The Zebrafish Genetics, Genomics, and Transcriptomics

✍ Scribed by H. William Detrich, Monte Westerfield and Leonard I. Zon (Eds.)

• Publisher: Academic Press
• Year: 2016
• Tongue: English
• Leaves: 569
• Series: Methods in Cell Biology 135
• Edition: 4
• Category: Library

✦ Synopsis

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.

• Covers sections on model systems and functional studies, imaging-based approaches, and emerging studies
• Presents chapters written by experts in the field
• Contains cutting-edge material on the topic

✦ Table of Contents

Content:
Methods in Cell Biology Page i
Series Editors Page ii
Front Matter Page iii
Copyright Page iv
Dedication Page v
Contributors Pages xvii-xxiii
Preface Pages xxv-xxvi H. William Detrich III, Monte Westerfield, Leonard I. Zon
Chapter 1 - Multiplex conditional mutagenesis in zebrafish using the CRISPR/Cas systemOriginal Research Article Pages 3-17 L. Yin, L.A. Maddison, W. Chen
Chapter 2 - Tol2-mediated transgenesis, gene trapping, enhancer trapping, and Gal4-UAS systemOriginal Research Article Pages 19-37 K. Kawakami, K. Asakawa, A. Muto, H. Wada
Chapter 3 - Genetic screens for mutations affecting adult traits and parental-effect genesOriginal Research Article Pages 39-87 F. Pelegri, M.C. Mullins
Chapter 4 - Targeted candidate gene screens using CRISPR/Cas9 technologyOriginal Research Article Pages 89-106 A.N. Shah, C.B. Moens, A.C. Miller
Chapter 5 - TALEN- and CRISPR-enhanced DNA homologous recombination for gene editing in zebrafishOriginal Research Article Pages 107-120 Y. Zhang, H. Huang, B. Zhang, S. Lin
Chapter 6 - Precise genome editing by homologous recombinationOriginal Research Article Pages 121-147 K. Hoshijima, M.J. Jurynec, D.J. Grunwald
Chapter 7 - The zebrafish genome editing toolkitOriginal Research Article Pages 149-170 H. Ata, K.J. Clark, S.C. Ekker
Chapter 8 - Clonal analysis of gene loss of function and tissue-specific gene deletion in zebrafish via CRISPR/Cas9 technologyOriginal Research Article Pages 171-188 F. De Santis, V. Di Donato, F. Del Bene
Chapter 9 - Tissue-specific gene targeting using CRISPR/Cas9Original Research Article Pages 189-202 J. Ablain, L.I. Zon
Chapter 10 - Transcriptional regulation using the Q system in transgenic zebrafishOriginal Research Article Pages 205-218 A. Ghosh, M.E. Halpern
Chapter 11 - Contemporary zebrafish transgenesis with Tol2 and application for Cre/lox recombination experimentsOriginal Research Article Pages 219-244 A. Felker, C. Mosimann
Chapter 12 - Method for somatic cell nuclear transfer in zebrafishOriginal Research Article Pages 245-257 K. Siripattarapravat, S. Prukudom, J. Cibelli
Chapter 13 - Experimental approaches to studying the nature and impact of splicing variation in zebrafishOriginal Research Article Pages 259-288 M.C. Keightley, S. Markmiller, C.G. Love, J.E.J. Rasko, G.J. Lieschke, J.K. Heath
Chapter 14 - PICCORO: A technique for manipulating the activity of transcription factors with blue lightOriginal Research Article Pages 289-295 S. Masuda, M. Tanaka
Chapter 15 - Tomo-seq: A method to obtain genome-wide expression data with spatial resolutionOriginal Research Article Pages 299-307 F. Kruse, J.P. Junker, A. van Oudenaarden, J. Bakkers
Chapter 16 - Cell type-specific transcriptomic analysis by thiouracil tagging in zebrafishOriginal Research Article Pages 309-328 T. Erickson, T. Nicolson
Chapter 17 - RT-qPCR gene expression analysis in zebrafish: Preanalytical precautions and use of expressed repetitive elements for normalizationOriginal Research Article Pages 329-342 S. Vanhauwaert, S. Lefever, P. Coucke, F. Speleman, A. De Paepe, J. Vandesompele, A. Willaert
Chapter 18 - Genome-wide DNA methylation profiling in zebrafishOriginal Research Article Pages 345-359 P.J. Murphy, B.R. Cairns
Chapter 19 - Histone modifications in zebrafish developmentOriginal Research Article Pages 361-385 V.T. Cunliffe
Chapter 20 - Chromatin immunoprecipitation and an open chromatin assay in zebrafish erythrocytesOriginal Research Article Pages 387-412 S. Yang, C.J. Ott, M.P. Rossmann, M. Superdock, L.I. Zon, Y. Zhou
Chapter 21 - Assay for transposase-accessible chromatin and circularized chromosome conformation capture, two methods to explore the regulatory landscapes of genes in zebrafishOriginal Research Article Pages 413-430 A. Fernández-Miñán, J. Bessa, J.J. Tena, J.L. Gómez-Skarmeta
Chapter 22 - Epigenetic regulation of hematopoietic stem cell developmentOriginal Research Article Pages 431-448 C. Li, T. Evans, M.G. Goll
Chapter 23 - A scientist's guide for submitting data to ZFINOriginal Research Article Pages 451-481 D.G. Howe, Y.M. Bradford, A. Eagle, D. Fashena, K. Frazer, P. Kalita, P. Mani, R. Martin, S.T. Moxon, H. Paddock, C. Pich, S. Ramachandran, L. Ruzicka, K. Schaper, X. Shao, A. Singer, S. Toro, C. Van Slyke, M. Westerfield
Chapter 24 - New frontiers for zebrafish managementOriginal Research Article Pages 483-508 C. Lawrence
Chapter 25 - Aquaculture, husbandry, and shipping at the Zebrafish International Resource CenterOriginal Research Article Pages 509-534 Z.M. Varga
Chapter 26 - Health monitoring and disease prevention at the Zebrafish International Resource CenterOriginal Research Article Pages 535-551 Z.M. Varga, K.N. Murray
Volumes in Series Pages 553-565
Index Pages 567-577

✦ Subjects

Zebra danio;Genetics;Research;Methodology