Single Molecule Studies of RNA–RNA Interactions

  • Dongmei Yu
  • Peiwu Qin
  • Peter V. CornishEmail author
Part of the Methods in Molecular Biology book series (MIMB, volume 1240)


Non-coding RNAs including microRNAs, siRNAs, and snoRNAs interact with their targets directly through RNA–RNA interactions by base-paring (van Himbergen et al., Nucleic Acids Res 21(8):1713–1717, 1993). RNA–RNA interactions play important roles in gene transcription and protein translation, which can be investigated with several experimental techniques including single molecule methods. Here, we describe how single molecule Förster resonance energy transfer (FRET) can be used to study RNA–RNA interactions in vitro by either surface immobilization or vesicle encapsulation.

Key words

RNA–RNA interactions RNA ligation RNA labeling Single molecule FRET 



This work was supported by an NSF CAREER award (MCB-115343). P.C. is a Pew Scholar in the Biomedical Sciences.


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Copyright information

© Springer Science+Business Media New York 2015

Authors and Affiliations

  1. 1.Department of BiochemistryUniversity of MissouriColumbiaUSA

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