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Lake Pavin pp 255–284Cite as

Anaerobic Microbial Communities and Processes Involved in the Methane Cycle in Freshwater Lakes-a Focus on Lake Pavin

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Abstract

The atmospheric concentration of methane (CH4), a major greenhouse gas, is mainly controlled by the activities of CH4-producing (methanogens) and CH4-consuming (methanotrophs) microorganisms. Freshwater lakes are identified as one of the main CH4 sources, as it is estimated that they contribute to 6–16 % of natural CH4 emissions. It is therefore critical to better understand the biogeochemical cycling of CH4 in these ecosystems.

In this vein, the Lake Pavin provides a useful microbial ecosystem to investigate CH4 cycle in freshwater systems. Despite a significant production of CH4 in the deep anoxic water column and sediment, the amounts of CH4 emitted by Lake Pavin to the atmosphere are several orders of magnitude lower than those of temperate lakes suggesting intense consumption activities of this gas.

This chapter focuses on CH4 cycle, but as methanogenesis and anaerobic methanotrophy build competitive and cooperative relationships with a number of bacterial metabolic groups, we also address bacterial processes that are tightly coupled with CH4 cycle (e.g., ferric iron reduction). Three main sections constitute this chapter:

  • A presentation of CH4 cycle, including methanogenesis and methanotrophy, in freshwater systems and particularly in Lake Pavin,

  • The relationships between CH4 cycle and some other biogeochemical processes in Lake Pavin (ferric iron reduction, sulfate reduction and fermentation), including a brief overview of anaerobic microbial metabolisms,

  • Sections on methodologies enabling to access informations on the anaerobic metabolisms (e.g., biomarkers, isotopes, microcalorimetry, nucleic acid molecular markers, magnetoFISH).

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Notes

  1. 1.

    For detailed informations see Conrad 2009; EPA 2010.

  2. 2.

    For more details, see Bastviken et al. 2004, 2008, 2009.

  3. 3.

    For detailed informations, see Nazaries et al. 2013.

  4. 4.

    For more informations, see Hedderich and Whitman 2006; Borrel et al. 2011; Nazaries et al. 2013.

  5. 5.

    For detailed informations, see Ferry 2010.

  6. 6.

    For detailed information’s, see McInerney et al. 2008, 2009, 2011; Sieber et al. 2012.

  7. 7.

    For a detailed review, see Drake et al. 1994, 2006; Müller et al. 2004; Ragsdale and Pierce 2008.

  8. 8.

    For detailed informations see Zumft 1992, 1997; Burgin and Hamilton 2007.

  9. 9.

    For detailed informations, see Widdel 1988; Muyzer and Stams 2008.

  10. 10.

    For detailed informations, see Ehrlich and Newman 2008.

  11. 11.

    For a detailed protocol see Trembath-Reichert et al. (2013)

    *TEM picture J. Colombet

    ** CLSM picture O. Bardot.

  12. 12.

    For more details, several reviews can be found on aerobic (Hanson and Hanson 1996; Trotsenko and Murrell 2008) and anaerobic oxidation of methane (Knittel and Boetius 2009; Thauer and Shima 2008.

Abbreviations

ANME:

Anaerobic Methanotrophs

AOM:

Anaerobic Oxidation of Methane

CARD:

Catalyzed Reporter Deposition

CLSM:

Confocal Laser Scanning Microscopy

DAPI:

Diamidino-2-phenylindole

FISH:

Fluorescent in situ hybridization

FRB:

Ferric Iron Reducing Bacteria

HRP:

Horseradish Peroxidase

MBGD:

Marine Benthic Group D

MMO:

Methane Mono-Oxygenase

MPR:

Methane Production Rate

NRB:

Nitrate Reducing Bacteria

pMMO:

Particulate Methane Mono-Oxygenase

p.p.m.:

Parts Per Millions

PLFA:

Phospholipids Fatty Acids

rRNA:

