Axon Regeneration: Methods and Protocols

ISBN-13: 9781071630112 / Angielski / Twarda / 2023 / 520 str.

Ava J. Udvadia; James B. Antczak

Opis

This volume covers a wide range of approaches utilized to decipher cellular and molecular mechanisms that contribute to successful nerve regeneration leading to functional recovery. Chapters detail a variety of models utilizing both in vivo and in vitro approaches, physical injury models, methods for the isolation/analysis of various macromolecules, live and fixed imaging of regenerating axons, and for quantifying behavioral endpoints enable measurements of regenerative success. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and methods, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols. Authoritative and cutting-edge, Axon Regeneration: Methods and Protocols aims to be comprehensive guide for researchers.

Spis treści

1. Defining selective neuronal resilience and identifying targets for neuroprotection and axon regeneration using single-cell RNA sequencing: Experimental approaches

Anne Jacobi and Nicholas M. Tran

2. Defining selective neuronal resilience and identifying targets of neuroprotection and axon regeneration using single-cell RNA sequencing – computational approaches

Salwan Butrus, Srikant Sagireddy, Wenjun Yan and Karthik Shekhar

3. Retinal Ganglion Cell Axon Fractionation

Sean Meehan and Sanjoy Bhattacharya

4. Analysis of Immediate Early Gene Expression Levels to Interrogate Changes In Cortical Neuronal Activity Patterns Upon Vision Loss

Sara R. J. Gilissen, Maroussia Hennes and Lutgarde Arckens

5. Non-coding regulatory RNAs: Isolation and analysis of neuronal circular RNAs and microRNAs

Michela Dell’Orco, Grigorios Papageorgiou, Nikolaos Mellios and Nora I. Perrone-Bizzozero

6. Transneuronal delivery of cytokines to stimulate mammalian spinal cord regeneration

Daniel Terheyden-Keighley, Marco Leibinger, Charlotte Zeitler and Dietmar Fischer

7. Epigenomic Profiling of Dorsal Root Ganglia Upon Regenerative and Non-Regenerative Axonal Injury

F. Mueller, J. S. Chadwick, S. Di Giovanni, and I. Palmisano

8. Profiling locally translated mRNAs in regenerating axons

Pabitra K. Sahoo and Jeffery L. Twiss

9. Analysis of axonal regrowth and dendritic remodeling after optic nerve crush in adult zebrafish

An Beckers, Steven Bergmans, Annelies Van Dyck and Lieve Moons

10. Assaying Optic Nerve Regeneration in Larval Zebrafish

Beth M. Harvey, Melissa Baxter and Michael Granato

11. Surgical Methods in Postmetamorphic Xenopus laevis: Optic Nerve Crush Injury Model

Alexis M. Feidler, Hieu HM. Nguyen, and Fiona L. Watson

12. Generating widespread and scalable retinal lesions in adult zebrafish by intraocular injection of ouabain

Diana M. Mitchell and Deborah L. Stenkamp

13. A reproducible spinal cord crush injury in the regeneration permissive axolotl

Sarah Walker, Tiago Santos-Ferreira and Karen Echeverri

14. Live imaging of axonal dynamics after laser axotomy of peripheral neurons in zebrafish

Kadidia P. Adula and Alvaro Sagasti

15. Rapid testing of gene function in axonal regeneration after spinal cord injury using larval zebrafish

Louisa K. Drake, Marcus Keatinge, Themistoklis M. Tsarouchas, Catherina G. Becker, David A. Lyons and Thomas Becker

16. Translational Ribosomal Affinity Purification (TRAP) and Bionformatic RNA-Seq Analysis in Postmetamorphic  Xenopus laevis

Gregg B. Whitworth and Fiona L. Watson

17. LCM-seq for Retinal Cell Layer-Specific Responses During Optic Nerve Regeneration

Wesley Speer and Matthew B. Veldman

18. Temporal-Based Dynamic Profiling of DNA Accessibility With ATAC-Seq in the Regenerating Retina of Zebrafish

Sumona P. Dhara and Ava J. Udvadia

19. Quantitative Proteomics of Nervous System Regeneration: From Sample Preparation to Functional Data Analyses

Dasfne Lee-Liu and Liangliang Sun

20. Live Cell Imaging of Dynamic Processes in Adult Zebrafish Retinal Cross-section Cultures

Manuela Lahne and David R. Hyde

21. PCNA staining of retinal cryosections to assess microglial/macrophage proliferation

Anna G. Lovel and Diana M. Mitchell

22. Using a Drosophila injury model to investigate RNA repair and splicing in axon regeneration

Qin Wang, Shannon Trombley, Mahdi Rashidzada and Yuanquan Song

23. Assessing rewiring of the retinal circuitry after inner retinal lesion zebrafish

Lindsey M. Barrett, Peter C. Meighan, Diana M. Mitchell, Michael D. Varnum and Deborah L. Stenkamp

24. Analysis of visual recovery after optic nerve crush in adult zebrafish

An Beckers, Steven Bergmans, Annelies Van Dyck and Lieve Moons