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The Integrated Stress Response

Methods and Protocols

  • Book
  • © 2022

Overview

Editors:
  1. Daniel Matějů

    1. Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland

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    You can also search for this editor in PubMed   Google Scholar

  2. Jeffrey A. Chao

    1. Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Includes cutting-edge techniques
  • Provides step-by-step detail essential for reproducible results
  • Contains key implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 2428)

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Table of contents (23 protocols)

  1. Front Matter

    Pages i-xii
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  2. Analysis of mRNA Translation Regulation

    1. Front Matter

      Pages 1-1
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    2. An Overview of Methods for Detecting eIF2α Phosphorylation and the Integrated Stress Response

      • Agnieszka Krzyzosiak, Aleksandra P. Pitera, Anne Bertolotti
      Pages 3-18

    3. CRISPR-Based Screening for Stress Response Factors in Mammalian Cells

      • Xiaoyan Guo, Martin Kampmann
      Pages 19-40

    4. Multiplexed Analysis of Human uORF Regulatory Functions During the ISR Using PoLib-Seq

      • Gemma E. May, C. Joel McManus
      Pages 41-62

    5. Measuring Bulk Translation Activity in Single Mammalian Cells During the Integrated Stress Response

      • Alyssa M. English, Stephanie L. Moon
      Pages 63-73

    6. Quantitative Translation Proteomics Using mePROD

      • Kevin Klann, Christian Münch
      Pages 75-87

    7. Quantifying the Binding of Fluorescently Labeled Guanine Nucleotides and Initiator tRNA to Eukaryotic Translation Initiation Factor 2

      • Martin D. Jennings, Graham D. Pavitt
      Pages 89-99

    8. Mammalian In Vitro Translation Systems

      • Yulia Gonskikh, Valentina Pecoraro, Norbert Polacek
      Pages 101-111

    9. Measuring Repeat-Associated Non-AUG (RAN) Translation

      • Shaopeng Wang, Shuying Sun
      Pages 113-132

    10. Analysis of Ribosome Profiling Data

      • Carine Legrand, Khanh Dao Duc, Francesca Tuorto
      Pages 133-156

    11. Analysis of Translational Control in the Integrated Stress Response by Polysome Profiling

      • Michael J. Holmes, Jagannath Misra, Ronald C. Wek
      Pages 157-171

    12. High-Resolution Ribosome Profiling for Determining Ribosome Functional States During Translation Elongation

      • Mohammad Shafieinouri, Britnie Santiago Membreno, Colin Chih-Chien Wu
      Pages 173-186

    13. Fluorescence Intensity-Based eIF2B’s Guanine Nucleotide-Exchange Factor Activity Assay

      • Yusuke Sekine, David Ron, Alisa F. Zyryanova
      Pages 187-196

  3. Analysis of Interaction Networks and RNP Granules

    1. Front Matter

      Pages 197-197
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    2. Collective Learnings of Studies of Stress Granule Assembly and Composition

      • Hadjara Sidibé, Christine Vande Velde
      Pages 199-228

    3. Detecting Stress Granules in Drosophila Neurons

      • Fabienne De Graeve, Nadia Formicola, Kavya Vinayan Pushpalatha, Akira Nakamura, Eric Debreuve, Xavier Descombes et al.
      Pages 229-242

    4. Monitoring and Quantification of the Dynamics of Stress Granule Components in Living Cells by Fluorescence Decay After Photoactivation

      • Anna-Carina Söhnel, Nataliya I. Trushina, Roland Brandt
      Pages 243-259

    5. Probing Protein Solubility Patterns with Proteomics for Insight into Network Dynamics

      • Xiaojing Sui, Mona Radwan, Dezerae Cox, Danny M. Hatters
      Pages 261-275

    6. Analyzing the Composition and Organization of Ribonucleoprotein Complexes by APEX-Seq

      • Alejandro Padrón, Nicholas Ingolia
      Pages 277-289
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Keywords

About this book

This volume provides an up-to-date collection of protocols describing some of the key methods to investigate the integrated stress response (ISR), a vital evolutionarily conserved mechanism that enables eukaryotic cells to adapt to stress conditions and alter their gene expression programs. The content of the book is split between techniques to analyze mRNA translation regulation and methods to analyze interaction networks and ribonucleoprotein (RNP) granules. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. 

Authoritative and practical, The Integrated Stress Response: Methods and Protocols serves as an ideal guide to help accelerate research into the complex and fascinating biology of the ISR.

Editors and Affiliations

  • Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland

    Daniel Matějů, Jeffrey A. Chao

Bibliographic Information

  • Book Title: The Integrated Stress Response

  • Book Subtitle: Methods and Protocols

  • Editors: Daniel Matějů, Jeffrey A. Chao

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-0716-1975-9

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: The Editor(s) (if applicable) and The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature 2022

  • Hardcover ISBN: 978-1-0716-1974-2Published: 17 February 2022

  • Softcover ISBN: 978-1-0716-1977-3Published: 17 February 2022

  • eBook ISBN: 978-1-0716-1975-9Published: 16 February 2022

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XII, 404

  • Number of Illustrations: 17 b/w illustrations

  • Topics: Cell Biology, Biological Techniques

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