Ribosomal RNA

sMMO:

Soluble Methane Mono-Oxygenase

SRB:

Sulfate Reducing Bacteria

TEM:

Transmission Electron Microscopy

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Acknowledgements

This study includes results from Master, PhD and postdoc researches supported by various instances: Région Auvergne, CNRS, Université Blaise Pascal, Ministère de la Recherche et de la Technologie. Part of the results presented was obtained with the collaboration of colleagues: Didier Jézéquel, Gilles Mailhot, Jonathan Colombet, Keith Joblin, Paul Evans, Annie Guedon, Corinne Biderre-Petit, Marion Rabiet, Karl Rockne, Christophe Guimbaud, Frédéric Savoie, Stéphane Chevrier, Pierre Agrinier, Nelly Assayag, François Prévot, Jean-Claude Romagoux, Guy Demeure, Aurélie Thénot, Télesphore Sime-Ngando. The studies were granted from different sources: French National Program EC2CO (Projects INTERLAC, METHANOLAC) and ANR Program (Project METANOX). We thank the reviewer, Bernard Ollivier, for his constructive comments, which helped us to improve the manuscript.

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  1. LMGE, Laboratoire « Microorganismes: Génome & Environnement », UMR CNRS 6023, Université Clermont-Auvergne, Université Blaise Pascal, 24 avenue des Landais, BP 80026, 63171, Aubière, France

    Anne-Catherine Lehours, Guillaume Borrel, Nicole Morel-Desrosiers, Corinne Bardot, Benoit Keraval, Jean-Pierre Morel & Gerard Fonty

  2. LGLTPE, Laboratoire de « Géologie de Lyon, Terre, Planètes, Environnement », UMR CNRS 5276, Université Claude Bernard, Lyon1, Campus de la Doua, bât. GEODE, 2, rue Raphaël Dubois, 69622, Villeurbanne, France

    Vincent Grossi

  3. LMGE, Laboratoire « Microorganismes: Génome & Environnement », UMR CNRS 6023, Université Blaise Pascal, 24, avenue des Landais, 63171, Aubière Cedex Clermont-Ferrand, France

    Eléonore Attard

  4. Equipe Environnement et Microbiologie, UMR CNRS-IPREM 5254, Université de Pau et des Pays de l’Adour, BP 1155, 64013, Pau Cedex Pau, France

    Eléonore Attard

  5. LMGE, Laboratoire Microorganismes: Génome et Environnement, UMR CNRS 6023, Université Clermont-Auvergne, Université Blaise Pascal, BP 80026, 63171, Aubière Cedex, France

    Christian Amblard

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Editors and Affiliations

  1. LMGE, Laboratoire Microorganismes: Génome et Environnement, UMR CNRS 6023, Université Clermont-Auvergne, Université Blaise Pascal, Aubière, France

    Télesphore Sime-Ngando

  2. LMV, Université Clermont-Auvergne - CNRS - IRD - OPGC, Aubière, France

    Pierre Boivin

  3. ISTO Institut des Sciences de la Terre d’Orléans, Observatoire des Sciences de l’Univers en région Centre, UMR 7327 (CNRS-Université d’Orléans-BRGM), Orléans Cedex, France

    Emmanuel Chapron

  4. IPGP (Institut de Physique du Globe de Paris) Sorbonne Paris Cité, Univ. Paris Diderot, Paris, France

    Didier Jezequel

  5. METIS UMR CNRS 7619, Université Pierre et Marie Curie, Paris, France

    Michel Meybeck

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Lehours, AC. et al. (2016). Anaerobic Microbial Communities and Processes Involved in the Methane Cycle in Freshwater Lakes-a Focus on Lake Pavin. In: Sime-Ngando, T., Boivin, P., Chapron, E., Jezequel, D., Meybeck, M. (eds) Lake Pavin. Springer, Cham. https://doi.org/10.1007/978-3-319-39961-4_16

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