Conserved H3K27me3-associated chromatin looping mediates physical interactions of gene clusters in plants  

作　　者：Linhua Sun Yuxin Cao Zhu Li Yi Liu Xiaochang Yin Xing Wang Deng Hang He Weiqiang Qian 

机构地区：[1]National Key Laboratory of Wheat Improvement,Peking University Institute of Advanced Agricultural Sciences,Shandong Laboratory of Advanced Agricultural Sciences in Weifang,Weifang 261325,China [2]School of Advanced Agriculture Sciences,Peking University,Beijing 100871,China [3]School of Plant Science and Food Security,Tel Aviv University,Tel Aviv 6997801,Israel

出　　处：《Journal of Integrative Plant Biology》2023年第8期1966-1982,共17页植物学报（英文版）

基　　金：supported by the National Natural Science Foundation of China(31970614 and 32270288 to W.Q.);Director’s Award of Peking University Institute of Advanced Agricultural Sciences,Shandong Development Fund of Science&Technology;Award of Natural Science Foundation of Shandong Province(ZR2021ZD30)。

摘　　要：Higher-order chromatin organization is essential for transcriptional regulation,genome stability maintenance,and other genome functions.Increasing evidence has revealed significant differences in 3D chromatin organization between plants and animals.However,the extent,pattern,and rules of chromatin organization in plants are still unclear.In this study,we systematically identified and characterized long-range chromatin loops in the Arabidopsis 3D genome.We identified hundreds of long-range cis chromatin loops and found their anchor regions are closely associated with H3K27me3 epigenetic modifications.Furthermore,we demonstrated that these chromatin loops are dependent on Polycomb group(PcG)proteins,suggesting that the Polycomb repressive complex2(PRC2)complex is essential for establishing and maintaining these novel loops.Although most of these PcG-medicated chromatin loops are stable,many of these loops are tissue-specific or dynamically regulated by different treatments.Interestingly,tandemly arrayed gene clusters and metabolic gene clusters are enriched in anchor regions.Long-range H3K27me3-marked chromatin interactions are associated with the coregulation of specific gene clusters.Finally,we also identified H3K27me3-associated chromatin loops associated with gene clusters in Oryza sativa and Glycine max,indicating that these long-range chromatin loops are conserved in plants.Our results provide novel insights into genome evolution and transcriptional coregulation in plants.

关 键 词：ARABIDOPSIS gene clusters Hi-C long-range chromatin loops H3K27me3 

分 类 号：Q943[生物学—植物学]