Stem Cell Renewal and Cell-Cell Communication Methods and Protocols

This detailed book brings together a new set of protocols to arm cell biologists with techniques that are currently being used in a number of well-established laboratories around the world. The contents represent the great strides made in the field of cell-cell communications with respect to the identification and characterization of key components of the communication apparatus, assembly and maintenance of the communications structures, and concomitantly their roles in not only tissue formation and maintenance but also regeneration and repair. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective chapters, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. 

1. Inference of Ligand-Receptor Pairs from Single-Cell Transcriptomics Data

            Mirjana Efremova and Roser Vento-Tormo

 

2. Multiple Imaging Modalities for Cell-Cell Communication via Calcium Mobilizations in Corneal Epithelial Cells

            Yoonjoo K. Lee, Kristen L. Segars, and Vickery Trinkaus-Randall

 

3. Interactions of Hematopoietic Stem Cells with Bone Marrow Niche

            Xinghui Zhao, Cuiping Zhang, Xiaojing Cui, and Ying Liang

 

4. Ex Vivo Modeling of Hematopoietic Stem Cell Homing to the Fetal Liver

            Amina Mohammadalipour, Miguel F. Diaz, Sumedha Pareek, and Pamela L. Wenzel

 

5. Analysis of Epithelial Architecture and Planar Spindle Orientation in the Drosophila Wing Disc

            Yu-ichiro Nakajima

 

6. A Co-Culture Model to Study the Effect of Kidney Fibroblast-p90RSK on Epithelial Cell Survival

            Ling Lin, Samantha White, and Kebin Hu

 

7. Calcium Fluorescence Recordings from Neuroepithelial Stem Cells

            Masayuki Yamashita

 

8. Ultrastructural Analysis of Cell-Cell Interactions in Drosophila Ovary

            Matthew Antel, Valentina Baena, Mark Terasaki, and Mayu Inaba

 

9. TIRF Microscopy as a Tool to Determine Exosome Composition

            Noa B. Martín-Cófreces, Daniel Torralba, Marta Lozano-Prieto, Nieves Fernández-Gallego, and Francisco Sánchez-Madrid

 

10. Rapid Visualization of Intracellular Vesicle Events during Synaptic Stimulation

            Noa B. Martín-Cófreces, Amelia Rojas-Gomez, Sara G. Dosil, Irene Fernandez-Delgado, and Francisco Sánchez-Madrid

 

11. Monitoring of Active Notch Signaling in Mouse Bladder Urothelium

            Panagiotis Karakaidos and Theodoros Rampias

 

12. Examining Local Cell-to-Cell Signaling in the Kidney Using ATP Biosensing

            Gareth W. Price, Joe A. Potter, Bethany M. Williams, Chelsy L. Cliff, Mark J. Wall, Claire E. Hills, and Paul E. Squires

 

13. Isolation and Assessment of Pancreatic Islets Versus Dispersed Beta Cells: A Straightforward Approach to Examine Cell-Cell Communication

            Rachel T. Scarl, William J. Koch, Kathryn L. Corbin, and Craig S. Nunemaker

 

14. Promoter Pull-Down Assay: A Biochemical Screen for DNA-Binding Proteins

            Ryan R. Chaparian and Julia C. van Kessel

 

15. Purification of the Vibrio Quorum-Sensing Transcription Factors LuxR, HapR, and SmcR

            Jane D. Newman and Julia C. van Kessel

 

16. Preserving Cytonemes for Immunocytochemistry of Cultured Adherent Cells

            Sally Rogers and Steffen Scholpp

 

17. Fluorescent Labeling of Connexin with As-Complex and X-Y Coordinates Registration of Target Single-Cells Based on a Triangle Standard Chip for the Image Analysis of Gap Junctional Communication

            Mikako Saito

 

18. Chemical and Voltage Gating of Gap Junction Channels Expressed in Xenopus Oocytes

            Camillo Peracchia

 

19. The Analysis of Gap Junctional Intercellular Communication among Osteocytes in Chick Calvariae by Fluorescence Recovery after Photobleaching

            Ziyi Wang, Yoshihito Ishihara, and Hiroshi Kamioka

 

20. Flow Cytometry Evaluation of Gap Junction-Mediated Intercellular Communication between Cytotoxic T Cells and Target Tumor Cells

            Mariela Navarrete, Flavio Salazar-Onfray, and Andrés Tittarelli