A spatiotemporal understanding of growth regulation during the salt-stress response (Agilent)

A genome-scale test of dynamic gene expression changes and homeostasis in salt stress response was genereated using whole roots sample of wild type columbia. Seedlings of columbia were grown under standard conditions for 5 days, and then they were transfered to media supplemented with 140mM NaCl for a series of time: 1 hour, 3 hours, 20 hours, 2 days, 4 days and and 8 days, as well as to standard condition for the same series of time. 2 replicates for each condition was used. Plant environmental responses involve dynamic changes in growth and signaling, yet little is understood as to how progress through these temporal events is controlled. In this study we explore the phenotypic and transcriptional events involved in the acclimation of the Arabidopsis seedling root to a rapid change in salinity. Using live-imaging analysis, we show that growth is dynamically regulated with a period of growth quiescence followed by growth recovery and homeostasis. Through the development and analysis of a new high-resolution spatiotemporal transcriptional map, we have identified the key hormone signaling pathways that regulate specific transcriptional programs, predict their spatial domain of action and link the activity of these pathways to the control of specific phases of growth control. Through the use of tissue-specific approaches to suppress the ABA pathway, we demonstrate that ABA signaling likely acts in select tissue layers to control spatially localized transcriptional programs and promote growth recovery. In addition to the biological pathways directly affecting growth, we show that salt also controls many tissue-specific and time-point specific transcriptional responses that are expected to modify water transport, Casparian strip formation and protein translation. Together, our data reveal a sophisticated assortment of regulatory programs acting together to coordinate spatially patterned biological changes involved in the immediate and long-term response to a stressful shift in environment. To test a genome-scale dynamic changes and gene expression homeostasis of gene expression in Arabisopsis root in salt stress response, we generated this data using whole roots. Wild type plants of columbia were grown under standard conditions for 5 days, and then they were transfered to media supplemented with 140mM NaCl for a series of time: 1 hour, 3 hours, 20 hours, 2 days, 4 days and and 8 days, as well as to standard condition for the same series of time. 2 replicates for each condition was used.

本研究以野生型哥伦比亚（Columbia）拟南芥（Arabidopsis）的完整根系样本为材料，构建了盐胁迫响应过程中动态基因表达变化与稳态维持的全基因组尺度检测数据集。将哥伦比亚生态型拟南芥幼苗在标准培养条件下生长5天后，分别转移至添加140mM氯化钠的培养基中，培养时长分别为1小时、3小时、20小时、2天、4天及8天；同时设置平行对照组，在标准培养条件下培养对应时长。每个处理条件设置2次生物学重复。
植物的环境响应涉及生长与信号转导的动态变化，但目前对这些时序事件的调控进程仍知之甚少。本研究旨在探索拟南芥幼苗根系响应盐浓度快速变化的驯化过程中涉及的表型与转录调控事件。通过活体成像分析，我们证实根系生长呈现动态调控模式：先经历生长停滞期，随后恢复生长并建立稳态。本研究开发并分析了一套全新的高分辨率时空转录组图谱，鉴定出调控特定转录程序的关键激素信号通路，预测了其发挥作用的空间结构域，并将这些通路的活性与生长调控的特定阶段建立关联。通过组织特异性手段抑制脱落酸（ABA）信号通路，我们证实ABA信号可能在特定组织层中发挥作用，调控空间定位的转录程序并促进生长恢复。除直接调控生长的生物学通路外，本研究还发现盐胁迫可诱导大量组织特异性与时间点特异性的转录响应，这些响应可调控水分运输、凯氏带（Casparian strip）形成与蛋白质翻译等生理过程。综上，本研究的数据揭示了一套复杂的调控程序协同作用，以协调空间模式化的生物学变化，参与环境胁迫骤变后的短期与长期响应。
为验证拟南芥根系盐胁迫响应中基因表达的全基因组动态变化与表达稳态，本数据集采用完整根系样本生成。将野生型哥伦比亚拟南芥幼苗在标准培养条件下生长5天后，分别转移至添加140mM氯化钠的培养基及标准培养基中，培养时长分别为1小时、3小时、20小时、2天、4天及8天，每个处理条件设置2次生物学重复。