Skip to main content
Log in

Substrate Specificity of Methanogenic Communities from Lake Baikal Bottom Sediments Associated with Hydrocarbon Gas Discharge

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

Abstract

Methane production by microbial communities from Lake Baikal bottom sediments with different chemical composition of pore water was studied. Methane production was more active in the media supplemented with H2: CO2 and H2 + CH3COONa, rather than on media with acetate as the sole source of carbon and energy. Addition of methanol stimulated methane production only in the case of microbial communities from upper silts. Ability of the communities to produce methane correlated reliably with the concentrations of the NO3–, SO42−, Cl, and CH3COO ions in the pore water of the relevant sediments. Cultivation of communities from the mud volcano sediments resulted in development of methanogenic archaea of the family Methanocellaсеае in the media supplemented with H2: CO2 and H2 + CH3COONa, while methanogenic archaea in the communities cultivated without additional substrates belonged to the genera Methanoregula, Methanobacterium, and Methanosaeta.

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

Access this article

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

Instant access to the full article PDF.

Similar content being viewed by others

References

  • Aivazyan, S.A., Bukhshtaber, V.M., Enyukov, I.S., and Meshalkin, L.D., Prikladnaya statistika. Klassifikatsiya i snizhenie razmernosti (Applied Statistics. Classification and Dimension Decrease), Moscow: Finansy i Statistika, 1989.

    Google Scholar 

  • Bol’shakov, A.M. and Egorov, A.V., Using the method of phase equilibrium degassing in gasometric studies in water areas, Okeanologiya, 1987, vol. 37, no. 5, pp. 861–862.

    Google Scholar 

  • Borrel, G., Jézéquel, D., Biderre-Petit, C., Morel-Desrosiers, N., Morel, J.-P., Peyret, P., Fonty, G., and Lehours, A.-C., Production and consumption of methane in freshwater lake ecosystems, Res. Microbiol., 2011, vol. 162, pp. 832–847.

    Article  PubMed  CAS  Google Scholar 

  • Conrad, R., Claus, P., and Casper, P., Stable isotope fractionation during the methanogenic degradation of organic matter in the sediment of an acidic bog lake, Lake Grosse Fuchskuhle, Limnol. Oceanogr., 2010, vol. 55, pp. 1932–1942.

    Article  CAS  Google Scholar 

  • Dagurova, O.P., Namsaraev, B.B., Kozyreva, L.P., Zemskaya, T.I., and Dulov, L.E., Bacterial processes of the methane cycle in bottom sediments of Lake Baikal, Microbiology (Moscow), 2004, vol. 74, no. 2, pp. 202–210.

    Article  Google Scholar 

  • Edgar, R.C., Haas, B J., Clemente, J.C., Quince, C., and Knight, R., UCHIME improves sensitivity and speed of chimera detection, Bioinformatics, 2011, vol. 27, no. 17, pp. 2194–2200.

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Evans, P.N., Parks, D.H., Chadwick, G.L., Robbins, S.J., Orphan, V.J., Golding, S.D., and Tyson, G.W., Methane metabolism in the archaeal phylum Bathyarchaeota revealed by genome-centric metagenomics, Science, 2015, vol. 350, no. 6259, pp. 434–438.

    Article  PubMed  CAS  Google Scholar 

  • Galchenko, V.F., Sulfate reduction, methane production and methane oxidation in various waterbodies of Bunger Hills Osasis of Antarctica, Microbiology, 1994, vol. 63, pp. 388–396.

    Google Scholar 

  • Gavshin, V.M., Bobrov, V.A., and Bogdanov, Yu.A., Uranium anomalies in Lake Baikal deepwater sediments, DAN, 1994, vol. 334, no. 3, pp. 356–359.

    CAS  Google Scholar 

  • Glissman, K., Chin, K.-J., Casper, P., and Conrad, R., Methanogenic pathway and archaeal community structure in the sediment of eutrophic Lake Dagow: effect of temperature, Microb. Ecol., 2004, vol. 48, pp. 389–399.

