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Identification of acetate-utilizing Bacteria and Archaea in methanogenic profundal sediments of Lake Kinneret (Israel) by stable isotope probing of rRNA.
Environ Microbiol. 2007 Jan; 9(1):223-37.EM

Abstract

Acetate is an important intermediate in the decomposition of organic matter in anoxic freshwater sediments. Here, we identified distinct microorganisms active in its oxidation and transformation to methane in the anoxic methanogenic layers of Lake Kinneret (Israel) profundal sediment by rRNA-based stable isotope probing (RNA-SIP). After 18 days of incubation with amended [U-(13)C]acetate we found that archaeal 16S rRNA was (13)C-labelled to a far greater extent than bacterial rRNA. We identified acetoclastic methanogens related to Methanosaeta concilii as being most active in the degradation and assimilation of acetate. Oxidation of the acetate-methyl group played only a minor role, but nevertheless 'heavy'(13)C-labelled bacterial rRNA templates were identified. 'Heavy' bacteria were mainly affiliated with the Betaproteobacteria (mostly Rhodocyclales and Nitrosomonadales), the Nitrospira phylum (related to 'Magnetobacterium bavaricum' and Thermodesulfovibrio yellowstonii), and also with the candidate phylum 'Endomicrobia'. However, the mode of energy gain that allowed for the assimilation of (13)C-acetate by these bacterial groups remains unknown. It may have involved syntrophic oxidation of acetate, reduction of chlorinated compounds, reduction of humic substances, fermentation of organic compounds, or even predation of (13)C-labelled Methanosaeta spp. In summary, this SIP experiment shows that acetate carbon was predominantly consumed by acetoclastic methanogens in profundal Lake Kinneret sediment, while it was also utilized by a small and heterogeneous community of bacteria.

Authors+Show Affiliations

Max-Planck-Institute for Terrestrial Microbiology, Marburg, Germany.No affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

17227427

Citation

Schwarz, Julia I K., et al. "Identification of Acetate-utilizing Bacteria and Archaea in Methanogenic Profundal Sediments of Lake Kinneret (Israel) By Stable Isotope Probing of RRNA." Environmental Microbiology, vol. 9, no. 1, 2007, pp. 223-37.
Schwarz JI, Lueders T, Eckert W, et al. Identification of acetate-utilizing Bacteria and Archaea in methanogenic profundal sediments of Lake Kinneret (Israel) by stable isotope probing of rRNA. Environ Microbiol. 2007;9(1):223-37.
Schwarz, J. I., Lueders, T., Eckert, W., & Conrad, R. (2007). Identification of acetate-utilizing Bacteria and Archaea in methanogenic profundal sediments of Lake Kinneret (Israel) by stable isotope probing of rRNA. Environmental Microbiology, 9(1), 223-37.
Schwarz JI, et al. Identification of Acetate-utilizing Bacteria and Archaea in Methanogenic Profundal Sediments of Lake Kinneret (Israel) By Stable Isotope Probing of RRNA. Environ Microbiol. 2007;9(1):223-37. PubMed PMID: 17227427.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Identification of acetate-utilizing Bacteria and Archaea in methanogenic profundal sediments of Lake Kinneret (Israel) by stable isotope probing of rRNA. AU - Schwarz,Julia I K, AU - Lueders,Tillmann, AU - Eckert,Werner, AU - Conrad,Ralf, PY - 2007/1/18/pubmed PY - 2007/7/3/medline PY - 2007/1/18/entrez SP - 223 EP - 37 JF - Environmental microbiology JO - Environ Microbiol VL - 9 IS - 1 N2 - Acetate is an important intermediate in the decomposition of organic matter in anoxic freshwater sediments. Here, we identified distinct microorganisms active in its oxidation and transformation to methane in the anoxic methanogenic layers of Lake Kinneret (Israel) profundal sediment by rRNA-based stable isotope probing (RNA-SIP). After 18 days of incubation with amended [U-(13)C]acetate we found that archaeal 16S rRNA was (13)C-labelled to a far greater extent than bacterial rRNA. We identified acetoclastic methanogens related to Methanosaeta concilii as being most active in the degradation and assimilation of acetate. Oxidation of the acetate-methyl group played only a minor role, but nevertheless 'heavy'(13)C-labelled bacterial rRNA templates were identified. 'Heavy' bacteria were mainly affiliated with the Betaproteobacteria (mostly Rhodocyclales and Nitrosomonadales), the Nitrospira phylum (related to 'Magnetobacterium bavaricum' and Thermodesulfovibrio yellowstonii), and also with the candidate phylum 'Endomicrobia'. However, the mode of energy gain that allowed for the assimilation of (13)C-acetate by these bacterial groups remains unknown. It may have involved syntrophic oxidation of acetate, reduction of chlorinated compounds, reduction of humic substances, fermentation of organic compounds, or even predation of (13)C-labelled Methanosaeta spp. In summary, this SIP experiment shows that acetate carbon was predominantly consumed by acetoclastic methanogens in profundal Lake Kinneret sediment, while it was also utilized by a small and heterogeneous community of bacteria. SN - 1462-2912 UR - https://www.unboundmedicine.com/medline/citation/17227427/Identification_of_acetate_utilizing_Bacteria_and_Archaea_in_methanogenic_profundal_sediments_of_Lake_Kinneret__Israel__by_stable_isotope_probing_of_rRNA_ L2 - https://doi.org/10.1111/j.1462-2920.2006.01133.x DB - PRIME DP - Unbound Medicine ER -