Protocol to measure ribosome density along mRNA transcripts of Arabidopsis thaliana tissues using Ribo-seq.

Ribosome profiling (Ribo-seq) measures ribosome density along messenger RNA (mRNA) transcripts and is used to estimate the "translational fitness" of a given mRNA in response to environmental or developmental cues with high resolution. Here, we describe a protocol for Ribo-seq in plants adapted for the model plant Arabidopsis thaliana. We describe steps for lysis and nucleolytic digestion and ribosome footprinting. We then detail library construction, sequencing, and data analysis. Copyright © 2023 The Author(s). Published by Elsevier Inc. All rights reserved.

Citation

Isabel Cristina Vélez-Bermúdez, Shu-Jen Chou, Ai-Ping Chen, Wen-Dar Lin, Wolfgang Schmidt. Protocol to measure ribosome density along mRNA transcripts of Arabidopsis thaliana tissues using Ribo-seq. STAR protocols. 2023 Aug 18;4(3):102520

PMID: 37597190

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