Identification of Regulatory DNA Elements Using Genome-wide Mapping of DNase I Hypersensitive Sites during Tomato Fruit Development
Identification of Regulatory DNA Elements Using Genome-wide Mapping of DNase I Hypersensitive Sites during Tomato Fruit Development
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利用番茄果实发育过程中 DNase I 超敏感位点的全基因组图谱鉴定调控 DNA 元件
DOI：
10.1016/j.molp.2016.05.013
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发表时间：
2016-08-01
期刊：
影响因子：
27.5
通讯作者：
Cui, Xia
中科院分区：
文献类型：
--
作者：
Qiu, Zhengkun;Li, Ren;Cui, Xia
番茄果实的发育和成熟受转录调控的精确控制，这取决于调控蛋白对启动子和其他顺式调控DNA元件的协调可及性。这种可及性及其对基因表达的影响在定义发育过程中起着重要作用。为了了解调节果实发育过程中形态和解剖学变化的调控机制和功能元件，我们从番茄品种“Moneymaker”的果实组织中产生了全基因组高分辨率的DNase I超敏感位点（DHS）图谱。通过探索不同果实发育阶段的DHSs的变化，我们确定了最可能与发育特异性基因相关的过敏位点。通过检测这些发育特异性基因或抗坏血酸生物合成途径基因的DHS上的结合基序，我们揭示了有助于协调植物成熟和专门代谢途径的基因转录的共同调控元件。我们的研究结果有助于更好地了解参与番茄果实发育和成熟的基因的调控动态。
Development and ripening of tomato fruit are precisely controlled by transcriptional regulation, which depends on the orchestrated accessibility of regulatory proteins to promoters and other cis-regulatory DNA elements. This accessibility and its effect on gene expression play a major role in defining the developmental process. To understand the regulatory mechanism and functional elements modulating morphological and anatomical changes during fruit development, we generated genome-wide high-resolution maps of DNase I hypersensitive sites (DHSs) from the fruit tissues of the tomato cultivar "Moneymaker'' at 20 days post anthesis as well as break stage. By exploring variation of DHSs across fruit development stages, we pinpointed the most likely hypersensitive sites related to development-specific genes. By detecting binding motifs on DHSs of these development-specific genes or genes in the ascorbic acid biosynthetic pathway, we revealed the common regulatory elements contributing to coordinating gene transcription of plant ripening and specialized metabolic pathways. Our results contribute to a better understanding of the regulatory dynamics of genes involved in tomato fruit development and ripening.