PUBLICATION

Tissue-Specific In Vivo Biotin Chromatin Immunoprecipitation with Sequencing in Zebrafish and Chicken

Authors
Lukoseviciute, M., Ling, I.T.C., Senanayake, U., Candido-Ferreira, I., Taylor, G., Williams, R.M., Sauka-Spengler, T.
ID
ZDB-PUB-201029-6
Date
2020
Source
STAR protocols   1: 100066 (Journal)
Registered Authors
Sauka-Spengler, Tatjana
Keywords
none
Datasets
GEO:GSE106676
MeSH Terms
  • Animals
  • Biotin/chemistry*
  • Biotin/metabolism
  • Cells, Cultured
  • Chickens/genetics
  • Chromatin Immunoprecipitation/methods*
  • Organ Specificity/physiology
  • Sequence Analysis, DNA/methods*
  • Streptavidin/chemistry
  • Streptavidin/metabolism
  • Transcription Factors/chemistry
  • Transcription Factors/metabolism
  • Zebrafish/genetics
PubMed
33111104 Full text @ STAR Protoc
Abstract
Chromatin immunoprecipitation with sequencing (ChIP-seq) has been instrumental in understanding transcription factor (TF) binding during gene regulation. ChIP-seq requires specific antibodies against desired TFs, which are not available for numerous species. Here, we describe a tissue-specific biotin ChIP-seq protocol for zebrafish and chicken embryos which utilizes AVI tagging of TFs, permitting their biotinylation by a co-expressed nuclear biotin ligase. Subsequently, biotinylated factors can be precipitated with streptavidin beads, enabling the user to construct TF genome-wide binding landscapes like conventional ChIP-seq methods. For complete details on the use and execution of this protocol, please see Lukoseviciute et al. (2018) and Ling and Sauka-Spengler (2019).
Genes / Markers
Figures
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Antibodies
Orthology
Engineered Foreign Genes
Mapping