The Zebrafish: Genetics, Genomics, and Transcriptomics

The Zebrafish: Genetics, Genomics, and Transcriptomics, Fourth Edition, is the latest volume in the Methods in Cell Biology series that looks at methods for the analysis of genetics, genomics, and transcriptomics of Zebrafish.

Chapters cover such topics as gene-trap mutagenesis, genetic Screens for mutations, gene editing in zebrafish, homologous gene targeting, genome-wide RNA tomography, and developmental epigenetics and the zebrafish interactome.

Part 1. Forward and Reverse Genetics 1. Multiplex Conditional Mutagenesis in Zebrafish Using the CRISPR/Cas System 2. Tol2-Mediated Transgenesis, Gene Trapping and Enhancer Trapping, and the Gal4-UAS System 3. Genetic Screens for Mutations Affecting Adult Traits and Parental-Effect Genes 4. Targeted Candidate Gene Screens Using CRISPR/Cas9 Technology 5. TALEN and CRISPR Enhanced DNA Homologous Recombination for Gene Editing in Zebrafish 6. Precise Genome Editing by Homologous Recombination 7. The Zebrafish Genome Editing Toolkit 8. Clonal Analysis of Gene Loss-of-function and Tissue-specific Gene Deletion in Zebrafish via CRISPR/Cas9 Technology 9. Tissue-Specific Gene Targeting Using CRISPR/Cas9

Part 2. Transgenesis and Functional Genomics 10. Transcriptional Regulation Using the Q System in Transgenic Zebrafish 11. Contemporary Zebrafish Transgenesis with Tol2 and Application for Cre/lox Recombination Experiments 12. Method  for Somatic Cell Nuclear Transfer in Zebrafish 13. Experimental Approaches to Studying the Nature and Impact of Splicing Variation in Zebrafish 14. PICCORO: A Technique for Manipulating the Activity of Transcription Factors with Blue Light

Part 3. Transcriptomics 15. Tomo-seq: A Method to Obtain Genome-Wide Expression Data with Spatial Resolution 16. Cell-Type Specific Transcriptomic Analysis by Thiouracil Tagging in Zebrafish 17. RT-qPCR Gene Expression Analysis in Zebrafish: Preanalytical Precautions and Use of Expressed Repetitive Elements (ERE) for Normalization

Part 4. Epigenetics 18. Genome-Wide DNA Methylation Profiling in Zebrafish 19. Histone Modifications in Zebrafish Development 20. Chromatin Immunoprecipitation and an Open Chromatin Assay in Zebrafish Erythrocytes 21. Assay for Transposase-Accessible Chromatin and Circularized Chromosome Conformation Capture, Two Methods to Explore the Regulatory Landscapes of Genes in Zebrafish 22. Epigenetic Regulation of Hematopoietic Stem Cell Development

Part 5. Zebrafish Infrastructure 23. A Scientist’s Guide for Submitting Data to ZFIN 24. New Frontiers for Zebrafish Management 25. Aquaculture, Husbandry, and Shipping at the Zebrafish International Resource Center 26. Health Monitoring and Disease Prevention at the Zebrafish International Resource Center