Conserved noncoding sequences correlate with distant gene contacts in Arabidopsis and Brassica  

作　　者：Lei Zhang Jian Wu Jianli Liang Runmao Lin Chao Sun Qirui Dai Lupeng Zhang Huiling Guo Ranze Zhao Xiaowu Wang 

机构地区：[1]State Key Laboratory of Vegetable Biobreeding,Institute of Vegetables and Flowers,Chinese Academy of Agricultural Sciences,Beijing 100081,China [2]Research Institute of Forestry,Chinese Academy of Forestry,Beijing 100091,China

出　　处：《Journal of Integrative Plant Biology》2023年第6期1467-1478,共12页植物学报（英文版）

基　　金：supported by the National Key Research and Development Program of China(2022YFF1003003);the Agricultural Science and Technology Innovation Program(ASTIP);the Central Public-interest Scientific Institution Basal Research Fund(Y2022PT23);the China Postdoctoral Science Foundation(2019M650918)。

摘　　要：Physical contact between genes distant on chromosomes is a potentially important way for genes to coordinate their expressions.To investigate the potential importance of distant contacts,we performed high-throughput chromatin conformation capture(Hi-C)experiments on leaf nuclei isolated from Brassica rapa and Brassica oleracea.We then combined our results with published Hi-C data from Arabidopsis thaliana.We found that distant genes come into physical contact and do so preferentially between the proximal promoter of one gene and the downstream region of another gene.Genes with higher numbers of conserved noncoding sequences(CNSs)nearby were more likely to have contact with distant genes.With more CNSs came higher numbers of transcription factor binding sites and more histone modifications associated with the activity.In addition,for the genes we studied,distant contacting genes with CNSs were more likely to be transcriptionally coordinated.These observations suggest that CNSs may enrich active histone modifications and recruit transcription factors,correlating with distant contacts to ensure coordinated expression.This study advances our knowledge of gene contacts and provides insights into the relationship between CNSs and distant gene contacts in plants.

关 键 词：ARABIDOPSIS BRASSICA conserved noncoding sequences distant gene contacts Hi-C 

分 类 号：Q943[生物学—植物学]