期刊
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
卷 116, 期 47, 页码 23840-23849出版社
NATL ACAD SCIENCES
DOI: 10.1073/pnas.1708508116
关键词
soybean circadian clock; abiotic stress; molecular timetable; RASL-seq; comprehensive map
资金
- State Key Laboratory for Protein and Plant Gene Research, Peking University
- Peking-Tsinghua Center for Life Sciences
- USDA National Institute of Food and Agriculture [3808]
- National Natural Science Foundation of China [31871648]
- Guangzhou University [2809911]
- NIH [R35GM118036-04]
- Howard Hughes Medical Institute
- Gordon and Betty Moore Foundation [GBMF3032]
- US Department of Agriculture Agricultural Research Service [3625-21220-005-00D]
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.
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