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- Title
Observation of structural switch in nascent SAM-VI riboswitch during transcription at single-nucleotide and single-molecule resolution.
- Authors
Xue, Yanyan; Li, Jun; Chen, Dian; Zhao, Xizhu; Hong, Liang; Liu, Yu
- Abstract
Growing RNAs fold differently as they are transcribed, which modulates their finally adopted structures. Riboswitches regulate gene expression by structural change, which are sensitive to co-transcriptionally structural biology. Here we develop a strategy to track the structural change of RNAs during transcription at single-nucleotide and single-molecule resolution and use it to monitor individual transcripts of the SAM-VI riboswitch (riboSAM) as transcription proceeds, observing co-existence of five states in riboSAM. We report a bifurcated helix in one newly identified state from NMR and single-molecule FRET (smFRET) results, and its presence directs the translation inhibition in our cellular translation experiments. A model is proposed to illustrate the distinct switch patterns and gene-regulatory outcome of riboSAM when SAM is present or absent. Our strategy enables the precise mapping of RNAs' conformational landscape during transcription, and may combine with detection methods other than smFRET for structural studies of RNAs in general. Observation of single nascent RNA at single-nucleotide resolution enables building a conformation landscape of how RNAs change during transcription. Here the authors develop a method to monitor the conformational change of individual SAM-VI riboswitch RNA (riboSAM) during transcription at single-nucleotide resolution as it is synthesized by transcription.
- Subjects
TRANSGENIC organisms; RIBOSWITCHES; GENE expression; RNA
- Publication
Nature Communications, 2023, Vol 14, Issue 1, p1
- ISSN
2041-1723
- Publication type
Article
- DOI
10.1038/s41467-023-38042-2