Genome-wide Profiling of Histone Lysine Butyrylation Reveals its Role in the Positive Regulation of Gene Transcription in Rice
Genome-wide Profiling of Histone Lysine Butyrylation Reveals its Role in the Positive Regulation of Gene Transcription in Rice
复制标题
组蛋白赖氨酸丁酰化的全基因组分析揭示了其在水稻基因转录正调控中的作用
DOI：
10.1186/s12284-019-0342-6
复制
发表时间：
2019-11-27
期刊：
影响因子：
5.5
通讯作者：
Gong, Zhiyun
中科院分区：
文献类型：
--
作者：
Liu, Shuai;Liu, Guanqing;Gong, Zhiyun
背景
组蛋白修饰在水稻（Oryza sativa L.）的生长发育中起着重要作用。具有四碳链的赖氨酸丁酰化（Kbu）是在水稻中 newly-discovered（新发现的）一种组蛋白酰化修饰。
主体
在本研究中，我们进行了染色质免疫沉淀测序（ChIP - seq）分析，结果表明组蛋白Kbu主要富集在水稻基因组的基因体区域，尤其是外显子中。Kbu组蛋白修饰的富集水平与基因表达呈正相关。此外，我们将Kbu与水稻中的DNase - seq及其他组蛋白修饰进行了比较。我们发现60.06%的Kbu富集区域与基因间区域的DNase I超敏感位点（DHSs）共定位。在Kbu与几种乙酰化修饰（如H3K4ac、H3K9ac和H3K23ac）之间检测到相似的分布模式，这表明Kbu修饰是一种转录激活信号。同时具有组蛋白Kbu和另一种乙酰化修饰的基因与仅有一种乙酰化修饰的基因相比，其表达也显著增加。基因本体论（GO）富集分析表明，这些具有组蛋白Kbu的基因能够调节不同水稻品种中的多种代谢过程。
结论
我们的研究表明，赖氨酸丁酰化修饰可能像组蛋白乙酰化一样促进基因表达，并将为进一步研究植物中的组蛋白Kbu及其他表观遗传修饰提供资源。
BackgroundHistone modifications play important roles in growth and development of rice (Oryza sativaL.). Lysine butyrylation (Kbu) with a four-carbon chain is a newly-discovered histone acylation modification in rice.Main BodyIn this study, we performed chromatin immunoprecipitation sequencing (ChIP-seq) analyses, the result showed that major enrichment of histone Kbu located in genebody regions of rice genome, especially in exons. The enrichment level of Kbu histone modification is positively correlated with gene expression. Furthermore, we compared Kbu with DNase-seq and other histone modifications in rice. We found that 60.06% Kub enriched region co-located with DHSs in intergenic regions. The similar profiles were detected among Kbu and several acetylation modifications such as H3K4ac, H3K9ac, and H3K23ac, indicating that Kbu modification is an active signal of transcription. Genes with both histone Kbu and one other acetylation also had significantly increased expression compared with genes with only one acetylation. Gene Ontology (GO) enrichment analysis revealed that these genes with histone Kbu can regulate multiple metabolic process in different rice varieties.ConclusionOur study showed that the lysine butyrylation modificaiton may promote gene expression as histone acetylation and will provide resources for futher studies on histone Kbu and other epigenetic modifications in plants.