425.

    Google Scholar 

  • Sasser, M., Identification of bacteria by gas chromatography of fatty acids, MIDI Technical Note 101, Newark, DE: MIDI, Inc., 1990.

    Google Scholar 

  • 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.

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Trotsenko, Y.A., Doronina, N.V., and Govorukhina, N.I., Metabolism of non-motile obligately methylotrophic bacteria, FEMS Microbiol. Lett., 1986, vol. 3, pp. 293–297.

    Article  Google Scholar 

  • Trotsenko, Yu.A., Doronina, N.V., and Torgonskaya, N.V., Aerobnye metilobakterii (Aerobic Methylobacteria), Pushchino: ONTI PNTs RAN, 2010.

    Google Scholar 

  • Urakami, T. and Komagata, K., Emendation of Methylobacillus Yordy and Weaver 1977, a genus of methanol-utilizing bacteria, Int. J. Syst. Bacteriol., 1986, vol. 36, pp. 502–511.

    Article  Google Scholar 

  • Wellner, S., Lodders, N., Glaeser, S.P., and Kämpfer, P., Methylobacterium trifolii sp. nov. and Methylobacterium thuringiense sp. nov., methanol-utilizing, pink-pigmented bacteria isolated from leaf surfaces, Int. J. Syst. Evol. Microbiol., 2013, vol. 63, pp. 2690–2699.

    Article  CAS  PubMed  Google Scholar 

  • Yordy, J.R. and Weaver, T.L., Methylobacillus: a new genus of obligately methylotrophic bacteria, Int. J. Syst. Bacteriol., 1977, vol. 27, pp. 247–255.

    Article  CAS  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Russian Academy of Sciences, Pushchino, Russia

    N. V. Agafonova, E. N. Kaparullina, N. V. Doronina & Yu. A. Trotsenko

  2. Pushchino State Institute of Natural Sciences, Pushchino, Russia

    N. V. Agafonova, N. V. Doronina & Yu. A. Trotsenko

Authors
  1. N. V. Agafonova
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. E. N. Kaparullina
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. N. V. Doronina
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Yu. A. Trotsenko
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Yu. A. Trotsenko.

Additional information

Original Russian Text © N.V. Agafonova, E.N. Kaparullina, N.V. Doronina, Yu.A. Trotsenko, 2017, published in Mikrobiologiya, 2017, Vol. 86, No. 6, pp. 720–728.

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Agafonova, N.V., Kaparullina, E.N., Doronina, N.V. et al. Methylobacillus caricis sp. nov., an obligate methylotroph isolated from roots of sedge (Carex sp.). Microbiology 86, 737–744 (2017). https://doi.org/10.1134/S0026261717060042

Download citation

  • Received:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1134/S0026261717060042

Keywords

Search

Navigation