Targeted Profiling of RNA Translation

Curr Protoc Mol Biol. 2019 Jan;125(1):e71. doi: 10.1002/cpmb.71. Epub 2018 Oct 22.

Abstract

This unit describes a reverse transcription-quantitative PCR (RT-qPCR)-based method for gene-targeted measurement of RNA translation levels. The method includes washing and lysing cells with a buffer containing cycloheximide to enrich ribosomal accumulation at translation initiation sites (TIS), followed by enzymatic treatment to generate ribosomal footprints, reverse transcription targeted towards TIS of specific transcripts of interest to generate complementary DNA (cDNA), and qPCR to measure the abundance of these footprints. This method enables time- and cost-effective assessment of changes in translation levels across focused panels of genes and across numerous samples. © 2018 by John Wiley & Sons, Inc.

Keywords: RNA translation; RT-qPCR; protein synthesis.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • DNA, Complementary / genetics
  • DNA, Complementary / metabolism
  • Gene Expression Profiling / methods*
  • Gene Expression Regulation
  • Humans
  • Protein Biosynthesis
  • Proteins / genetics
  • Proteins / metabolism
  • RNA / genetics*
  • RNA / isolation & purification
  • RNA / metabolism
  • Real-Time Polymerase Chain Reaction / methods*
  • Reverse Transcription
  • Transcription, Genetic*

Substances

  • DNA, Complementary
  • Proteins
  • RNA