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Title: Detection of diurnal variation of tomato transcriptome through the molecular timetable method in a sunlight-type plant factory
Authors: Higashi, Takanobu
Tanigaki, Yusuke
Takayama, Kotaro
Nagano, Atsushi J.
Honjo, Mie N.
Fukuda, Hirokazu
Author's alias: 永野, 惇
本庄, 三恵
Keywords: circadian clocks
molecular timetable method
stress-responsive genes
plant factory
tomato
transcriptome
Issue Date: 8-Feb-2016
Publisher: Frontiers
Journal title: Frontiers in Plant Science
Volume: 7
Thesis number: 87
Abstract: The timing of measurement during plant growth is important because many genes are expressed periodically and orchestrate physiological events. Their periodicity is generated by environmental fluctuations as external factors and the circadian clock as the internal factor. The circadian clock orchestrates physiological events such as photosynthesis or flowering and it enables enhanced growth and herbivory resistance. These characteristics have possible applications for agriculture. In this study, we demonstrated the diurnal variation of the transcriptome in tomato (Solanum lycopersicum) leaves through molecular timetable method in a sunlight-type plant factory. Molecular timetable methods have been developed to detect periodic genes and estimate individual internal body time from these expression profiles in mammals. We sampled tomato leaves every 2 h for 2 days and acquired time-course transcriptome data by RNA-Seq. Many genes were expressed periodically and these expressions were stable across the 1st and 2nd days of measurement. We selected 143 time-indicating genes whose expression indicated periodically, and estimated internal time in the plant from these expression profiles. The estimated internal time was generally the same as the external environment time; however, there was a difference of more than 1 h between the two for some sampling points. Furthermore, the stress-responsive genes also showed weakly periodic expression, implying that they were usually expressed periodically, regulated by light–dark cycles as an external factor or the circadian clock as the internal factor, and could be particularly expressed when the plant experiences some specific stress under agricultural situations. This study suggests that circadian clock mediate the optimization for fluctuating environments in the field and it has possibilities to enhance resistibility to stress and floral induction by controlling circadian clock through light supplement and temperature control.
Rights: © 2016 Higashi, Tanigaki, Takayama, Nagano, Honjo and Fukuda. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
URI: http://hdl.handle.net/2433/214320
DOI(Published Version): 10.3389/fpls.2016.00087
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