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Primers: Functional Genes and 16S rRNA Genes for Methanogens

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Hydrocarbon and Lipid Microbiology Protocols

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Abstract

To date, a great number of oligonucleotide probes/primers targeting phylogenetic markers of methanogenic archaea (methanogens), such as 16S rRNA and the gene for the α-subunit of methyl-coenzyme M reductase (mcrA), have been developed and used for the identification and quantification of individuals and groups of methanogens in environmental samples. These probes/primers were designed for different taxonomic levels of methanogens and have been used for studies in environmental microbiology as hybridization probes or PCR primers of qualitative and quantitative molecular techniques, such as high-throughput sequencing, quantitative PCR, fluorescence in situ hybridization (FISH), and rRNA cleavage method. In this chapter, we present a comprehensive list of known oligonucleotide probes/primers, which enable us to decipher methanogen populations in an environment quantitatively and hierarchically, with examples of the practical applications of probes/primers.

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Authors and Affiliations

  1. Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki, 305-8566, Japan

    Takashi Narihiro

  2. Bio-medical Research Institute, National Institute of Advanced Industrial Science and Technology (AIST), Tsukuba, Ibaraki, 305-8566, Japan

    Yuji Sekiguchi

Authors
  1. Takashi Narihiro
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  2. Yuji Sekiguchi
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Correspondence to Takashi Narihiro .

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Editors and Affiliations

  1. Dept. Biological Sciences, University of Essex Dept. Biological Sciences, Colchester, Essex, United Kingdom

    Terry J. McGenity

  2. Braunschweig, Germany

    Kenneth N. Timmis

  3. Department of Biology, University of the Balearic Islands and Mediterranean Institute for Advanced Studies (IMEDEA, UIB-CSIC), Palma de Mallorca, Spain

    Balbina Nogales

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Narihiro, T., Sekiguchi, Y. (2015). Primers: Functional Genes and 16S rRNA Genes for Methanogens. In: McGenity, T., Timmis, K., Nogales , B. (eds) Hydrocarbon and Lipid Microbiology Protocols. Springer Protocols Handbooks. Springer, Berlin, Heidelberg. https://doi.org/10.1007/8623_2015_138

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  • DOI: https://doi.org/10.1007/8623_2015_138

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  • Publisher Name: Springer, Berlin, Heidelberg

  • Print ISBN: 978-3-662-50427-7

  • Online ISBN: 978-3-662-50428-4

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