PUBLICATION

Histone modifications in zebrafish development

Authors
Cunliffe, V.T.
ID
ZDB-PUB-160725-17
Date
2016
Source
Methods in cell biology   135: 361-85 (Chapter)
Registered Authors
Cunliffe, Vincent
Keywords
Chromatin immunoprecipitation, Epigenetics, Epigenome, Histone modifications, Zebrafish
MeSH Terms
  • Animals
  • Chromatin/genetics
  • Chromatin Assembly and Disassembly/genetics
  • Chromatin Immunoprecipitation/methods
  • DNA Methylation/genetics*
  • Epigenesis, Genetic*
  • Gene Expression Profiling/methods*
  • Genome
  • Histone Code/genetics*
  • Nucleosomes/genetics
  • Promoter Regions, Genetic
  • Regulatory Sequences, Nucleic Acid/genetics
  • Transcriptome/genetics
  • Zebrafish/genetics
PubMed
27443936 Full text @ Meth. Cell. Biol.
Citation
Cunliffe, V.T. (2016) Histone modifications in zebrafish development. Methods in cell biology. 135:361-85.
Abstract
Reversible covalent histone modifications are known to influence spatiotemporal patterns of gene transcription during development. Here I review recent advances in the development and use of methods to analyze the distribution and functions of histone modifications in zebrafish chromatin. I discuss the roles of dynamic histone modification patterns at the promoters and enhancers of genes during the process of zygotic gene activation at blastula stages and the interplay between the molecular machinery responsible for histone modifications, chromatin remodeling and DNA methylation. Interactions are also described between developmentally regulated enhancer sequences and modified histones. A detailed method for chromatin immunoprecipitation using antibodies is provided, and I describe the use of high-throughput whole genome sequencing technology to generate DNA sequence data from chromatin immunoprecipitates. I also discuss computational approaches to integrating DNA sequence data obtained from chromatin immunoprecipitates with annotated reference genome sequences, transcriptome and methylome sequence data, transcription factor binding motif databases, and gene ontologies and describe the types of software tools currently available for visualizing the results.
Genes / Markers
Figures
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Antibodies
Orthology
Engineered Foreign Genes
Mapping
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