Coordinated regulation of developmental transition by protein and long noncoding RNA components

蛋白质和长链非编码RNA成分对发育转变的协调调节 项目摘要 表观遗传机制使生物能够适应发育和环境线索。植物有 进化出复杂的调节网络，以控制对环境刺激的反应， 温度和光照。例如，长时间的寒冷会触发春化作用， 开花是通过参与发育的基因的表观遗传变化实现的。因此， 拟南芥中的反应是研究基因复杂表观遗传调控的一个很好的模式系统 在真核生物中由环境线索触发的表达。春化作用介导的表观遗传变化 包括染色质环的形成和染色质修饰的改变，以及长 非编码RNA（lncRNA）。基因组三维结构的变化，如 局部染色质环，越来越多地被认为是真核生物中重要的基因调控事件; 然而，染色质修饰和lncRNA如何协调，通过影响基因表达， 基因组三维结构的变化还没有得到很好的理解。在这里，我们寻求 了解基因组的三维结构如何影响基因的机制细节 利用开花和光形态建成中的发育变化作为表型读数， 出局我们的首要目标是阐明控制蛋白质的结构和调节成分， lncRNA介导的拟南芥表观遗传基因调控通过三个特定的目的设计：1） 阐明染色质结构介导的基因调控的详细机制，重点放在两组 染色质结构蛋白，我们显示协调基因调控通过形成 染色质环，2）表征光信号介导的染色质构象的潜在机制 变化，以及3）表征由环境刺激诱导的染色质结构的全基因组变化。 我们的方法将揭示基于染色质结构的表观遗传调控的机制细节， 蛋白质和lncRNA组分在开花和光形态建成。这些发现将进一步推动我们 了解基因表达的表观遗传调控机制，这对进化有着深刻的影响。 在真核生物中生根。

Coordinated regulation of developmental transition by protein and long noncoding RNA components Project Summary Epigenetic mechanisms enable organisms to adapt to developmental and environmental cues. Plants have evolved intricate regulatory networks to control development in response environmental stimuli such as temperature and light. For example, prolonged cold triggers vernalization, a process that accelerates flowering through epigenetic changes in genes involved in development. Therefore, the vernalization response in Arabidopsis is an excellent model system for study of complex epigenetic regulation of gene expression triggered by environmental cues in eukaryotes. Vernalization-mediated epigenetic changes include the formation of chromatin loops and alterations in chromatin modifications and in expression of long noncoding RNAs (lncRNAs). Changes in the three-dimensional structure of the genome, such as formation of local chromatin loops, are increasingly recognized as important gene regulatory events in eukaryotes; however, how chromatin modifications and lncRNAs coordinate to influence gene expression through changes in the three-dimensional structure of the genome is not well understood. Here we seek to understand the mechanistic details of how the three-dimensional structure of the genome influences gene regulation in vivo using developmental changes in flowering and photomorphogenesis as phenotypical read- outs. Our overriding goal is to elucidate structural and regulatory components governing protein- and lncRNA-mediated epigenetic gene regulation in Arabidopsis through three specific aims designed to: 1) elucidate the detailed mechanisms of chromatin structure-mediated gene regulation focusing on two groups of chromatin architectural proteins that we showed coordinate gene regulation through the formation of chromatin loops, 2) characterize mechanisms underlying light signaling-mediated chromatin conformation changes, and 3) characterize genome-wide changes in chromatin structure induced by environmental stimuli. Our approach will reveal the mechanistic details of chromatin structure-based epigenetic regulation by both protein and lncRNA components during flowering and photomorphogenesis. These findings will further our understanding of the mechanism of epigenetic regulation of gene expression, which has a deep evolutionary root among eukaryotes.