Meta-omics-aided isolation of an elusive anaerobic arsenic-methylating soil bacterium.

Viacava, Karen; Qiao, Jiangtao; Janowczyk, Andrew; Poudel, Suresh; Jacquemin, Nicolas; Meibom, Karin Lederballe; Shrestha, Him K; Reid, Matthew C; Hettich, Robert L; Bernier-Latmani, Rizlan (2022). Meta-omics-aided isolation of an elusive anaerobic arsenic-methylating soil bacterium. The ISME journal, 16(7), pp. 1740-1749. Springer Nature 10.1038/s41396-022-01220-z

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Soil microbiomes harbour unparalleled functional and phylogenetic diversity. However, extracting isolates with a targeted function from complex microbiomes is not straightforward, particularly if the associated phenotype does not lend itself to high-throughput screening. Here, we tackle the methylation of arsenic (As) in anoxic soils. As methylation was proposed to be catalysed by sulfate-reducing bacteria. However, to date, there are no available anaerobic isolates capable of As methylation, whether sulfate-reducing or otherwise. The isolation of such a microorganism has been thwarted by the fact that the anaerobic bacteria harbouring a functional arsenite S-adenosylmethionine methyltransferase (ArsM) tested to date did not methylate As in pure culture. Additionally, fortuitous As methylation can result from the release of non-specific methyltransferases upon lysis. Thus, we combined metagenomics, metatranscriptomics, and metaproteomics to identify the microorganisms actively methylating As in anoxic soil-derived microbial cultures. Based on the metagenome-assembled genomes of microorganisms expressing ArsM, we isolated Paraclostridium sp. strain EML, which was confirmed to actively methylate As anaerobically. This work is an example of the application of meta-omics to the isolation of elusive microorganisms.

Item Type:

Journal Article (Original Article)

Division/Institute:

08 Faculty of Science > Institute of Geography > Physical Geography > Unit Soil Science
08 Faculty of Science > Institute of Geography
08 Faculty of Science > Institute of Geography > Physical Geography

UniBE Contributor:

Viacava Romo, Karen Elda

Subjects:

900 History > 910 Geography & travel

ISSN:

1751-7370

Publisher:

Springer Nature

Language:

English

Submitter:

Pubmed Import

Date Deposited:

28 Mar 2022 08:33

Last Modified:

26 Jun 2022 01:49

Publisher DOI:

10.1038/s41396-022-01220-z

PubMed ID:

35338334

BORIS DOI:

10.48350/168178

URI:

https://boris.unibe.ch/id/eprint/168178

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