Contents

Preface to the Book Series

Preface to Book 1

 

SECTION 1: INSTRUMENTATION

1. Microscope Principles and Optical Systems

Frederick Lanni and H. Ernst Keller

2. Video Microscopy, Video Cameras, and Image Enhancement

Masafumi Oshiro, Lowell A. Moomaw, and H. Ernst Keller

3. Differential Interference Contrast Imaging of Living Cells

Noam E. Ziv and Jackie Schiller

4. Infrared Video Microscopy

Hans-Ulrich Dodt, Klaus Becker, and Walter Zieglgänsberger

5. Confocal Microscopy: Principles and Practice

Alan Fine

6. Spinning-Disk Systems

Tony Wilson

7. Introduction to Multiphoton-Excitation Fluorescence Microscopy

Winfried Denk

8. How to Build a Two-Photon Microscope with a Confocal Scan Head

Volodymyr Nikolenko and Rafael Yuste

9. Arc Lamps and Monochromators for Fluorescence Microscopy

Rainer Uhl

10. Light-Emitting Diodes for Biological Microscopy

Tomokazu Sato and Venkatesh N. Murthy

11. Lasers for Nonlinear Microscopy

Frank Wise

12. Spectral Methods for Functional Brain Imaging

David Kleinfeld and Partha P. Mitra

13. Preparation of Cells and Tissues for Fluorescence Microscopy

Andrew H. Fischer, Kenneth A. Jacobson, Jack Rose, Pascal Lorentz, and Rolf Zeller

 

SECTION 2: LABELING AND INDICATORS

14. Labeling Cell Structures with Nonimmunological Fluorescent Dyes

Brad Chazotte

15. Introduction to Immunofluorescence Microscopy

George McNamara, Leonid (Alex) Belayev, Carl Boswell, and Jose Santos Da Silva Figueira

16. Immunoimaging: Studying Immune System Dynamics Using Two-Photon Microscopy

Melanie P. Matheu, Michael D. Cahalan, and Ian Parker

17. Biarsenical Labeling of Tetracysteine-Tagged Proteins

Asit K. Pattnaik and Debasis Panda

18. Bimolecular Fluorescence Complementation (BiFC) Analysis of Protein Interactions and Modifications In Living Cells

Tom K. Kerppola

19. Preparation and Use of Retroviral Vectors for Labeling, Imaging, and Genetically Manipulating Cells

Ayumu Tashiro, Chunmei Zhao, Hoonkyo Suh, and Fred H. Gage

20. Nonviral Gene Delivery

David A. Dean and Joshua Z. Gasiorowski

21. Cellular Bioluminescence Imaging

David K. Welsh and Takako Noguchi

22. Introduction to Indicators Based on Fluorescence Resonance Energy Transfer

Roger Y. Tsien

23. How Calcium Indicators Work

Stephen R. Adams

24. Calibration of Fluorescent Calcium Indicators

Fritjof Helmchen

25. Quantitative Aspects of Calcium Fluorimetry

Erwin Neher

26. Genetic Calcium Indicators: Fast Measurements Using Yellow Cameleons

Atsushi Miyawaki, Takeharu Nagai, and Hideaki Mizuno

27. Targeted Recombinant Aequorins

Tullio Pozzan and Rosario Rizzuto

28. Imaging Intracellular Signaling Using Two-Photon Fluorescent Lifetime Imaging Microscopy

Ryohei Yasuda

29. Imaging Gene Expression in Live Cells and Tissues

Hao Hong, Yunan Yang, and Weibo Cai

30. Multiphoton Excitation of Fluorescent Probes

Chris Xu and Warren R. Zipfel

 

SECTION 3: ADVANCED MICROSCOPY

Molecular Imaging

31. Single-Molecule FRET Using Total Internal Reflection Microscopy

Jeehae Park and Taekjip Ha

32. Alternating Laser Excitation for Solution-Based Single-Molecule FRET

Achillefs Kapanidis, Devdoot Majumdar, Mike Heilemann, Eyal Nir, and Shimon Weiss

