低温胁迫下组蛋白H3K18cr在水稻全基因组上的动态变化特征解析  

Dynamic change profile of histone H3K18cr on rice whole genome under cold stress

作　　者：刘凯 陈积金 刘帅 陈旭 赵新茹 孙尚 薛超 龚志云[1,2] LIU Kai;CHEN Ji-Jin;LIU Shuai;CHEN Xu;ZHAO Xin-Ru;SUN Shang;XUE Chao;GONG Zhi-Yun(Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Key Laboratory of Plant Functional Genomics of the Ministry of Education/Jiangsu Key Laboratory of Crop Genetics and Physiology,Agricultural College of Yangzhou University,Yangzhou 225009,Jiangsu,China;Jiangsu Co-innovation Center for Modern Production Technology of Grain Crops,Yangzhou University,Yangzhou 225009,Jiangsu,China)

机构地区：[1]江苏省作物基因组学和分子育种重点实验室/植物功能基因组学教育部重点实验室/江苏省作物遗传生理重点实验室/扬州大学农学院,江苏扬州225009 [2]江苏省粮食作物现代产业技术协同创新中心/扬州大学,江苏扬州225009

出　　处：《作物学报》2023年第9期2398-2411,共14页Acta Agronomica Sinica

基　　金：国家自然科学基金项目(31871232)资助。

摘　　要：组蛋白修饰在水稻响应非生物胁迫的过程中发挥着重要作用。巴豆酰化是一种新型的组蛋白修饰方式,其在水稻受到低温逆境时如何变化目前很少有见报道。本研究对正常生长和低温处理的水稻日品种本晴幼苗进行RNA-seq和ChIP-seq高通量测序,然后联合分析组蛋白H3赖氨酸18特异位点上巴豆酰化修饰(H3K18cr)在低温胁迫下对基因表达的调控特征。研究表明,在基因组中H3K18cr主要富集在第1外显子和基因间区,且与基因表达和基因长度呈现正相关。低温胁迫下,H3K18cr在水稻基因组上的分布区域没有变化,但是蛋白免疫印记和ChIP-seq结果均表明整体修饰水平下降;差异修饰分析发现低温胁迫后有899个和409个基因分别表现出修饰显著增加和减少。通过与RNA-seq关联分析显示共有199个基因H3K18cr修饰水平增高且表达水平上调,GO富集分析发现这些基因主要参与转录活性的调控等过程。进一步验证表明组蛋白H3K18cr通过调控OsDREB1A、OsEATB、OsAP2-39、OsNAC9等转录因子的表达来参与水稻低温胁迫的响应过程。相关研究结果为解析组蛋白巴豆酰化调控植物响应低温胁迫的表观遗传机制提供理论基础。Histone modifications play an important role in response to abiotic stresses in rice.Crotonylation is a novel histone modification,and the changes of crotonylation in rice subjected to low temperature stress are rarely reported.In this study,RNA-seq and ChIP-seq were performed on normal-grown and cold-treated rice seedlings of rice variety‘Nipponbare’,followed by combined analysis of the regulatory characteristics of the crotonylation modification at the histone H3 lysine 18-specific site(H3K18cr)on gene expression under cold stress.The results showed that H3K18cr was mainly enriched in the first exon and intergenic region and had positive correlation with gene expression and gene length.The global distribution of H3K18cr in rice genome did not change under cold stress,but WB and ChIP-seq results indicated that the overall modification level decreased.The differential modification analysis revealed that there were significant increase and decrease of 899 genes and 409 genes in the modification after cold stress,respectively.Association analysis with RNA-seq showed that a total of 199 genes had increased levels of H3K18cr modification and up-regulated expression levels.GO enrichment revealed that these genes were mainly involved in the processes such as the regulation of transcriptional activity.Further analysis indicated that histone H3K18cr was involved in the response process of cold stress by regulating the expression of transcription factors such as OsDREB1A,OsEATB,OsAP2-39,and OsNAC9 in rice.The results provide a theoretical basis for further understanding the epigenetic mechanisms of histone crotonylation in response to cold stress in plants.

关 键 词：水稻 低温胁迫 H3K18cr 基因表达 

分 类 号：S511[农业科学—作物学]