Zebrafish: Cellular and Developmental Biology, Part A Cellular Biology

Zebrafish: Cellular and Developmental Biology, Part A Cellular Biology
 
 
Academic Press
  • 4. Auflage
  • |
  • erschienen am 4. Juni 2016
  • |
  • 322 Seiten
 
E-Book | ePUB mit Adobe DRM | Systemvoraussetzungen
E-Book | PDF mit Adobe DRM | Systemvoraussetzungen
978-0-12-803489-7 (ISBN)
 

The Zebrafish: Cellular and Developmental Biology, Part A Cellular Biology, is the latest edition in the Methods in Cell Biology series that looks at methods for analyzing cellular and developmental biology of zebrafish. Chapters cover such topics as cell biology and developmental and neural biology.


  • Covers sections on model systems and functional studies, imaging-based approaches, and emerging studies
  • Written by experts in the field
  • Contains cutting-edge material on the topic of developmental biology in zebrafish
  • New two part edition of this important volume
0091-679X
  • Englisch
  • San Diego
  • |
  • USA
Elsevier Science
  • 16,70 MB
978-0-12-803489-7 (9780128034897)
0128034890 (0128034890)
weitere Ausgaben werden ermittelt
  • Front Cover
  • Methods in Cell Biology
  • Series Editors
  • Methods in Cell Biology: The Zebrafish: Cellular and Developmental Biology, Part A Cellular Biology
  • Copyright
  • Dedication
  • Contents
  • Contributors
  • Preface
  • 1 - Embryonic cell culture in zebrafish
  • INTRODUCTION
  • 1. METHODS
  • 1.1 Blastomere Cell Culture
  • 1.1.1 Overview
  • 1.1.2 Materials and reagents
  • 1.1.3 Plating zebrafish blastomeres
  • 1.1.4 Representative results
  • 1.2 Neural Crest Cell Culture
  • 1.2.1 Overview
  • 1.2.2 Materials and reagents
  • 1.2.3 Plating zebrafish neural crest cells
  • 1.2.4 Representative results
  • CONCLUSION
  • REFERENCES
  • 2 - Cellular dissection of zebrafish hematopoiesis
  • INTRODUCTION
  • 1. ZEBRAFISH HEMATOPOIESIS
  • 1.1 Primitive Hematopoiesis
  • 1.2 Definitive Hematopoiesis
  • 1.3 Adult Hematopoiesis
  • 2. HEMATOPOIETIC CELL TRANSPLANTATION
  • 2.1 Embryonic Donor Cells
  • 2.1.1 Protocol for isolating hematopoietic cells from embryos
  • 2.1.2 Transplanting purified cells into embryonic recipients
  • 2.1.3 Transplanting cells into blastula recipients
  • 2.1.4 Transplanting cells into 48hpf embryos
  • 2.2 Adult Donor Cells
  • 2.2.1 Protocols for isolating hematopoietic cells from adult zebrafish
  • 2.2.2 Transplanting WKM
  • 2.2.3 Transplanting cells into irradiated adult recipients
  • 2.2.4 Irradiation
  • 2.2.5 Transplantation
  • 3. ENRICHMENT OF HSCS
  • 4. IN VITRO CULTURE AND DIFFERENTIATION OF HEMATOPOIETIC PROGENITORS
  • 4.1 Stromal Cell Culture Assays
  • 4.1.1 Generation of ZKS cells
  • 4.1.2 Maintenance and culture of ZKS cells
  • 4.1.3 Generation of ZEST cells
  • 4.1.4 Maintenance and culture of ZEST cells
  • 4.1.5 Protocols for in vitro proliferation and differentiation assays on ZKS and ZEST cells
  • 4.2 Clonal Methylcellulose-Based Assays
  • 4.2.1 Methylcellulose
