Oligonucleotide primers, probes and molecular methods for the environmental monitoring of methanogenic archaea
Article first published online: 10 JAN 2011
© 2011 The Authors. Journal compilation © 2011 Society for Applied Microbiology and Blackwell Publishing Ltd
Volume 4, Issue 5, pages 585–602, September 2011
How to Cite
Narihiro, T. and Sekiguchi, Y. (2011), Oligonucleotide primers, probes and molecular methods for the environmental monitoring of methanogenic archaea. Microbial Biotechnology, 4: 585–602. doi: 10.1111/j.1751-7915.2010.00239.x
- Issue published online: 17 AUG 2011
- Article first published online: 10 JAN 2011
- Received 6 July, 2010; accepted 12 November, 2010.
For the identification and quantification of methanogenic archaea (methanogens) in environmental samples, various oligonucleotide probes/primers targeting phylogenetic markers of methanogens, such as 16S rRNA, 16S rRNA gene and the gene for the α-subunit of methyl coenzyme M reductase (mcrA), have been extensively developed and characterized experimentally. These oligonucleotides were designed to resolve different groups of methanogens at different taxonomic levels, and have been widely used as hybridization probes or polymerase chain reaction primers for membrane hybridization, fluorescence in situ hybridization, rRNA cleavage method, gene cloning, DNA microarray and quantitative polymerase chain reaction for studies in environmental and determinative microbiology. In this review, we present a comprehensive list of such oligonucleotide probes/primers, which enable us to determine methanogen populations in an environment quantitatively and hierarchically, with examples of the practical applications of the probes and primers.