Regulatory feedback response mechanisms to phosphate starvation in rice

Ajmera, Ishan; Shi, Jing; Giri, Jitender; Wu, Ping; Stekel, Dov J.; Lu, Chungui; Hodgman, Charlie

Abstract

Phosphorus is a growth-limiting nutrient for plants. The growing scarcity of phosphate stocks threatens global food security. Phosphate-uptake regulation is so complex and incompletely known that attempts to improve phosphorus use efficiency have had extremely limited success. This study improves our understanding of the molecular mechanisms underlying phosphate uptake by investigating the transcriptional dynamics of two regulators: the Ubiquitin ligase PHO2 and the long non-coding RNA IPS1. Temporal measurements of RNA levels have been integrated into mechanistic mathematical models using advanced statistical techniques. Models based solely on current knowledge could not adequately explain the temporal expression profiles. Further modelling and bioinformatics analysis have led to the prediction of three regulatory features: the PHO2 protein mediates th 27 e degradation of its own transcriptional activator to maintain constant PHO2 levels; the binding affinity of the transcriptional activator of PHO2 is impaired by a phosphate-sensitive transcriptional repressor/inhibitor; and the extremely high levels of IPS1 and its rapid disappearance upon Pi re-supply are best explained by Pi-sensitive RNA protection. This work offers both new opportunities for plant phosphate research that will be essential for informing the development of phosphate efficient crop varieties, and a foundation for the development of models integrating phosphate with other stress responses.

Citation

Ajmera, I., Shi, J., Giri, J., Wu, P., Stekel, D. J., Lu, C., & Hodgman, C. (in press). Regulatory feedback response mechanisms to phosphate starvation in rice. npj Systems Biology and Applications, 4(4), https://doi.org/10.1038/s41540-017-0041-0

• Journal Article Type: Article
• Acceptance Date: Nov 24, 2017
• Online Publication Date: Jan 8, 2018
• Deposit Date: Jan 10, 2018
• Publicly Available Date: Jan 10, 2018
• Journal: npj Systems Biology and Applications
• Electronic ISSN: 2056-7189
• Publisher: Nature Publishing Group
• Peer Reviewed: Peer Reviewed
• Volume: 4
• Issue: 4
• DOI: https://doi.org/10.1038/s41540-017-0041-0
• Public URL: https://nottingham-repository.worktribe.com/output/903684
• Publisher URL: https://www.nature.com/articles/s41540-017-0041-0
• Contract Date: Jan 10, 2018