| Accession | PRJCA014302 | ||||||||||
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| Title | Micro-C-XL mapping of chromatin structure in plants | ||||||||||
| Relevance | Model organism | ||||||||||
| Data types | Epigenomics | ||||||||||
| Organisms |
Arabidopsis thaliana
Oryza sativa Oryza sativa Japonica Group Glycine max |
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| Description | Here, we use Micro-C-XL, a Hi-C-based technology that breaks down single nucleosome resolution chromatin organization and ties to transcriptional control in Arabidopsis and other plant species. Micro-C-XL uses micrococcal nuclease instead of restriction enzyme coupled with longer crosslinkers. The strong relationship between RNA polymerases, particularly Pol II, and local chromatin arrangements revealed by Micro-C-XL suggests that gene transcriptions may play a significant role in the formation of the local chromatin domain. The genomes are divided into separate blocks by compartmental domains populated by H3K27me3 or H3K9me2/H3K27me1. More than 14,000 borders were found by insulating analysis, most of which are characterized by RNA polymerases, epigenetic factors, and transcription factors. Unexpectedly, super-enhancer (intergenic clusters of open chromatins) have been linked to observable stripes and loops, offering fresh information for the identification and analysis of distal cis-regulatory elements in plants. The Micro-C-XL was then extended to include crops like rice and soybeans, demonstrating its broad applicability to different plant species. In conclusion, we applied Micro-C-XL to plants, illustrating fine-scale chromatin organization and advancing our knowledge of the 3D genome of plants. | ||||||||||
| Sample scope | Multispecies | ||||||||||
| Release date | 2023-11-27 | ||||||||||
| Publication |
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| Grants |
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| Submitter | Linhua Sun (Linhua_Sun@pku.edu.cn) | ||||||||||
| Organization | Peking University | ||||||||||
| Submission date | 2023-01-09 |