Using auxin to understand context-dependent hormone response

使用生长素了解背景依赖性激素反应

基本信息

批准号：
10605909
负责人：
JOSEPH CAMMARATA
金额：
$ 1.23万
依托单位：
DUKE UNIVERSITY
依托单位国家：
美国
项目类别：
财政年份：
2023
资助国家：
美国
起止时间：
2023-02-01 至 2023-03-09
项目状态：
已结题

来源：
https://reporter.nih.gov/project-details/10605909
关键词：
ATAC-seq Affect Algorithms Arabidopsis Automobile Driving Auxins Bayesian Analysis Binding Binding Sites Biological Assay Biology Categories Cells Chromatin Complex DNA DNA Binding Darkness Data Dependence Development Disease Early identification Engineering Environment Environmental Risk Factor Event Faculty Future Gene Expression Regulation Genes Genetic Genetic Transcription Germination Goals Growth Hormones Hypocotyl Label Laboratories Life Light Malignant Neoplasms Mediator Modeling Mouse-ear Cress Mutagens Outcome Output Pathway Analysis Pathway interactions Pattern Plant Growth Regulators Plants Research Resistance Seedling Signal Pathway Signal Transduction Stimulus System Systems Biology Testing Time Tissue-Specific Gene Expression Tissues Training Transcription Coactivator Variant Work career causal variant cell fate specification cell type cofactor falls fascinate gene regulatory network genetic corepressor genetic resource mutant novel nuclease plant growth/development programs protein complex response reverse genetics tenure track transcription factor transcriptome sequencing

项目摘要

Title: Using auxin to understand context-dependent hormone response Project Summary Cells constantly integrate a suite of intrinsic and extrinsic information to coordinate their activities. The suite of stimuli perceived by a cell – the context – can drastically alter the response to a subsequent stimulus. The plant hormone auxin provides a fascinating example of this context-dependent response: auxin regulates diverse phenomena from cell expansion to cell fate specification during all aspects of a plant's life. How the same hormone can elicit such diverse responses depending on the context is unknown. Here I propose work to discover genetic factors required for context-depending auxin response. Seedlings of Arabidopsis thaliana respond oppositely to exogenous auxin when grown in the light versus when grown in darkness. I hypothesize that auxin triggers distinct genetic pathways in light and darkness. Using Arabidopsis as a model, I will test this hypothesis first by performing a mutant screen that will isolate novel factors required for context-dependent and context-independent auxin signaling. I will subsequently assay how the DNA-binding landscape of AUXIN RESPONSE FACTOR (ARF) transcriptional effectors compares in light and dark-grown hypocotyls. If ARF binding varies substantially due to context, I will test whether differences in chromatin accessibility underlies this variation. If ARF DNA-binding is similar across contexts, then other factors in complex with the ARFs are likely responsible for modulating auxin response; these will be investigated using TURBO-ID to identify ARF protein complex components. Finally, I will perform time course RNA-seq followed by Gene Regulatory Network (GRN) analysis to assess how the transcriptional response to auxin changes in the light versus in the darkness. Altogether the mutant screen, ARF DNA-binding profiles, and GRNs will elucidate how context affects the response to a stimulus and identify important factors in context-dependent signaling that can be investigated in the future.

标题：使用生长素了解背景依赖性激素反应项目概要细胞不断整合一系列内在和外在信息来协调它们的细胞感知到的一系列刺激——环境——可以极大地改变细胞的活动。植物激素生长素提供了一个有趣的例子。这种依赖于环境的反应：生长素调节从细胞扩张到植物生命各个方面的细胞命运规范如何相同的激素可以引发这种情况。在此我建议开展工作以发现问题。拟南芥幼苗环境依赖性生长素反应所需的遗传因素。拟南芥在光下生长时对外源生长素的反应与在光下生长时相反我发现生长素在光明和黑暗中会触发不同的遗传途径。使用拟南芥作为模型，我将首先通过进行突变筛选来测试这个假设将分离背景依赖性和背景独立的生长素所需的新因子随后我将分析生长素反应的 DNA 结合情况。 FACTOR (ARF) 转录效应子在光照和黑暗生长的下胚轴中进行比较。结合因环境而有很大差异，我将测试染色质是否存在差异如果 ARF DNA 结合在不同环境下是相似的，那么其他情况也是如此。与 ARF 复合的因子可能负责调节生长素反应；使用 TURBO-ID 进行研究以鉴定 ARF 蛋白复合物成分。执行时间过程 RNA-seq，然后进行基因调控网络 (GRN) 分析以评估生长素的转录反应在光照和黑暗中如何变化。突变筛选、ARF DNA 结合谱和 GRN 将阐明环境如何影响对刺激的反应并识别上下文相关信号传导中的重要因素未来会进行调查。