Genome-wide analysis of the in vivo tRNA structurome reveals RNA structural and modification dynamics under heat stress.

ABSTRACT: RNA structure plays roles in myriad cellular events including transcription, translation, and RNA processing. Genome-wide analyses of RNA secondary structure in vivo by chemical probing have revealed critical structural features of mRNAs and long ncRNAs. Here, we examine the in vivo secondary structure of a small RNA class, tRNAs. Study of tRNA structure is challenging because tRNAs are heavily modified and strongly structured. We introduce "tRNA structure-seq," a new workflow that accurately determines in vivo secondary structures of tRNA. The workflow combines dimethyl sulfate (DMS) probing, ultra-processive RT, and mutational profiling (MaP), which provides mutations opposite DMS and natural modifications thereby allowing multiple modifications to be identified in a single read. We appl

SUBMITTER: Yamagami R 

PROVIDER: S-EPMC9231505 | biostudies-literature | 2022 Jun

REPOSITORIES: biostudies-literature