Identification of Antisense RNA Stem-Loops That Inhibit RNA–Protein Interactions Using a Bacterial Reporter System
RNA–protein interactions play important roles in gene regulation, functional RNA–protein complexes such as the ribosome, and in viral replication. Molecules that regulate specific RNA–protein interactions may be used to dissect biological processes, and to establish the validity of targeting an RNA–protein interaction. There are many examples of biological regulation by antisense RNA stem-loops that form loop-loop and loop-linear RNA–RNA interactions. Here, a bacterial reporter system for the identification of RNA stem-loops that inhibit the formation of RNA–protein complexes through RNA–RNA interactions is described.
Key wordsRNA–protein interactions RNA stem-loop Antisense RNA Loop-loop (“kissing”) interaction Bacterial reporter system Randomized RNA libraries LacZ β-Galactosidase Colony color assay