33. FIONA: Nanometer Fluorescence Imaging

Paul D. Simonson and Paul R. Selvin

34. Photoactivated Localization Microscopy (PALM): An Optical Technique for Achieving~10-nm Resolution

Haining Zhong

35. Stochastic Optical Reconstruction Microscopy: A Method for Superresolution Fluorescence Imaging

Mark Bates, Sara A. Jones, and Xiaowei Zhuang

36. Imaging Live Cells Using Quantum Dots

Jyoti K. Jaiswal and Sanford M. Simon

37. Imaging Biological Samples with Atomic Force Microscopy

Pedro J. de Pablo and Mariano Carrión-Vázquez

Cellular Imaging

38. Total Internal Reflection Fluorescence Microscopy

Ahmet Yildiz and Ronald D. Vale

39. Fluorescence Correlation Spectroscopy: Principles and Applications

Kirsten Bacia, Elke Haustein, and Petra Schwille

40. Image Correlation Spectroscopy: Principles and Applications

Paul W. Wiseman

41. Time-Domain Fluorescence Lifetime Imaging Microscopy: A Quantitative Method to Follow Transient Protein–Protein Interactions in Living Cells

Sergi Padilla-Parra, Nicolas Audugé, Marc Tramier, and Maïté Coppey-Moisan

42. Single- and Two-Photon Fluorescence Recovery after Photobleaching

Kelley D. Sullivan, Ania K. Majewska, and Edward B. Brown

43. Fluorescent Speckle Microscopy

Lisa A. Cameron, Benjamin R. Houghtaling, and Ge Yang

44. Polarized Light Microscopy: Principles and Practice

Rudolf Oldenbourg

45. Array Tomography: High-Resolution Three-Dimensional Immunofluorescence

Kristina D. Micheva, Nancy O’Rourke, Brad Busse, and Stephen J Smith

46. Monitoring Membrane Potential with Second-Harmonic Generation

Stacy A. Wilson, Andrew Millard, Aaron Lewis, and Leslie M. Loew

47. Grating Imager Systems for Fluorescence Optical-Sectioning Microscopy

Frederick Lanni

Tissue Imaging

48. Coherent Raman Tissue Imaging in the Brain

Brian G. Saar, Christian W. Freudiger, Xiaoyin Xu, Anita Huttner, Santosh Kesari, Geoffrey Young, and X. Sunney Xie

49. Ultramicroscopy: Light-Sheet-Based Microscopy for Imaging Centimeter-Sized Objects with Micrometer Resolution

Klaus Becker, Nina Jährling, Saiedeh Saghafi, and Hans-Ulrich Dodt

50. In Vivo Optical Microendoscopy for Imaging Cells Lying Deep within Live Tissue

Robert P.J. Barretto and Mark J. Schnitzer

51. Light-Sheet-Based Fluorescence Microscopy for Three-Dimensional Imaging of Biological Samples

Jim Swoger, Francesco Pampaloni, and Ernst H.K. Stelzer

52. Photoacoustic Imaging

Yin Zhang, Hao Hong, and Weibo Cai

Fast Imaging

53. Imaging the Dynamics of Biological Processes via Fast Confocal Microscopy and Image Processing

Michael Liebling

54. High-Speed Two-Photon Imaging

Gaddum Duemani Reddy and Peter Saggau

55. Digital Micromirror Devices: Principles and Applications in Imaging

Vivek Bansal and Peter Saggau

56. Spatial Light Modulator Microscopy

Volodymyr Nikolenko, Darcy S. Peterka, Roberto Araya, Alan Woodruff, and Rafael Yuste

57. Temporal Focusing Microscopy

Dan Oron and Yaron Silberberg

Uncaging

58. Caged Neurotransmitters and Other Caged Compounds: Design and Application

George P. Hess, Ryan W. Lewis, and Yongli Chen

59. Nitrobenzyl-Based Caged Neurotransmitters

Graham C.R. Ellis-Davies

60. Uncaging with Visible Light: Inorganic Caged Compounds

Leonardo Zayat, Luis M. Baraldo, and Roberto Etchenique

 

SECTION 4: 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. Glossary

6. Cautions

Index

  “Yuste managed to get renowned scientists and even Nobel Prize winners (including Roger Y. Tsien and Erwin Neher) to write the chapters to ensure that the latest findings were also incorporated into each of the subject areas....In summary, this manual provides an excellent overview of the broad subject of image processing in microscopy. Imaging: A Laboratory Manual is suitable both as a reference book for beginners and as a ‘cookbook’ for readers working in research.”
      —Carl Zeiss Microscopy

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