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DMS-MaPseq: A genome-wide or targeted approach for RNA structure probing in vivo

ABSTRACT: Here we present dimethyl sulfate mutational profiling with sequencing (DMS-MaPseq), which encodes DMS modifications as mismatches using a thermostable group II intron reverse transcriptase (TGIRT). DMS-MaPseq yields a high signal-to-noise ratio, can report multiple structural features for each molecule, and allows genome-wide studies as well as focused investigations of low abundance RNAs. We apply DMS-MaPseq to Drosophila melanogaster ovaries—the first experimental analysis of RNA structure in an animal tissue—and demonstrate its utility in the discovery of a functional RNA structure involved in the non-canonical GUG translation initiation of the human FXR2 mRNA. Additionally, we use DMS-MaPseq to compare the in vivo structure of messages in their pre-mRNA and mature forms. These applications illustrate DMS-MaPseq’s capacity to dramatically expand our ability to monitor RNA structure in vivo.

OTHER RELATED OMICS DATASETS IN: PRJNA329551

ORGANISM(S): Saccharomyces cerevisiae Homo sapiens Drosophila melanogaster

PROVIDER: GSE84537 | GEO | 2016/09/16

SECONDARY ACCESSION(S): PRJNA329551

REPOSITORIES: GEO

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