Metaepigenomic analysis reveals the unexplored diversity of DNA methylation in an environmental prokaryotic community.

Abstract:

:DNA methylation plays important roles in prokaryotes, and their genomic landscapes-prokaryotic epigenomes-have recently begun to be disclosed. However, our knowledge of prokaryotic methylation systems is focused on those of culturable microbes, which are rare in nature. Here, we used single-molecule real-time and circular consensus sequencing techniques to reveal the 'metaepigenomes' of a microbial community in the largest lake in Japan, Lake Biwa. We reconstructed 19 draft genomes from diverse bacterial and archaeal groups, most of which are yet to be cultured. The analysis of DNA chemical modifications in those genomes revealed 22 methylated motifs, nine of which were novel. We identified methyltransferase genes likely responsible for methylation of the novel motifs, and confirmed the catalytic specificities of four of them via transformation experiments using synthetic genes. Our study highlights metaepigenomics as a powerful approach for identification of the vast unexplored variety of prokaryotic DNA methylation systems in nature.

journal_name

Nat Commun

journal_title

Nature communications

authors

Hiraoka S,Okazaki Y,Anda M,Toyoda A,Nakano SI,Iwasaki W

doi

10.1038/s41467-018-08103-y

subject

Has Abstract

pub_date

2019-01-11 00:00:00

pages

159

issue

1

issn

2041-1723

pii

10.1038/s41467-018-08103-y

journal_volume

10

pub_type

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