    Article  PubMed  CAS  Google Scholar 

  • Hachikubo, A., Khlystov, O., Krylov, A., Sakagami, H., Minami, H., Nunokawa, Y., Yamashita, S., Takahashi, N., Shoji, H., Nishio, S., Kida, M., Ebinuma, T., Kalmychkov, G., and Poort, J., Molecular and isotopic characteristics of gas hydrate-bound hydrocarbons in southern and central Lake Baikal, Geo-Mar. Lett., 2010, vol. 30, nos. 3–4, pp. 321–329.

    Article  CAS  Google Scholar 

  • Kallistova, A.Y., Merkel, A.Y., Tarnovetskii, I.Y., and Pimenov, N.V., Methane formation and oxidation by prokaryotes, Microbiology (Moscow), 2017, vol. 86, pp. 671–691.

    Article  CAS  Google Scholar 

  • Kotsyurbenko, O.R., Trophic interactions in the methanogenic microbial community of low-temperature terrestrial ecosystems, FEMS Microbiol. Ecol., 2005, vol. 53, pp. 3–13.

    Article  PubMed  CAS  Google Scholar 

  • Kovadlo, A.S. and Drucker, V.V., Occurrence of the bacteria of Caulobacter genus (Henrici and Johnson, 1935) in Lake Baikal, Contemp. Probl. Ecol. (Novosibirsk), 2006, no. 5, pp. 581–585.

    Google Scholar 

  • Krylov, A.A., Khlystov, O.M., Hachikubo, A., Minami, H., Nunokawa, Y., Shoji, H., Zemskaya, T.I., Naudts, L., Pogodaeva, T.V., Kida, M., Kalmychkov, G.V., and Poort, J., Isotopic composition of dissolved inorganic carbon in subsurface sediments of gas hydrate-bearing mud volcanoes, Lake Baikal: implications for methane and carbonate origin, Geo-Mar. Lett., 2010, vol. 30, pp. 427–437.

    CAS  Google Scholar 

  • Liu, Y. and Whitman, W.B., Metabolic, phylogenetic and ecological diversity of the methanogenic Archaea, Ann. New York Acad. Sci., 2008, vol. 1125, pp. 171–189.

    Article  CAS  Google Scholar 

  • Liu, Y., Conrad, R., Yao, T., Gleixner, G., and Claus, P., Change of methane production pathway with sediment depth in a lake on the Tibetan plateau, Palaeogeogr., Palaeoclimatol., Palaeoecol., 2017, vol. 474, pp. 279–286.

    Article  Google Scholar 

  • Liu, Y., Yao, T., Gleixner, G., Claus, P., and Conrad, R., Methanogenic pathways, 13C isotope fractionation, and archaeal community composition in lake sediments and wetland soils on the Tibetan plateau, J. Geophys. Res. Biogeosci., 2013, vol. 118, pp. 650–664.

    Article  CAS  Google Scholar 

  • Namsaraev, B.B., Dulov, L.E., Sokolova, E.N., and Zemskaya, T.I., Bacterial methane production in Lake Baikal bottom sediments, Mikrobiologiya, 1995, vol. 64, no. 3, pp. 411–417.

    CAS  Google Scholar 

  • Niu, M., Fan, X., Zhuang, G., Liang, Q., and Wang, F., Methane-metabolizing microbial communities in sediments of the Haima cold seep area, northwest slope of the South China Sea, FEMS Microbiol. Ecol., 2017, vol. 93, no. 9. fix101. https://doi.org/10.1093/femsec/fix101.

    Google Scholar 

  • Nozhevnikova, A.N., Nekrasova, V., Ammann, A., Zehnder, A.J.B., Wehrli, B., and Holliger, C., Influence of temperature and high acetate concentrations on methanogenesis in lake sediment slurries, FEMS Microbiol. Ecol., 2007, vol. 62, pp. 336–344.

    Article  PubMed  CAS  Google Scholar 

  • Parkes, R.J., Cragg, B., Roussel, E., Webster, G., Weightman, A., and Sass, H.A., A review of prokaryotic populations and processes in sub-seafloor sediments, including biosphere: geosphere interactions, Mar. Geol., 2014, vol. 352, pp. 409–425.

    Article  CAS  Google Scholar 

  • Pimenov, N.V., Zakharova, E.E., Bryukhanov, A.L., Korneeva, V.A., Kuznetsov, B.B., Tourova, T.P., Pogodaeva, T.V., Kalmychkov, G.V., and Zemskaya T.I., Activity and structure of the sulfate-reducing bacterial community in the sediments of the southern part of Lake Baikal, Microbiology (Moscow), 2014, vol. 83, nos. 1−2, pp. 47–55.

