Abstract
DNase I hypersensitive sites (DHSs) are genomic regions that exhibit hypersensitivity to DNase I cleavage. DHSs appear to be an essential feature of "open chromatin" structure in eukaryotes. Most of regulatory elements and the majority of transcription factor-binding sites are associated with open chromatin marked by DHSs. DNase I digestion followed by high-throughput DNA sequencing (DNase-seq) has become a powerful tool to reveal chromatin status and identify regulatory elements at genome-wide level. Here, we developed a DNase-seq procedure in tomato revised from previous methods in other plants, involving plant nuclei isolation, digestion of purified nuclei with DNase I, collection of DNase-trimmed DNA fragments, validation of DHS sample quality by qPCR, and DNase-seq library preparation. We introduced an AMPure XP beads system for the selection of the desirable DNA fragment. DHS datasets will provide the dynamic profiles of regulatory elements during plant development.
Talk to us
Join us for a 30 min session where you can share your feedback and ask us any queries you have
Disclaimer: All third-party content on this website/platform is and will remain the property of their respective owners and is provided on "as is" basis without any warranties, express or implied. Use of third-party content does not indicate any affiliation, sponsorship with or endorsement by them. Any references to third-party content is to identify the corresponding services and shall be considered fair use under The CopyrightLaw.