@inbook{38905594a111499ab861586cce6d7859,
title = "μChIP-seq for genome-wide mapping of in vivo TF-DNA interactions in Arabidopsis root protoplasts",
abstract = "Chromatin immunoprecipitation (ChIP) is a widely used method to map the position of DNA-binding proteins such as histones and transcription factors (TFs) upon their interaction with particular regions of the genome. To examine the genomic distribution of a TF in specific cell types in response to a change in nitrogen concentration, we developed a micro-ChIP (μChIP) protocol that requires only ~5000 Arabidopsis cells transiently expressing the Arabidopsis TF Basic Leucine Zipper 1 (bZIP1) fused to the glucocorticoid receptor (GR) domain that mediates nuclear import in the presence of dexamethasone. The DNA fragments obtained from the immunoprecipitation of bZIP1-DNA complexes were analyzed by next-generation sequencing (ChIP-seq), which helped uncover genome-wide associations between a bZIP1 and its targets in plant cells upon fluctuations in nitrogen availability.",
keywords = "Chromatin immunoprecipitation, Cross-linking, Library preparation, Next-generation sequencing, Plant protoplasts, Transcription factor, Chromatin Immunoprecipitation/methods, Chromosome Mapping/methods, Gene Library, Protoplasts/metabolism, Arabidopsis/genetics, Binding Sites/genetics, High-Throughput Nucleotide Sequencing/methods, Transcription Factors/metabolism, Protein Binding, Plant Roots/genetics, Arabidopsis Proteins/metabolism",
author = "Alessia Para and Ying Li and Coruzzi, {Gloria M.}",
note = "Funding Information: The work on μChIP [3] was supported by NIH R01-GM032877 to G.C. Publisher Copyright: {\textcopyright} 2018, Springer Science+Business Media, LLC.",
year = "2018",
doi = "10.1007/978-1-4939-7747-5_19",
language = "English (US)",
volume = "1761",
series = "Methods in molecular biology (Clifton, N.J.)",
publisher = "Humana Press Inc.",
pages = "249--261",
booktitle = "Methods in Molecular Biology",
}