  • 4.2.2 Methylcellulose stock preparation
  • 4.2.3 Methylcellulose clonal assays
  • 4.2.4 Enumeration of colony forming units
  • 4.2.5 Picking and analyzing colonies from methylcellulose
  • CONCLUSIONS
  • REFERENCES
  • 3 - Second harmonic generation microscopy in zebrafish
  • INTRODUCTION
  • 1. MATERIALS
  • 1.1 Zebrafish Embryos
  • 1.2 Microscope Supplies and Components
  • 1.3 Buffers, Other Reagents, and Tools for Sample Preparation
  • 1.4 Image Processing Components
  • 2. METHODS
  • 2.1 Macrophage-Specific Protein Expression
  • 2.2 Preparation of 35-mm Polystyrene Bottom Petri Dishes
  • 2.3 Caudal Fin Amputation
  • 2.4 Preparation of Fixed Samples
  • 2.5 Image Acquisition
  • 2.6 Image Processing and Analysis (Fig. 2)
  • 3. NOTES
  • Acknowledgments
  • SUPPLEMENTARY DATA
  • REFERENCES
  • 4 - Imaging blood vessels and lymphatic vessels in the zebrafish
  • INTRODUCTION
  • 1. IMAGING VASCULAR GENE EXPRESSION
  • 2. NONVITAL BLOOD VESSEL AND LYMPHATIC VESSEL IMAGING
  • 2.1 Microdye and Microresin Injection
  • 2.1.1 Resin injection method
  • 2.1.1.1 Materials
  • 2.1.1.2 Protocol
  • 2.1.1.2.1 Preparation of the apparatus
  • 2.1.1.2.2 Experimental procedure
  • 2.1.2 Dye injection method
  • 2.1.2.1 Materials
  • 2.1.2.2 Protocol
  • 2.1.2.2.1 Dye injection of embryos and early larvae
  • 2.1.2.2.2 Dye injection of juvenile and adult zebrafish
  • 2.2 Alkaline Phosphatase Staining for 3dpf Embryos
  • 2.2.1 Materials
  • 2.2.2 Protocol
  • 2.2.3 Important notes
  • 3. VITAL IMAGING OF BLOOD AND LYMPHATIC VESSELS
  • 3.1 Microangiography
  • 3.1.1 Materials
  • 3.1.2 Protocol
  • 3.1.2.1 Preparation of the apparatus
  • 3.1.2.2 Experimental procedure
  • 3.2 Imaging Blood and Lymphatic Vessels in Transgenic Zebrafish
  • 3.2.1 Long-term mounting for time-lapse imaging
  • 3.2.1.1 Materials
  • 3.2.1.2 Method
  • 3.2.1.2.1 Preparation of imaging chambers
  • 3.2.1.2.2 Mounting animals in imaging chambers
  • 3.2.2 Short-term mounting for time-lapse imaging
  • 3.2.3 Multiphoton time-lapse imaging
  • 3.2.4 Imaging the zebrafish vasculature using light sheet microscopy
  • 3.2.5 Imaging the zebrafish vasculature using superresolution microscopy
  • CONCLUSION
  • REFERENCES
  • 5 - An eye on light-sheet microscopy
  • INTRODUCTION
  • HISTORY
  • 1. PRINCIPLE BEHIND SELECTIVE PLANE ILLUMINATION MICROSCOPY
  • 1.1 Speed
  • 1.2 Phototoxicity
  • 1.3 Resolution and Image Quality
  • 1.4 Realization
  • 1.5 Components of a Selective Plane Illumination Microscopy
  • 2. THE MICROSCOPE FOR YOUR SAMPLE OR THE SAMPLE FOR YOUR MICROSCOPE?
  • 2.1 Specimen Size Versus Field of View and Movement Range of the Stages: ("Does Your Sample Fit Into the Microscope?")
  • 2.2 Refractive Index and Light Attenuation of the Immersion Medium: ("Is the Culture Medium Suitable for the Optics?")
  • 2.3 Desired Spatial and Temporal Resolution: ("Can I Actually Resolve the Objects I Want to Detect and Can I Image Fast/Long En ...
