Chromatin loops associated with active genes and heterochromatin shape rice genome architecture for transcriptional regulation.

ABSTRACT: Insight into high-resolution three-dimensional genome organization and its effect on transcription remains largely elusive in plants. Here, using a long-read ChIA-PET approach, we map H3K4me3- and RNA polymerase II (RNAPII)-associated promoter-promoter interactions and H3K9me2-marked heterochromatin interactions at nucleotide/gene resolution in rice. The chromatin architecture is separated into different independent spatial interacting modules with distinct transcriptional potential and covers approximately 82% of the genome. Compared to inactive modules, active modules possess the majority of active loop genes with higher density and contribute to most of the transcriptional activity in rice. In addition, promoter-promoter interacting genes tend to be transcribed cooperatively. In contras

SUBMITTER: Zhao L 

PROVIDER: S-EPMC6692402 | biostudies-literature | 2019 Aug

REPOSITORIES: biostudies-literature