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Prerequisites for amplicon pyrosequencing of microbial methanol utilizers in the environment

Title data

Kolb, Steffen ; Stacheter, Astrid:
Prerequisites for amplicon pyrosequencing of microbial methanol utilizers in the environment.
In: Frontiers in Microbiology. Vol. 4 (2013) Issue 268 . - pp. 1-11.
ISSN 1664-302X
DOI: https://doi.org/10.3389/fmicb.2013.00268

Abstract in another language

The commercial availability of next generation sequencing (NGS) technologies facilitated the assessment of functional groups of microorganisms in the environment with high coverage, resolution, and reproducibility. Soil methylotrophs were among the first microorganisms in the environment that were assessed with molecular tools, and nowadays, as well with NGS technologies. Studies in the past years re-attracted notice to the pivotal role of methylotrophs in global conversions of methanol, which mainly originates from plants, and is involved in oxidative reactions and ozone formation in the atmosphere. Aerobic methanol utilizers belong to Bacteria, yeasts, Ascomycota, and molds. Numerous bacterial methylotrophs are facultatively aerobic, and also contribute to anaerobic methanol oxidation in the environment, whereas strict anaerobic methanol utilizers belong to methanogens and acetogens. The diversity of enzymes catalyzing the initial oxidation of methanol is considerable, and comprises at least five different enzyme types in aerobes, and one in strict anaerobes. Only the gene of the large subunit of PQQ-dependent methanol dehydrogenase (mxaF) has been analyzed by environmental pyrosequencing. To enable a comprehensive assessment of methanol utilizers in the environment, new primers targeting genes of the PQQ MDH in Methylibium (mdh2), of the NAD-dependent MDH (mdh), of the methanol oxidoreductase of Actinobacteria (mdo), of the fungal FAD-dependent alcohol oxidase (mod1, mod2, and homologues), and of the gene of the large subunit of the methanol:corrinoid methyltransferases (mtaC) in methanogens and acetogens need to be developed. Combined stable isotope probing of nucleic acids or proteins with amplicon-based NGS are straightforward approaches to reveal insights into functions of certain methylotrophic taxa in the global methanol cycle.

Further data

Item Type: Article in a journal
Refereed: Yes
Additional notes: BAYCEER117714
Institutions of the University: Faculties > Faculty of Biology, Chemistry and Earth Sciences > Department of Biology > Chair Ecological Microbiology
Research Institutions > Research Centres > Bayreuth Center of Ecology and Environmental Research- BayCEER
Faculties
Faculties > Faculty of Biology, Chemistry and Earth Sciences
Faculties > Faculty of Biology, Chemistry and Earth Sciences > Department of Biology
Research Institutions
Research Institutions > Research Centres
Result of work at the UBT: Yes
DDC Subjects: 500 Science
Date Deposited: 22 Jul 2015 05:41
Last Modified: 20 Jan 2020 14:35
URI: https://eref.uni-bayreuth.de/id/eprint/16981