  • 2.3.1 Spatial resolution
  • 2.3.2 Temporal resolution
  • 2.4 Mounting of the Sample: ("Is There a Reliable Routine to Mount the Specimen of Choice?")
  • 3. DATA ACQUISITION AND HANDLING
  • 4. CHALLENGES AND PERSPECTIVES
  • Acknowledgment
  • REFERENCES
  • 6 - Single neuron morphology in vivo with confined primed conversion
  • INTRODUCTION
  • 1. PHOTOCONVERTIBLE FLUORESCENT PROTEINS
  • 2. CONFINED PRIMED CONVERSION
  • 3. UNRAVELING SINGLE NEURON MORPHOLOGY WITH CONFINED PRIMED CONVERSION
  • 3.1 Confined Primed Conversion Enables Photoconversion of Single Cells In Vivo
  • 3.2 Confined Primed Conversion of Neurons Is a Powerful Tool for Neural Morphology Analysis
  • CONCLUSION AND OUTLOOK
  • REFERENCES
  • 7 - Visualizing retinoic acid morphogen gradients
  • INTRODUCTION
  • 1. CHALLENGES FOR MORPHOGEN GRADIENT STUDIES
  • 2. FEEDBACK ALLOWS RETINOIC ACID TO ACT AS A GRADED MORPHOGEN
  • 3. CYP26S AS KEY REGULATORS OF RETINOIC ACID GRADIENT FORMATION
  • 4. VISUALIZING THE RETINOIC ACID GRADIENT
  • 5. CRABPS AND RETINOIC ACID SIGNAL ROBUSTNESS
  • 6. SHARPENING BOUNDARIES OF GENE EXPRESSION IN RESPONSE TO RETINOIC ACID GRADIENTS
  • 7. NOISE-BOTH GOOD AND BAD
  • 8. OTHER BOUNDARIES AND OTHER MORPHOGENS
  • CONCLUSIONS AND PERSPECTIVES
  • Acknowledgments
  • REFERENCES
  • 8 - Using fluorescent lipids in live zebrafish larvae: from imaging whole animal physiology to subcellular lipid tr ...
  • INTRODUCTION
  • THE NEED FOR WHOLE ANIMAL STUDIES OF LIPID METABOLISM
  • 1. FORWARD GENETIC SCREENING WITH FLUORESCENT LIPIDS
  • 1.1 PED6
  • 1.2 NBD- and BODIPY-Cholesterol
  • 2. VISUALIZING LIPID METABOLISM USING BODIPY FATTY ACID ANALOGS
  • 2.1 BODIPY (Excitation/Emission Maxima ~503/512nm)
  • 2.2 BODIPY C2
  • 2.3 BODIPY C5
  • 2.4 BODIPY C12/C16
  • SUMMARY
  • Acknowledgments
  • REFERENCES
  • 9 - Analysis of cilia structure and function in zebrafish
  • INTRODUCTION
  • 1. CILIA IN ZEBRAFISH ORGANS
  • 1.1 Kupffer's Vesicle
  • 1.2 The Pronephros
  • 1.3 Sensory Organs
  • 1.3.1 Photoreceptors
  • 1.3.2 Mechanosensory hair cells
  • 1.3.3 Olfactory sensory neurons
  • 1.4 Spinal Canal
  • 2. ANALYTICAL TOOLS FOR CILIA MORPHOLOGY AND MOTILITY
  • 2.1 Method 1: Detection of Ciliary Proteins Using Immunohistochemistry
  • 2.1.1 Method 1a: staining of whole embryos at 3dpf and younger
  • 2.1.2 Method 1b: staining of whole larvae at 5-7dpf
  • 2.1.3 Method 1c: staining of dissected adult tissues (ear and retina)
  • 2.1.4 Method 1d: staining of cryosections (all stages)
  • 2.2 Method 2: Live Imaging of Cilia and Basal Bodies Using Transgenic Lines
  • 2.3 Method 3: Live Imaging of Cilia Movement
  • 2.4 Method 4: Live Imaging of Cilia Using Light Sheet Microscopy
