Comprehensive mapping of abiotic stress inputs into the soybean circadian clock
Comprehensive mapping of abiotic stress inputs into the soybean circadian clock
复制标题
非生物胁迫输入对大豆生物钟的综合绘制
DOI：
10.1073/pnas.1708508116
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发表时间：
2019-11-19
影响因子：
11.1
通讯作者：
Wang, Wei
中科院分区：
文献类型：
--
作者：
Li, Meina;Cao, Lijun;Wang, Wei
植物的昼夜节律时钟通过与环境振荡同步的生理过程来提高适应性。通过驯化和育种，人工选择作物的适合度，自然选择和人工选择都认为生物钟是提高适合度的关键。尽管在拟南芥方面取得了进展，但我们对作物生物钟的了解仍然有限，这阻碍了其为增强适应性而进行的合理改进。为了揭示作物生物钟与各种环境线索之间的相互作用，我们使用一个2模块的发现管道，全面地将非生物胁迫输入映射到大豆生物钟。使用“分子时间表”方法，我们计算调查了公开可用的非生物胁迫相关的大豆转录组，以确定对全球节律有强烈影响的胁迫。这些发现随后被实验证实使用多路RNA测序技术。进一步确定了由每种应力调制的特定时钟组件。这一全面的图谱揭示了植物生物钟的输入，如碱性胁迫。此外，短期缺铁对大豆和拟南芥生物钟的影响与短期缺铁对大豆和拟南芥生物钟的影响相反。比较不同铁吸收效率的大豆品种，提示相位调节可能是缓解大豆缺铁症状的一种机制。大豆的这些独特反应证明了直接研究作物生物钟的必要性。我们的发现管道可以作为一种广泛适用的工具来促进这些探索。
The plant circadian clock evolved to increase fitness by synchronizing physiological processes with environmental oscillations. Crop fitness was artificially selected through domestication and breeding, and the circadian clock was identified by both natural and artificial selections as a key to improved fitness. Despite progress in Arabidopsis, our understanding of the crop circadian clock is still limited, impeding its rational improvement for enhanced fitness. To unveil the interactions between the crop circadian clock and various environmental cues, we comprehensively mapped abiotic stress inputs to the soybean circadian clock using a 2-module discovery pipeline. Using the "molecular timetable" method, we computationally surveyed publicly available abiotic stress-related soybean transcriptomes to identify stresses that have strong impacts on the global rhythm. These findings were then experimentally confirmed using a multiplexed RNA sequencing technology. Specific clock components modulated by each stress were further identified. This comprehensive mapping uncovered inputs to the plant circadian clock such as alkaline stress. Moreover, short-term iron deficiency targeted different clock components in soybean and Arabidopsis and thus had opposite effects on the clocks of these 2 species. Comparing soybean varieties with different iron uptake efficiencies suggests that phase modulation might be a mechanism to alleviate iron deficiency symptoms in soybean. These unique responses in soybean demonstrate the need to directly study crop circadian clocks. Our discovery pipeline may serve as a broadly applicable tool to facilitate these explorations.