Impact of plants on the diversity and activity of methylotrophs in soil

Macey, Michael C., Pratscher, Jennifer, Crombie, Andrew T. and Murrell, J. Colin (2020) Impact of plants on the diversity and activity of methylotrophs in soil. Microbiome, 8 (1). ISSN 2049-2618

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Background: Methanol is the second most abundant volatile organic compound in the atmosphere, with the majority produced as a metabolic by-product during plant growth. There is a large disparity between the estimated amount of methanol produced by plants and the amount which escapes to the atmosphere. This may be due to utilisation of methanol by plant-associated methanol-consuming bacteria (methylotrophs). The use of molecular probes has previously been effective in characterising the diversity of methylotrophs within the environment. Here, we developed and applied molecular probes in combination with stable isotope probing to identify the diversity, abundance and activity of methylotrophs in bulk and in plant-associated soils. Results: Application of probes for methanol dehydrogenase genes (mxaF, xoxF, mdh2) in bulk and plant-associated soils revealed high levels of diversity of methylotrophic bacteria within the bulk soil, including Hyphomicrobium, Methylobacterium and members of the Comamonadaceae. The community of methylotrophic bacteria captured by this sequencing approach changed following plant growth. This shift in methylotrophic diversity was corroborated by identification of the active methylotrophs present in the soils by DNA stable isotope probing using 13C-labelled methanol. Sequencing of the 16S rRNA genes and construction of metagenomes from the 13C-labelled DNA revealed members of the Methylophilaceae as highly abundant and active in all soils examined. There was greater diversity of active members of the Methylophilaceae and Comamonadaceae and of the genus Methylobacterium in plant-associated soils compared to the bulk soil. Incubating growing pea plants in a 13CO 2 atmosphere revealed that several genera of methylotrophs, as well as heterotrophic genera within the Actinomycetales, assimilated plant exudates in the pea rhizosphere. Conclusion: In this study, we show that plant growth has a major impact on both the diversity and the activity of methanol-utilising methylotrophs in the soil environment, and thus, the study contributes significantly to efforts to balance the terrestrial methanol and carbon cycle. [MediaObject not available: see fulltext.]

Item Type: Article
Uncontrolled Keywords: methanol,methanol dehydrogenase,methylotroph,rhizosphere,stable isotope probing,bacteria,gen. nov.,methylobacterium-extorquens am1,methanol dehydrogenase,rice plants,sp nov.,formate dehydrogenase,metagenomics,rhizosphere microbiome,16s ribosomal-rna,microbiology (medical),microbiology ,/dk/atira/pure/subjectarea/asjc/2700/2726
Faculty \ School: Faculty of Science > School of Environmental Sciences
Faculty of Science > School of Biological Sciences
UEA Research Groups: Faculty of Science > Research Groups > Molecular Microbiology
Faculty of Science > Research Centres > Centre for Ecology, Evolution and Conservation
Faculty of Science > Research Groups > Environmental Biology
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Depositing User: LivePure Connector
Date Deposited: 18 Mar 2020 07:18
Last Modified: 21 Apr 2023 00:27
DOI: 10.1186/s40168-020-00801-4


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