The genome-wide transcriptional regulatory landscape of ecdysone in the silkworm.
The genome-wide transcriptional regulatory landscape of ecdysone in the silkworm.
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家蚕蜕皮激素的全基因组转录调控景观
DOI：
10.1186/s13072-018-0216-y
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发表时间：
2018-08-27
影响因子：
3.9
通讯作者：
Xia Q
中科院分区：
文献类型：
--
作者：
Cheng D;Cheng T;Yang X;Zhang Q;Fu J;Feng T;Gong J;Xia Q
家蚕是一种典型的变态昆虫，具有重要的农业和经济价值。类固醇激素蜕皮激素(20-羟基蜕皮酮，20E)是昆虫发育过程的中枢调节因子，其核受体在生殖、新陈代谢和免疫等多种生物学过程中起着至关重要的作用。然而，基因组DNA调控元件和控制这些基因表达程序的蜕皮激素受体(ECR)还没有得到很好的定义。结果本研究采用染色质免疫沉淀测序技术(ChIP-SEQ)研究了20E处理家蚕胚胎细胞后3种组蛋白修饰的变化。我们使用组蛋白修饰确定了增强子，并在家蚕中获得了全基因组的蜕皮激素依赖的增强子活性图谱。我们发现了富含组蛋白H3-Lys4(H3K4me1)单甲基化的增强子，在20E处理后，组蛋白H3-Lys27(H3K27ac)的乙酰化发生了动态变化，并且具有调节特定基因转录的功能。ECR不仅通过与目标基因的近端启动子结合，还通过与目标基因的远端增强子结合来调控转录。此外，只有52.65%的ECR峰含有蜕皮激素反应元件(ECRE)基序，这表明ECR不仅通过直接与ECRE结合来调控靶基因的表达，还通过与其他转录因子的结合来调控靶基因的表达。结论我们的发现为了解激素反应细胞活动的复杂调控格局提供了新的见解，并为理解蜕皮激素复杂的转录调控过程提供了基础。
BackgroundThe silkworm,Bombyx mori, a typical representative of metamorphic insects, is of great agricultural and economic importance. The steroid hormone ecdysone (20-hydroxyecdysone, 20E) is the central regulator of insect developmental transitions, and its nuclear receptors are crucial for numerous biological processes, including reproduction, metabolism, and immunity. However, genome-wide DNA regulatory elements and the ecdysone receptor (EcR) that control these programs of gene expression are not well defined.ResultsIn this study, we investigated the alterations in three types of histone modification in silkworm embryonic cells treated with 20E by chromatin immunoprecipitation sequencing (ChIP-seq). We identified enhancers using histone modifications and derived genome-wide ecdysone-dependent enhancer activity maps in the silkworm. We found enhancers enriched for monomethylation of histone H3 Lys4 (H3K4me1) that showed dynamic changes in acetylation of histone H3 Lys27 (H3K27ac) after 20E treatment and functioned to regulate the transcription of specific genes. EcR regulated transcription by binding not only to proximal promoters but also to the distal enhancers of target genes. Moreover, only 52.65% EcR peaks contained ecdysone response element (EcRE) motif, suggesting that EcR regulates the expression of target genes not only by binding directly to EcRE, but also by binding with other transcription factor.ConclusionsOur findings provide novel insights into the complex regulatory landscape of hormone-responsive cell activity and a basis for understanding the complex transcriptional regulatory processes of ecdysone.
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影响因子：
16
作者：
Calo, Eliezer;Wysocka, Joanna
通讯作者：
Wysocka, Joanna
影响因子：
64.8
作者：
Heintzman, Nathaniel D.;Hon, Gary C.;Hawkins, R. David;Kheradpour, Pouya;Stark, Alexander;Harp, Lindsey F.;Ye, Zhen;Lee, Leonard K.;Stuart, Rhona K.;Ching, Christina W.;Ching, Keith A.;Antosiewicz-Bourget, Jessica E.;Liu, Hui;Zhang, Xinmin;Green, Roland D.;Lobanenkov, Victor V.;Stewart, Ron;Thomson, James A.;Crawford, Gregory E.;Kellis, Manolis;Ren, Bing
通讯作者：
Ren, Bing
增强子和启动子相互作用长距离。
影响因子：
4
作者：
Krivega, Ivan;Dean, Ann
通讯作者：
Dean, Ann
原始昆虫中的昼夜节律需要核受体基因HR3和E75。
影响因子：
3.7
作者：
Kamae Y;Uryu O;Miki T;Tomioka K
通讯作者：
Tomioka K
DOI：
10.1038/nrm3949
发表时间：
2015-03
期刊：
Nature reviews. Molecular cell biology
影响因子：
--
作者：
Heinz S;Romanoski CE;Benner C;Glass CK
通讯作者：
Glass CK