Open Chromatin in Plant Genomes | Zendy

Wenli Zhang | Zendy; Tao Zhang | Zendy; Yufeng Wu | Zendy; Jiming Jiang | Zendy

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Open Chromatin in Plant Genomes

Author(s) -

Wenli Zhang,

Tao Zhang,

Yufeng Wu,

Jiming Jiang

Publication year - 2014

Publication title -

cytogenetic and genome research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 0.571

H-Index - 88

ISSN - 1424-8581

DOI - 10.1159/000362827

Subject(s) - biology , chromatin , genome , computational biology , hypersensitive site , dnase i hypersensitive site , chia pet , genomics , genetics , dna sequencing , enhancer , deoxyribonuclease i , dna , chromatin remodeling , gene , base sequence , transcription factor

Sensitivity to DNase I digestion is an indicator of the accessibility and configuration of chromatin in eukaryotic genomes. Open chromatin exhibits high sensitivity to DNase I cleavage. DNase I hypersensitive sites (DHSs) in eukaryotic genomes can be identified through DNase I treatment followed by sequencing (DNase-seq). DHSs are most frequently associated with various cis-regulatory DNA elements, including promoters, enhancers, and silencers in both animal and plant genomes. Genome-wide identification of DHSs provides an efficient method to interpret previously un-annotated regulatory DNA sequences. In this review, we provide an overview of the historical perspective of DHS research in eukaryotes. We summarize the main achievements of DHS research in model animal species and review the recent progress of DHS research in plants. We finally discuss possible future directions of using DHS as a tool in plant genomics research.

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