High-throughput functional profiling and evolutionary covariation analysis of entire riboswitch sequences.

ABSTRACT: Riboswitches are useful models for revealing how some RNA molecules undergo dynamic rearrangements of their structures to perform cellular functions. A great deal is known about the structure of riboswitch ligand-binding aptamer domains through evolutionary sequence covariation analysis. However, covariation analysis has been more difficult to apply to riboswitch expression platforms given their large range in cellular functions, and their large sequence diversity. Here, we develop an approach to identify whole transcriptional riboswitch sequences starting from their conserved aptamer domains. We then generate covariation models for the entire riboswitch including the aptamer domain and the expression platform. The method consists of first bioinformatically extending identified aptamer dom

SUBMITTER: Hertz LM 

PROVIDER: S-EPMC12667848 | biostudies-literature | 2025 Nov

REPOSITORIES: biostudies-literature