Multiple abiotic stimuli are integrated in the regulation of rice gene expression under field conditions
- Plymouth University, United Kingdom
- New York University, United States
- International Rice Research Institute, Philippines
- Simons Foundation, New York, United States
- Texas A&M University, United States
Abstract
Plants rely on transcriptional dynamics to respond to multiple climatic fluctuations and contexts in nature. We analyzed genome-wide gene expression patterns of rice (Oryza sativa) growing in rainfed and irrigated fields during two distinct tropical seasons and determined simple linear models that relate transcriptomic variation to climatic fluctuations. These models combine multiple environmental parameters to account for patterns of expression in the field of co-expressed gene clusters. We examined the correspondence of our environmental models between tropical and temperate field conditions, using previously published data. We found that field type and macroclimate had broad impacts on transcriptional responses to environmental fluctuations, especially for genes involved in photosynthesis and development. Nevertheless, variation in solar radiation and temperature at the timescale of hours had reproducible effects across environmental contexts. These results provide a basis for broad-based predictive modeling of plant gene expression in the field.
Article and author information
Author details
Reviewing Editor
- Daniel J Kliebenstein, University of California, Davis, Denmark
Version history
- Received: April 29, 2015
- Accepted: November 25, 2015
- Accepted Manuscript published: November 26, 2015 (version 1)
- Version of Record published: December 31, 2015 (version 2)
Copyright
© 2015, Plessis et al.
This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.
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Multiple abiotic stimuli are integrated in the regulation of rice gene expression under field conditions
eLife 4:e08411.
https://doi.org/10.7554/eLife.08411
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