` Imaging in Developmental Biology: A Laboratory Manual
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Imaging in Developmental Biology: A Laboratory Manual


Subject Area(s):  Cell BiologyMicroscopy and ImagingDevelopmental BiologyLaboratory Manuals/Handbooks

Edited by James Sharpe, EMBL-CRG Systems Biology Unit, Barcelona, Spain; Rachel Wong, University of Washington; Series Editor, Rafael Yuste, Howard Hughes Medical Institute, Columbia University

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© 2011 • 883 pp., illus., index
Paperback • $169.00 109.85 • ISBN  978-0-879699-40-6
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Description

New imaging technologies have revolutionized the study of developmental biology. Where researchers once struggled to connect events at static timepoints, imaging tools now offer the ability to visualize the dynamic form and function of molecules, cells, tissues, and whole embryos throughout the entire developmental process. Imaging in Developmental Biology: A Laboratory Manual, a new volume in Cold Spring Harbor Laboratory Press’ Imaging series, presents a comprehensive set of essential visualization methods. The manual features primers on live imaging of a variety of standard model organisms including C. elegans, Drosophila, zebrafish, Xenopus, avian species, and mouse. Further techniques are organized by the level of visualization they provide, from cells to tissues and organs to whole embryos. Methods range from the basics of labeling cells to cutting-edge protocols for high-speed imaging, optical projection tomography, and digital scanned laser light-sheet fluorescence. Imaging has become a required methodology for developmental biologists, and Imaging in Developmental Biology: A Laboratory Manual provides the detailed explanations and instructions for mastering these necessary techniques.

 

Reviews

review:  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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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
 
 

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Imaging in Neuroscience: A Laboratory Manual [Hardcover]
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