Cellular and biochemical context of Arabidopsis circadian-clock components

拟南芥生物钟成分的细胞和生化背景

• 批准号: BB/N018540/1
• 负责人: Seth Davis
• 金额: $ 74.24万
• 依托单位: University of York
• 依托单位国家: 英国
• 项目类别: Research Grant
• 财政年份: 2016
• 资助国家: 英国
• 起止时间: 2016 至 无数据
• 项目状态: 已结题
• 来源: https://gtr.ukri.org/projects?ref=BB%2FN018540%2F1
• 关键词: Cellular; biochemical; context; Arabidopsis; circadian

The Arabidopsis circadian clock drives transcriptional rhythms of about 10,000 transcripts and this coordinates most aspects of plant growth and development. EARLY FLOWERING 3 is the key hub for diurnal signalling and it is required for the clock to work. We recently showed that ELF3 acts as a physical integrator for the ELF4 ligand and the LUX DNA-binding protein, together termed the Evening Complex (EC), and that this is required for the oscillator to cycle and to mediate repression of transcriptional targets. The EC was thus hypothesized to be a global transcriptional co-repressor. As the ELF3 gene encodes a protein of unknown biochemical and cellular activity, it has remained enigmatic as to how it performs its key role in clock maintenance. What we have shown is that light signalling can repress ELF3 function, and this has a crucial role in determining oscillator speed in response to the brightness of light. ELF3 binds the phytochrome B photoreceptor and we showed that this acts as an inactivation event. The mechanistic bases by which light signals through phyB inactivate ELF3 repression to accelerate circadian timing are the goals of this work. Integrated technical and thematic approaches would be used to tackle these questions.We propose a set of experiments to unravel the clock-resetting mechanism through ELF3 in response to ambient light in order to understand its mode of action. Using a combination of biochemical, cellular and systems biology experiments, we will examine the spatial-temporal function of ELF3 with a comparison to that of other components it requires for function. We will examine the localisation context of where ELF4 activates ELF3 and how phytochrome represses this. New genetic tests of existing models will be performed to probe the existing explicit hypotheses that exist within the mathematical equations that generate the current circadian-systems models. As genetic tests of EC components revealed a non-redundant action in their regulation of targets and growth and development, we will monitor the global, genome-wide binding of these chromatin-associated factors to define their non-overlapping targets to unravel the basis for their capacity to cooperatively versus differentially regulate transcriptional target genes. Taken together we envisage that the efforts of this proposal will provide the mechanistic basis of a long-standing problem in the clock community where light perception leads to acceleration of periodicity. This is a clock-resetting mechanism and its understanding will help us tailor crops for new latitudes and altitudes of growth.

拟南芥生物钟驱动大约10，000个转录物的转录节奏，这协调了植物生长和发育的大部分方面。早花3号是昼夜信号的关键枢纽，也是时钟工作的必要条件。我们最近发现，ELF3作为ELF4配体和LUX DNA结合蛋白的物理整合剂，一起称为晚间复合物（EC），这是振荡器循环和介导转录靶点抑制所必需的。因此，假设EC是一个全局转录共阻遏物。由于ELF3基因编码一种具有未知生物化学和细胞活性的蛋白质，因此它如何在生物钟维持中发挥关键作用仍然是个谜。我们已经证明，光信号可以抑制ELF 3功能，这在决定振荡器响应光亮度的速度方面起着至关重要的作用。ELF 3结合光敏色素B感光体，我们发现这是一个失活事件。光信号通过phyB β ELF3抑制来加速昼夜节律计时的机制基础是这项工作的目标。我们将采用综合技术和主题的方法来解决这些问题。我们提出了一系列实验，以揭示ELF 3对环境光的响应的时钟重置机制，以了解其作用模式。使用生物化学，细胞和系统生物学实验的组合，我们将检查ELF3的时空功能与它所需的功能的其他组件的比较。我们将研究ELF4激活ELF3的本地化背景以及光敏色素如何抑制ELF3。将对现有模型进行新的基因测试，以探索生成当前昼夜节律系统模型的数学方程中存在的现有明确假设。由于EC组件的遗传测试揭示了其调节靶点和生长发育的非冗余作用，我们将监测这些染色质相关因子的全球全基因组结合，以定义其非重叠靶点，从而揭示其合作与差异调节转录靶基因的能力的基础。综上所述，我们设想，这项建议的努力将提供一个长期存在的问题，在时钟社区的光感知导致周期性加速的机械基础。这是一种时钟重置机制，对它的理解将帮助我们调整作物，使其适应新的纬度和高度。

项目成果

CLUSTERING NONSTATIONARY CIRCADIAN RHYTHMS USING LOCALLY STATIONARY WAVELET REPRESENTATIONS

• DOI: 10.1137/16m1108078
• 发表时间: 2018-01-01
• 期刊: MULTISCALE MODELING & SIMULATION
• 影响因子: 1.6
• 作者: Hargreaves, Jessica K.;Knight, Marina I.;Davis, Seth J.
• 通讯作者: Davis, Seth J.

WAVELET SPECTRAL TESTING: APPLICATION TO NONSTATIONARY CIRCADIAN RHYTHMS

• DOI: 10.1214/19-aoas1246
• 发表时间: 2019-09-01
• 期刊: ANNALS OF APPLIED STATISTICS
• 影响因子: 1.8
• 作者: Hargreaves, Jessica K.;Knight, Marina, I;Davis, Seth J.
• 通讯作者: Davis, Seth J.

A mobile ELF4 delivers circadian temperature information from shoots to roots

• DOI: 10.1101/612671
• 发表时间: 2019-04
• 期刊: bioRxiv
• 作者: Wei Wei Chen-Wei;Nozomu Takahashi;Yoshito Hirata;Dmitri A. Nusinow;Steve A. Kay;Paloma Mas

Multiple metals influence distinct properties of the Arabidopsis circadian clock.

• DOI: 10.1371/journal.pone.0258374
• 发表时间: 2022
• 期刊: PloS one
• 影响因子: 3.7
• 作者: Hargreaves JK;Oakenfull RJ;Davis AM;Pullen F;Knight MI;Pitchford JW;Davis SJ
• 通讯作者: Davis SJ

Photoperiod sensing of the circadian clock is controlled by EARLY FLOWERING 3 and GIGANTEA

生物钟的光周期感应由 EARLY FLOWERING 3 和 GIGANTEA 控制

• DOI: 10.1101/321794
• 发表时间: 2018
• 作者: Anwer M