  • 2.5 Method 5: Analysis of Ciliary Transport Using Inducible Transgenes
  • 3. PHENOTYPES OF CILIA MUTANTS IN ZEBRAFISH
  • 3.1 Method 6: Evaluation of Heart Position in Live Embryos
  • 3.2 Method 7: Evaluation of Kidney Function
  • 3.3 Method 8: Analysis of Sensory Cell Morphology
  • 3.3.1 Photoreceptor cells
  • 3.3.2 Auditory system hair cells
  • 3.3.3 Lateral line hair cells
  • 3.3.4 Olfactory sensory neurons
  • 3.4 Method 9: Staining of Neuromast Hair Cells in Live Specimen
  • 3.5 Method 10: Labeling of Olfactory Neurons by DiI Incorporation
  • 3.6 Method 11: Tests of Olfaction
  • 4. FUTURE DIRECTIONS
  • Acknowledgments
  • REFERENCES
  • 10 - Functional calcium imaging in zebrafish lateral-line hair cells
  • INTRODUCTION
  • 1. CALCIUM INDICATOR SELECTION AND COMPARISON
  • 1.1 Selecting a Calcium Indicator
  • 1.2 Comparison of Calcium Indicators
  • 1.3 Validating a Relevant Calcium Signal
  • 2. IMAGING SYSTEMS AND OPTIMAL PARAMETERS
  • 2.1 General Microscope and Equipment Requirements
  • 2.2 Choosing a Specific Imaging System
  • 2.3 Determining Optimal Imaging Parameters
  • 2.4 Synchronizing a Stimulus With Image Acquisition
  • 3. IMAGE PROCESSING
  • 3.1 Image Registration Using ImageJ
  • 3.2 Signal Detection and Representation in ImageJ
  • 3.3 Spatial Detection and Visualization Using MATLAB
  • SUMMARY
  • DISCUSSION
  • Acknowledgments
  • REFERENCES
  • 11 - Physiological recordings from the zebrafish lateral line
  • INTRODUCTION
  • 1. COMMON METHODS FOR LATERAL LINE ELECTROPHYSIOLOGY
  • 1.1 Ethics Statement
  • 1.2 Larval Tissue Preparation
  • 1.3 Larval Immobilization With Bungarotoxin
  • 1.4 Recording Chamber and Larval Mounting
  • 1.5 Physiological Solutions
  • 2. STIMULATION OF NEUROMAST HAIR CELLS
  • 2.1 Mechanical Stimulation
  • 2.2 Optical Stimulation
  • 3. RECORDING MICROPHONIC POTENTIALS
  • 3.1 Microphonics Equipment and Setup
  • 3.2 Positioning the Microphonic Recording Electrode
  • 3.3 Recording Microphonic Potentials
  • 3.4 Analysis of Microphonic Potentials
  • 4. IN VIVO HAIR CELL PHYSIOLOGY
  • 4.1 Identification and Access
  • 4.2 Electrophysiology Electrodes and Placement
  • 4.3 Establishing Whole-Cell Recordings
  • 4.4 Analysis of Whole-Cell Recording
  • 5. AFFERENT NEURON ACTION CURRENTS
  • 5.1 Action Current Electrodes and Placement
  • 5.2 Establishing an Action Current Recording
  • 5.3 Analysis of Afferent Fiber Spiking
  • 6. SUMMARY
  • DISCUSSION
  • Acknowledgments
  • REFERENCES
  • Volumes in Series
  • Index
  • A
  • B
  • C
  • D
  • E
  • F
  • G
  • H
  • I
  • K
  • L
  • M
  • N
  • O
  • P
  • Q
  • R
  • S
  • T
  • U
  • V
  • W
  • X
  • Y
  • Z
  • Back Cover

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