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Probing RNA Structure with Dimethyl Sulfate Mutational Profiling with Sequencing In Vitro and in Cells
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Probing Transcriptome-Wide RNA Structural Changes Dependent on the DEAD-box Helicase Dbp2.

Yu-Hsuan Lai1,2, Elizabeth J Tran3,4

  • 1Department of Biochemistry, Purdue University, West Lafayette, IN, USA.

Methods in Molecular Biology (Clifton, N.J.)
|November 17, 2020
PubMed
Summary
This summary is machine-generated.

This study details a method to identify RNA structural changes caused by the DEAD-box helicase Dbp2 in yeast. This protocol helps uncover how RNA helicases remodel RNA and RNA-protein complexes in vivo.

Keywords:
Genome-wideHelicaseMappingRNASecondary structureSequencing

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Area of Science:

  • Molecular Biology
  • RNA Biology
  • Biochemistry

Background:

  • RNA helicases are crucial for RNA biology, remodeling RNA and RNA-protein complexes.
  • DEAD-box proteins, the largest helicase family in eukaryotes, modify RNA/RNP structures.
  • Identifying specific RNA targets and modulation sites for helicases remains a challenge.

Purpose of the Study:

  • To describe a protocol for identifying RNA structural changes induced by the Saccharomyces cerevisiae DEAD-box helicase Dbp2.
  • To provide a method for studying RNA helicase targets and their in vivo functions.

Main Methods:

  • The study presents a protocol for probing RNA structural alterations.
  • The method focuses on identifying changes dependent on the DEAD-box helicase Dbp2.
  • Experiments are designed for in vivo analysis of RNA structure.

Main Results:

  • The chapter outlines a specific protocol applicable to Dbp2.
  • The described experiments enable the identification of RNA structural remodeling.
  • The method allows for the study of helicase-dependent RNA modifications.

Conclusions:

  • The developed protocol facilitates the investigation of RNA helicase functions.
  • This method can be adapted to study other RNA helicases and their targets.
  • Understanding RNA structural changes is key to elucidating RNA metabolism.