    Article  CAS  Google Scholar 

  • Pogodaeva, T.V., Zemskaya, T.I., Golobokova, L.P., Khlystov, O.M., Minami, H., and Sakagami, H., Chemical composition of pore waters of bottom sediments in different Baikal basins, Russ. Geol. Geophys. (Novosibirsk), 2007, vol. 48, pp. 886–900.

    Article  Google Scholar 

  • Praktikum po mikrobiologii (Practical Course in Microbiology), Netrusov, A.I., Ed., Moscow: Akademiya, 2005.

  • Quince, C., Lanzen, A., Davenport, R.J., and Turnbaugh, P.J., Removing noise from pyrosequenced amplicons, BMC Bioinf., 2011, vol. 12, no. 38. https://doi.org/10.1186/1471-2105-12-38.

    Google Scholar 

  • Rivkina, E., Shcherbakova, V., Laurinavichius, K., Petrovskaya, L., Krivushin, K., Kraev, G., Pecheritsina, S., and Gilichinsky, D., Biogeochemistry of methane and methanogenic archaea in permafrost, FEMS Microbiol. Ecol., 2007, vol. 61, pp. 1–15.

    Article  PubMed  CAS  Google Scholar 

  • Sambrook, J., Fritsch, E.F., and Maniatis, T., Molecular Cloning. A Laboratory Manual, Cold Spring Harbor, 1989, vol. 2.

  • Tarasov, A.L., Borzenkov, I.A., and Belyayev, S.S., Investigation of the trophic relations between anaerobic microorganisms from an underground gas repository during methanol utilization, Microbiology (Moscow), 2011, vol. 80, pp. 180–187.

    Article  CAS  Google Scholar 

  • Vykhristuyk, L.A., Arrival and distribution of the major chemical elements in Lake Baikal bottom sediments, Litol. Pol. Iskop., 1977, no. 1, pp. 54–65.

    Google Scholar 

  • Wand, U., Samarkin, V.A., Nitzsche, H.-M., and Hubberten, H.-W. Biogeochemistry of methane in the permanently ice-covered Lake Untersee, central Dronning Maud Land, East Antarctica, Limnol. Oceanogr., 2006, vol. 51, pp. 1180–1194.

    Article  CAS  Google Scholar 

  • Zemskaya, T.I., Pogodaeva, T.V., Shubenkova, O.V., Chernitsina, S.M., Dagurova, O.P., Buryukhaev, S.P., Namsaraev, B.B., Khlystov, O.M., Egorov, A.V., Krylov, A.A., and Kalmychkov, G.V., Geochemical and microbiological characteristics of sediments near the Malenky mud volcano (Lake Baikal, Russia), with evidence of Archaea intermediate between the marine anaerobic methanotrophs ANME-2 and ANME-3, Geo-Mar. Lett., 2010, vol. 30, pp. 411–425.

    CAS  Google Scholar 

  • Zhilina, T.N., Gruzdev, D.S., Kolganova, T.V., and Pimenov, N.V., Methanogens and acetogens in anaerobic silts above gas hydrates and in the gas emission zones of Lake Baikal, Proc. 1st Russ. Microbiol Congr., Reshetilova, T.A., Ed., Moscow: Voda: Khim. Ekol., 2017, pp. 44–45.

    Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to S. V. Bukin.

Additional information

Original Russian Text © S.V. Bukin, O.N. Pavlova, G.V. Kalmychkov, V.G. Ivanov, T.V. Pogodaeva, Yu.P. Galach’yants, Yu.S. Bukin, A.V. Khabuev, T.I. Zemskaya, 2018, published in Mikrobiologiya, 2018, Vol. 87, No. 4.

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Bukin, S.V., Pavlova, O.N., Kalmychkov, G.V. et al. Substrate Specificity of Methanogenic Communities from Lake Baikal Bottom Sediments Associated with Hydrocarbon Gas Discharge. Microbiology 87, 549–558 (2018). https://doi.org/10.1134/S0026261718040045

Download citation

  • Received:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1134/S0026261718040045

Keywords

Navigation