Contents

Preface to the Book Series

1. Introduction

James Sharpe and Rachel O. Wong

 

SECTION 1: MODEL SYSTEMS

2. Live Imaging of Caenorhabditis elegans Embryogenesis

Zhirong Bao and John I. Murray

3. Live Imaging of Drosophila Development

Jessica R.K. Seifert and Ruth Lehmann

4. Live Imaging of Zebrafish Development

Leanne Godinho

5. Live Imaging of Cells and Tissues in Xenopus Embryos

John B. Wallingford

6. Live Imaging of Avian Embryos

Paul M. Kulesa and Scott E. Fraser

7. Live Imaging of Mouse Embryos

Monica D. Garcia, Ryan S. Udan, Anna-Katerina Hadjantonakis, and Mary E. Dickinson

 

SECTION 2: CELLS

Labeling Cells for Live Cell Imaging

8. Electroporation of Chick and Mouse Embryos

Catherine E. Krull, Fengyun Su, Mary E. Swartz, Johann Eberhart, Rebecca McLennan, Yaxiong Chen, and Paul A. Trainor

9. Single-Cell Electroporation in Xenopus

Xue Feng Liu and Kurt Haas

10. Single-Neuron Labeling Using Genetic Methods

J. Sebastian Espinosa, Joy S. Tea, and Liqun Luo

11. Ballistic Labeling of Developing Retinal Neurons

Josh L. Morgan and Daniel Kerschensteiner

12. Multicolor Brainbow Imaging in Zebrafish

Y. Albert Pan, Jean Livet, Joshua R. Sanes, Jeff W. Lichtman, and Alexander F. Schier

13. Genetic Labeling of Neurons in Mouse Brain

Z. Josh Huang, Hiroki Taniguchi, Miao He, and Sandra Kuhlman

 

Cell Fate, Differentiation, and Migration

14. Live Imaging of Neuroblast Lineages within Intact Larval Brains in Drosophila

Clemens Cabernard and Chris Q. Doe

15. Visualizing Cell Contacts and Cell Polarity in Caenorhabditis elegans Embryos

Timothy Walston and Jeff Hardin

16. In Vivo Birthdating in Zebrafish

Y. Albert Pan, Sophie J.C. Caron, and Alexander F. Schier

17. Imaging Retinal Progenitor Lineages in the Developing Zebrafish Retina

Patricia Jusuf, William A. Harris, and Lucia Poggi

18. Imaging the Development of the Fish Lateral-Line System

Kevin Schuster and Alain Ghysen

19. Imaging Cell Migration in Chick Explant Cultures

Jennifer C. Kasemeier-Kulesa, Frances Lefcort, Scott E. Fraser, and Paul M. Kulesa

20. Imaging Cell Movements in Egg Cylinder Stage Mouse Embryos

Shankar Srinivas

21. Marking Cells for Imaging Analysis of Morphogenetic Behavior and Cell Fates in Mouse Embryos

Nicolas Fossat, David A.F. Loebel, Vanessa Jones, Poh-Lynn Khoo, Heidi Bildsoe, and Patrick P.L. Tam

22. Visualizing Spatiotemporal Dynamics of Multicellular Cell-Cycle Progressions

Asako Sakaue-Sawano and Atsushi Miyawaki

23. Time-Lapse Imaging of Fluorescently Labeled Live Cells in the Embryonic Mammalian Forebrain

Stephen C. Noctor

 

Imaging Circuit Formation in the Nervous System

24. Imaging Calcium Transients in Developing Xenopus Spinal Neurons

Nicholas C. Spitzer, Laura N. Borodinsky, and Cory M. Root

25. Imaging Axon Pathfinding in Xenopus and Zebrafish In Vivo

Louis Leung and Christine E. Holt

26. Axons and Dendrites: In Vivo Time-Lapse Imaging of Neuronal Development in Xenopus

Edward S. Ruthazer, Anne Schohl, Neil Schwartz, Aydin Tavakoli, Marc Tremblay, and Hollis T. Cline

27. In Vivo Imaging of Synaptogenesis in Zebrafish

James D. Jontes and Michelle R. Emond

28. Live Imaging of Developing Retinal Circuits

Philip R. Williams, Joshua L. Morgan, Daniel Kerschensteiner, and Rachel O.L. Wong

29. Imaging the Developing Mammalian Neuromuscular Junction In Vivo

Stephen G. Turney, Mark K. Walsh, and Jeff W. Lichtman

30. Live Imaging of Developing Hippocampal Neurons in Culture

Stefanie Kaech, Chun-Fang Huang, and Gary Banker

31. Imaging of Synapse Formation and Function in Neuronal Cell Cultures by Quantitative Immunocytochemistry

Camin Dean and Peter Scheiffele

32. Simultaneous Imaging of Structural Plasticity and Calcium Dynamics in Developing Dendrites and Axons

Friederike Siegel and Christian Lohmann

33. Simultaneous Patch-Clamping and Calcium Imaging in Developing Dendrites

Thomas Kleindienst and Christian Lohmann

34. Imaging Synaptic Protein Dynamics in the Cerebral Cortex In Vitro and In Vivo

Robby M. Weimer, Travis C. Hill, Andrew M. Hamilton, and Karen Zito

35. In Vivo Imaging of Axonal and Dendritic Structures in Developing Cortex

Alberto Cruz-Martin and Carlos Portera-Cailliau

 

