Simultaneous characterization of cellular RNA structure and function with in-cell SHAPE-Seq.

ABSTRACT: Many non-coding RNAs form structures that interact with cellular machinery to control gene expression. A central goal of molecular and synthetic biology is to uncover design principles linking RNA structure to function to understand and engineer this relationship. Here we report a simple, high-throughput method called in-cell SHAPE-Seq that combines in-cell probing of RNA structure with a measurement of gene expression to simultaneously characterize RNA structure and function in bacterial cells. We use in-cell SHAPE-Seq to study the structure-function relationship of two RNA mechanisms that regulate translation in Escherichia coli. We find that nucleotides that participate in RNA-RNA interactions are highly accessible when their binding partner is absent and that changes in RNA structure d

SUBMITTER: Watters KE 

PROVIDER: S-EPMC4737173 | biostudies-literature | 2016 Jan

REPOSITORIES: biostudies-literature