Chromatin immunoprecipitation sequencing (ChIP-seq) for transcription factors and chromatin factors in Arabidopsis thaliana roots: From material collection to data analysis

Sandra CortijoVarodom CharoensawanFrançois RoudierPhilip A. WiggeReproduction et Développement des PlantesUniversity of CambridgeMahidol University2019-08-232019-08-232018-01-01Methods in Molecular Biology. Vol.1761, (2018), 231-248106437452-s2.0-85043787894https://repository.li.mahidol.ac.th/handle/20.500.14594/45318© 2018, Springer Science+Business Media, LLC. Chromatin immunoprecipitation combined with next-generation sequencing (ChIP-seq) is a powerful technique to investigate in vivo transcription factor (TF) binding to DNA, as well as chromatin marks. Here we provide a detailed protocol for all the key steps to perform ChIP-seq in Arabidopsis thaliana roots, also working on other A. thaliana tissues and in most non-ligneous plants. We detail all steps from material collection, fixation, chromatin preparation, immunoprecipitation, library preparation, and finally computational analysis based on a combination of publicly available tools.Mahidol UniversityBiochemistry, Genetics and Molecular BiologyChromatin immunoprecipitation sequencing (ChIP-seq) for transcription factors and chromatin factors in Arabidopsis thaliana roots: From material collection to data analysisChapterSCOPUS10.1007/978-1-4939-7747-5_18