SECTION 3: DYNAMIC TISSUES AND ORGANS

36. Quantifying the Bicoid Morphogen Gradient in Living Fly Embryos

Alexander H. Morrison, Martin Scheeler, Julien Dubuis, and Thomas Gregor

37. Quantitative Imaging of Morphogen Gradients in Drosophila Imaginal Discs

Anna Kicheva, Laurent Holtzer, Ortrud Wartlick, Thomas Schmidt, and Marcos González-Gaitán

38. Methods to Investigate Molecular Mechanisms and Cellular Mechanics Responsible for Morphogenesis in Xenopus laevis Embryos

Hye Young Kim and Lance A. Davidson

39. Notochord Formation in Zebrafish

Samantha J. England and Richard J. Adams

40. High-Resolution, Multiphoton Time-Lapse Imaging of Early Chick Embryos

Octavian Voiculescu and Claudio D. Stern

41. Four-Dimensional Fluorescent Imaging of Embryonic Quail Development

Christie A. Canaria and Rusty Lansford

42. Imaging Kidney Development

Frank Costantini, Tomoko Watanabe, Benson Lu, Xuan Chi, and Shankar Srinivas

43. Practical Considerations for Long-Term Time-Lapse Imaging of Epithelial Morphogenesis in Three-Dimensional Organotypic Cultures

Andrew J. Ewald

44. High-Speed Optical Coherence Tomography Imaging of the Beating Avian Embryonic Heart

Shi Gu, Michael W. Jenkins, Michiko Watanabe, and Andrew M. Rollins

45. Imaging Mouse Embryonic Cardiovascular Development

Irina V. Larina, Monica D. Garcia, Tegy J. Vadakkan, Kirill V. Larin, and Mary E. Dickinson

46. Micro-Ultrasound and Its Application to Longitudinal Studies of Mouse Eye Development and Disease

F. Stuart Foster and Allison S. Brown

 

SECTION 4: WHOLE EMBRYOS: GENE EXPRESSION, PHENOTYPING, AND DATABASES

47. Quantitative Imaging of Gene Expression in Drosophila Embryos

Svetlana Surkona, Ekaterina Myasnikova, Konstantin N. Kozlov, Andrei Pisarev, John Reinitz, and Maria Samsonova

48. Three-Dimensional Morphology and Gene Expression Mapping for the Drosophila Blastoderm

David W. Knowles

49. From Confocal Imaging to 3D Model: A Protocol for Creating 3D Digital Replicas of Ascidian Embryos

François B. Robin, Delphine Dauga, Olivier Tassy, Daniel Sobral, Fabrice Daian, and Patrick Lemaire

50. Preparation of Fixed Xenopus Embryos for Confocal Imaging

John B. Wallingford

51. Optical Projection Tomography of Vertebrate Embryo Development

Laura Quintana and James Sharpe

52. X-Ray Microtomographic Imaging of Vertebrate Embryos

Brian D. Metscher

53. Episcopic Three-Dimensional Imaging of Embryos

Timothy J. Mohun and Wolfgang J. Weninger

54. High-Throughput Analysis of Mouse Embryos by Magnetic Resonance Imaging

Simon D. Bamforth, Jürgen E. Schneider, and Shoumo Bhattacharya

55. MRI in Developmental Biology and the Construction of Developmental Atlases

Seth W. Ruffins and Russell E. Jacobs

56. Automated Lineage and Expression Profiling in Live Caenorhabditis elegans Embryos

John Isaac Murray and Zhirong Bao

57. Imaging the Development of Entire Zebrafish and Drosophila Embryos with Digital Scanned Laser Light-Sheet Fluorescence Microscopy (DSLM)

Philipp J. Keller, Annette D. Schmidt, Jochen Wittbrodt, and Ernst H.K. Stelzer

 

SECTION 5: APPENDICES

1. Electromagnetic Spectrum

Marilu Hoeppner

2. Fluorescence Microscopy Filters and Excitation/Emission Spectra

3. Safe Operation of a Fluorescence Microscope

George McNamara

4. Microscope Objective Lenses

5. Resources for Live Imaging of Drosophila

6. Glossary of Imaging Terms

7. Cautions

 

Index

  Imaging in Developmental Biology is an excellent resource from which both novices and experienced researchers can obtain current state-of-the-art embryo-imaging protocols for studying key developmental events, such as cell-fate determination, morphogen gradient formation, cell-cell interactions, cell migration and morphogenesis....comment often expressed was: “I did not know that we could do so much!” Upon first perusal, this comprehensive book seems almost overwhelming with an impressive 57 chapters and seven appendices. But it does contain just about everything known about imaging embryos. This is not surprising as the volume is based, in part, on the popular and excellent Cold Spring Harbor imaging course....The book is pleasant to read, with its clever use of illustrations, photos and online protocol videos....we highly recommend this book and hope that multidisciplinary collaborative expertise in biology, imaging, image analysis, computer science, visualization and database construction will continue to fast-forward 4D imaging techniques and, consequently, our knowledge of development.”
      —Development

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