Improved DNase-seq protocol facilitates high resolution mapping of DNase I hypersensitive sites in roots in Arabidopsis thaliana

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• 作者：Jason S. Cumbie ; Sergei A. Filichkin ; Molly Megraw
• 关键词：DNase ; seq ; DNase I hypersensitive sites ; Open chromatin ; Arabidopsis ; Roots ; Nuclei
• 刊名：Plant Methods
• 出版年：2015
• 出版时间：December 2015
• 年：2015
• 卷：11
• 期：1
• 全文大小：2,072 KB
• 刊物主题：Plant Sciences; Biological Techniques;
• 出版者：BioMed Central
• ISSN：1746-4811

文摘

Background Identifying cis-regulatory elements is critical in understanding the direct and indirect regulatory mechanisms of gene expression. Current approaches include DNase-seq, a technique that combines sensitivity to the nonspecific endonuclease DNase I with high throughput sequencing to identify regions of regulatory DNA on a genome-wide scale. While this method was originally developed for human cell lines, later adaptations made the processing of plant tissues possible. Challenges still remain in processing recalcitrant tissues that have low DNA content.