Arabidopsis 2010: Establishing Regulatory Networks in Arabidopsis: Integrating AGRIS with the Identification of Direct Targets for Transcription Factors

拟南芥 2010：建立拟南芥调控网络：将 AGRIS 与转录因子直接靶标的识别相结合

• 批准号: 0418891
• 负责人: Erich Grotewold
• 金额: --
• 依托单位: Ohio State University Research Foundation -DO NOT USE
• 依托单位国家: 美国
• 项目类别: Continuing Grant
• 财政年份: 2004
• 资助国家: 美国
• 起止时间: 2004-09-01 至 2008-08-31
• 项目状态: 已结题
• 来源: https://www.nsf.gov/awardsearch/showAward?AWD_ID=0418891&HistoricalAwards=false
• 关键词: Arabidopsis; 2010; Establishing; Regulatory; Networks

Hierarchical arrangements (networks) of transcription factors (TFs) provide the information necessary to deploy genes with particular spatial and temporal patterns. The information for this is hardwired in the promoter regions formed by cis-regulatory elements that bind specific TFs. Direct target genes for a group of 31 selected TFs involved in regulatory networks associated with flower development and epidermal functions will be identified using chromatin immunoprecipitation followed by analysis of microarrays of promoter sequences (ChIP-CHIP). Identified direct target genes will be validated by in vitro DNA-binding experiments, and the TF binding sites will be determined using in vitro footprinting. The information obtained will be integrated into the established AGRIS databases, resulting in public resources that integrate TFs, their binding sites and the corresponding regulatory motifs. Results derived from this project will be made available at http://arabidopsis.med.ohio-state.edu/NSF2010Project. Materials developed in this research will be made readily available through the ABRC. The combination of experimental data and powerful computational tools will provide the first steps towards establishing the regulatory networks responsible for the expression of all Arabidopsis genes, one of the central objectives of the 2010 project.Broader Impact - Establishing the regulatory networks that control the expression of all plant genes provides a natural follow-up to the elucidation of the Arabidopsis genome and will significantly impact the research in Arabidopsis and other plants. This project integrates experimental biology, bioinformatics, statistics and mathematics, offering unique opportunities for interdisciplinary research training. The development of several databases available through the Web will continue to ensure that findings derived from this work will have the broadest possible dissemination. Tools and resources obtained from these studies will be applied for educational purposes in courses at California State University, San Marcos and Ohio State University.

转录因子（TF）的分层排列（网络）提供了以特定的空间和时间模式部署基因所需的信息。这一信息是硬连线的启动子区形成的顺式调控元件，结合特定的TF。直接靶基因的一组31个选定的TF参与调控网络与花的发育和表皮功能将确定使用染色质免疫沉淀，然后通过分析微阵列的启动子序列（ChIP-CHIP）。 将通过体外DNA结合实验验证鉴定的直接靶基因，并使用体外足迹法确定TF结合位点。 所获得的信息将被整合到已建立的AGRIS数据库中，从而形成整合TF、其结合位点和相应调控基序的公共资源。该项目的结果将在http://arabidopsis.med.ohio-state.edu/NSF2010Project上公布。本研究中开发的材料将通过ABRC随时提供。实验数据和强大的计算工具的结合将为建立负责所有拟南芥基因表达的调控网络迈出第一步，更广泛的影响-建立控制所有植物基因表达的调控网络，提供了一个自然的遵循-直至拟南芥基因组的阐明，并将对拟南芥和其他植物的研究产生重大影响。 该项目整合了实验生物学，生物信息学，统计学和数学，为跨学科研究培训提供了独特的机会。 将继续通过网络开发若干数据库，以确保尽可能广泛地传播这项工作的结果。从这些研究中获得的工具和资源将应用于加州州立大学、圣马科斯和俄亥俄州州立大学的课程中的教育目的。