Global analysis of transcriptional regulatory networks in retrograde signaling

逆行信号导致核基因表达的变化。细胞核中的多个信号通路和多个水平的转录调控有助于逆行信号的复杂性。基于研究团队获得的实验转录组学数据，该项目旨在（i）鉴定质体信号相关的表达谱;（ii）鉴定质体到核信号的不同途径的直接核靶基因及其次级转录效应，并将这些基因细分为不同的功能转录模块（转录网络）;（iii）表征不同类型的逆行信号之间的重叠，层次结构和接口;和（iv）重建逆行事件和识别复杂表达谱中的逆行信号签名。这包括转录谱的生物信息学分析沿着共享和差异启动子的计算机模拟分析。这将使直接和更间接的影响质体信号之间的区别。从逆行控制下的共调节基因（调节子）组及其相应的正向启动子组开始，（v）将鉴定保守的启动子元件，以使研究小组框架内的合作伙伴能够分离转录因子。从长远来看，我们的目标是详细了解与逆行信号相关的子网络和元网络的组成，结构和界面。

Retrograde signaling results in changes in the expression of nuclear genes. Multiple signaling pathways and multiple levels of transcriptional regulation in the nucleus contribute to the complexity of retrograde signaling. Based on experimental transcriptomic data generated in the research team the project aims to (i) identify plastid signaling relevant expression profiles; (ii) identify the direct nuclear target genes of the different pathways of plastid-to-nucleus signaling and their secondary transcriptional effects and to subdivide these genes into distinct functional transcriptional modules (transcriptional networks); (iii) characterize the overlaps, hierarchies and interfaces between the different types of retrograde signaling; and (iv) reconstruct retrograde events and identify retrograde signaling signatures in complex expression profiles. This includes bioinformatic analyses of transcription profiles along with in silico analysis of shared and differential promoters. This will enable to discriminate between direct and more indirect effects in plastid signaling. Starting from groups of co-regulated genes (regulons) under retrograde control and their corresponding orthologous promoter groups, (v) conserved promoter elements will be identified to enable the isolation of transcription factors by the partners in the framework of the research team. In the long-term, we aim at getting detailed molecular insight into composition, architecture and interfaces of sub- and meta-networks that are associated with retrograde signaling.