Double‐Stranded RNA‐Specific Templated Reaction with Triplex Forming PNA

Abstract

RNA, originally perceived as a simple information transfer biopolymer, is emerging as an important regulator in cellular processes. A number of non‐coding RNAs are double‐stranded and there is a need for technologies to reliably detect and image such RNAs for biological and biomedical research. Herein we report double‐stranded RNA‐specific templated reaction resulting from PNA‐reagent conjugates that are brought within reactive distance through the formation of sequence‐specific triplexes onto double‐stranded RNA. The reaction makes use of a ruthenium‐based photocatalyst that reduces a pyridinium‐based immolative linker, unmasking a profluorophore. The reaction was shown to proceed with signal amplification and to be selective for double‐stranded RNA over DNA as well as single‐stranded RNA. The generality of the triplex formation was enabled by non‐canonical nucleobases that extend the Hoogsteen base‐pairing repertoire. The technology was applied to a templated reaction using pre‐microRNA 31.