Rho Gtpases: Methods and Protocols

ISBN-13: 9781493993437 / Angielski / Miękka / 2019 / 419 str.

Francisco Rivero

Spis treści

Part I: Computational Modeling and Imaging

 

1. Computational Modeling of the Dynamics of Spatiotemporal Rho GTPase Signaling: A Systematic Review

            Shabnam Khatibi, Karina Islas Rios, and Lan K. Nguyen

 

2. Uncovering Bistability in the Rac1/RhoA Signaling Network through Integrating Computational Modeling and Experimentation

            Alex von Kriegsheim and Lan K. Nguyen

 

3. Modeling Rho GTPase Dynamics Using Boolean Logic

            Joseph H.R. Hetmanski, Jean-Marc Schwartz, and Patrick T. Caswell

 

4. EdgeProps: A Computational Platform for Correlative Analysis of Cell Dynamics and Near-Edge Protein Activity

            Anastasia Zhurikhina, Timothy Qi, Klaus M. Hahn, Timothy C. Elston, and Denis Tsygankov

 

5. Applying Perturbation Expectation-Maximization to Protein Trajectories of Rho GTPases

            Peter K. Koo and Simon G.J. Mochrie

 

6. Parallel High Resolution Imaging of Leukocyte Chemotaxis under Agarose with Rho Family GTPase Biosensors

            George R.R. Bell, Dean E. Natwick, and Sean R. Collins

 

7. Characterization of Genetically-Encoded FRET Biosensors for Rho Family GTPases

            Sara K. Donnelly, Veronika Miskolci, Alice M. Garrastegui, Dianne Cox, and Louis Hodgson

 

8. Screening for Rho GTPase Modulators in Actin-Dependent Processes Exemplified by Phagocytosis

            Daniel Schlam, Sergio Grinstein, and Spencer A. Freeman

 

Part II: Biochemistry and High Throughput Methods

 

9. An In Vitro Kinase Assay to Assess Rac1 Phosphorylation by ERK

            Daniel Brandwein, Junfeng Tong, Laiji Li, Barbara Ballermann, and Zhixiang Wang

 

10. Methods to Study Rho GTPases Using Bacterial Toxins

            Gudula Schmidt

 

11. Assessment of S-Glutathionylated Rac1 in Cells Using Biotin-Labeled Glutathione

            Hannah Edenbaum and Jingyan Han

 

12. High Throughput Assay for RhoGEFs Based on the Transcreener^® GDP Assay

            Robert G. Lowery and Meera Kumar

 

13. Small Volume Flow Cytometry-Based Multiplex Analysis of the Activity of Small GTPases

            Peter Simons, Virginie Bondu, Angela Wandinger-Ness, and Tione Buranda

 

Part III: Cell Types and Processes

 

14. Methods to Study the Roles of Rho GTPases in Platelet Function

            Francisco Rivero and Simon Calaminus

 

15. Methods to Investigate the Role of Rho GTPases in Osteoclast Function

            Anne Morel, Anne Blangy, and Virginie Vives

 

16. Methods to Study the Role of Cdc42, Rac1 and Rac2 in B Cell Cytoskeletal Responses

            Natalija Gerasimcik, Lisa S. Westerberg, and Eva Severinson

 

17. In Vivo Rescue Assay of RhoA Deficient Hematopoietic Stem and Progenitor Cells

            Xiongwei Cai, Xuan Zhou, and Yi Zheng

 

18. Cell Polarity and Division Symmetry Analyses in Transformed Blood Cells

            Benjamin Mizukawa, Eric O’Brien, James C. Mulloy, and Yi Zheng

 

19. C3 Transferase Gene Therapy for Continuous RhoA Inhibition

            Angel J. Santiago-Lopez, Claire-Anne Gutekunst, and Robert E. Gross

 

20. A Practical Protocol for the Conditional Depletion of Rho Isoforms in Human Embryonic Stem Cells

            Masatoshi Ohgushi

 

21. Methods to Study the Roles of Rho GTPases in Dendritic Tree Complexity

            Jana Schulz and Stefan Schumacher

 

22. Assessing the Roles of Rho GTPases in Cell DNA Repair by the Nucleotide Excision Repair Pathway

            Lilian C. Russo, Pault Y. Minaya, Luiz E. Silva, and Fábio L. Forti

 

23. Measuring the Contributions of the Rho Pathway to the DNA Damage Response in Tumor Epithelial Cells

            Yuli T. Magalhães, Jessica O. Farias, Lucas F. Monteiro, and Fábio L. Forti

 

Part IV: Rho GTPases in Non-Mammalian Model Organisms

 

24. Using GAL4-Inducible Transgenics to Modulate Rho GTPase Activity in Zebrafish

            Nicholas J. Hanovice, Emily McMains, and Jeffrey M. Gross

 

25. Assaying Rho GTPase-Dependent Processes in Dictyostelium discoideum

            Maja Marinović, Huajiang Xiong, Francisco Rivero, and Igor Weber

 

26. Reconstruction of ROP GTPase Domains on the Plasma Membrane in Tobacco Leaves

            Yoshihisa Oda, Yoshinobu Nagashima, and Hiroo Fukuda

 

27. Analyzing Rho GTPase-Dependent Processes during Cell Polarization in Brown Algae

            Whitney Hable

Blurb

This detailed book expands upon the previous edition with a collection of methods for those performing experimental work on small GTPases of the Rho family. Split into four sections, the volume explores computational modeling and imaging procedures, biochemical methods related to post-translational modifications of Rho GTPases as well as some high throughput methods, functional assays that allow for monitoring the consequences of manipulating Rho GTPases in a variety of cell types and cell biology processes, and techniques specifically designed for studies in selected non-mammalian model organisms (zebrafish, social ameba, plants and algae). 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 trouble shooting and avoiding known pitfalls. 

Authoritative and up-to-date, Rho GTPases: Methods and Protocols, Second Edition constitutes an invaluable tool for all those with an interest in this remarkable family of signaling proteins.