Abstract
Methane oxidizing and producing activities of cover soil (10, 30 cm depth) and burial waste (1, 3 m depth) were evaluated: top cover soil (10 cm) had the highest methane oxidizing activity, while 1 m depth buried waste showed the highest methane producing potential. All the sequences of the 1 m sample were found to be closely related to 16S rDNAs of mainly hydrogenotrophic methanogens known, such as genera Methanosarcina, Methanoculleus, and Methanobacterium. We developed a modified fluorescence in situ hybridization (FISH) direct counting method for landfill samples, resulting in the detection of approx. 1% of total cells as archaeal cells (presumably methanogens). However, probe-positive cells could not be found with probes for methanotrophs by the methods.
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References
Amann RI, Krumholz L, Stahl DA (1990) Fluorescentoligonucleotide probing of whole cells for determinative, phylogenetic, and environmental studies in microbiology. J. Bacteriol. 172: 762–770.
Amann RI, Ludwig W, Schleifer KH (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol. Rev. 59: 143–169.
American Public Health Association (1992) Standard Methods for the Examination of Water and Wastewater, 18th edn. Washington, DC.
Barlaz MA, Ham RK, Schaefer DM (1992) Microbial, chemical and methane production characteristics of anaerobically decomposed refuse with and without leachate recycling. Waste Manage. Res. 10: 257–267.
Brusseau GA, Bulygina ES, Hanson RS (1994) Phylogenetic analysis and development of probes for differentiating methylotrophic bacteria. Appl. Environ. Microbiol. 60: 626–636.
Chen AC, Imachi H, Sekiguchi Y, Ohashi O, Harada H (2003) Archaeal community compositions at different depth (up to 30 m) of a municipal solid waste landfill in Taiwan as revealed by 16S rDNA cloning analyses. Biotechnol. Lett. 25: 719–724.
Harada H, Uemura S, Momonoi K (1994) Interaction between sulfate reducing bacteria and methane-producing bacteria in UASB reactors fed with low strength wastes containing different levels of sulfate. Water Res. 28: 355–367.
Huang LN, Zhou Hui, Chen YQ, Luo Shuo, Lan CY, Qu LH (2002) Diversity and structure of the archaeal community in the leachate of a full-scale recirculating landfill as examined by direct 16S rRNA gene sequence retrieval. FEMS Microbiol. Lett. 214: 235–240.
Kightley D, Nedwell DB, Cooper D (1995) Capacity for methane oxidation in landfill cover soils measured in laboratory-scale soil microcosms. Appl. Environ. Microbiol. 61: 592–601.
Kumar S, Tamura K, Jakobsen IB, Nei M (2001) MEGA2: Molecular Evolutionary Genetics Analysis software. Bioinformatics 17: 1244–1245.
Lim EL, Caron DA, Delong EF (1999) Development and field application of a quantitative method for examining natural assemblages of protests with oligonucleotide probes. Appl. Environ. Microbiol. 62: 1461–1423.
Mori K, Sparling R, Hatsu M, Takamizawa K (2003) Quantification and diversity of the archaeal community in a landfill site. Can. J. Microbiol. 49: 28–36.
Raskin L, Stormley JM, Ritmann BE, Stahl DA (1994) Groupspecific 16S rRNA hybridization probes to describe natural communities of methanogens. Appl. Environ. Microbiol. 60: 1232–1240.
Saito N, Nei M (1987) The neighbor-joining method: a new method for constructing phylogenetic trees. Mol. Biol. Evol. 4: 406–425.
Sekiguchi Y, Kamagata Y, Nakamura K, Ohashi A, Harada H (1999) Fluorescence in situ hybridization using 16S rRNA-targeted oligonucleotide reveals localization of methanogens and selected uncultured bacteria in mesophilic and thermophilic sludge granules. Appl. Environ. Microbiol. 65: 1280–1288.
Stahl DA, Amann RI (1991) Development and application of nucleic acid probes. In: Stackebrandt E, Goodfellow M, eds. Nucleic Acid Techniques in Bacterial Systematics. New York: John Willy & Sons, pp. 205–248.
Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The Clustal X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucl. Acids Res. 24: 4876–4882.
Weisburg WG, Barns SM, Pelletier DA, Lane DJ (1991) 16S ribosomal DNA amplification for phylogenetic study. J. Bacteriol. 173: 697–703.
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Chen, AC., Ueda, K., Sekiguchi, Y. et al. Molecular detection and direct enumeration of methanogenic Archaea and methanotrophic Bacteria in domestic solid waste landfill soils. Biotechnology Letters 25, 1563–1569 (2003). https://doi.org/10.1023/A:1025461915495
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DOI: https://doi.org/10.1023/A:1025461915495