Estimation of the Circadian Phase by Oscillatory Analysis of the Transcriptome in Plants

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  • TAKEOKA Mari
    Graduate School of Engineering, Osaka Prefecture University
  • HIGASHI Takanobu
    Graduate School of Life and Environmental Science, Osaka Prefecture University
  • N. HONJO Mie
    Center for Ecological Research, Kyoto University
  • TEZUKA Ayumi
    Faculty of Agriculture, Ryukoku University
  • J. NAGANO Atsushi
    Faculty of Agriculture, Ryukoku University Japan Science and Technology Agency
  • TANIGAKI Yusuke
    Graduate School of Engineering, Osaka Prefecture University
  • FUKUDA Hirokazu
    Graduate School of Engineering, Osaka Prefecture University Japan Science and Technology Agency

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Description

The phase of the circadian clock (body time) is related to various aspects of physiology and metabolism in plants. Therefore, it is important to evaluate body time to control plant quality and growth. The molecular timetable method, a statistical analysis of the transcriptome, is useful for plant body time estimation. However, it is necessary to verify some assumptions in this method for high resolution estimation in plants under various conditions. To investigate whether the assumptions are valid, we analyzed the period length and expression pattern of genes. We used Arabidopsis thaliana as a model plant, and both lettuce and tomato as model crops. A. thaliana and lettuce were cultivated under conditions of constant light in a closed plant factory, and tomato was cultivated in a sunlight-type plant factory. We found that estimation of the period length of the plant circadian rhythm was possible and that the gene expression pattern correlates well with test-fit cosine curves. Thus, we successfully demonstrated high-resolution estimation of body time in plants using a molecular timetable method.

Journal

  • Environment Control in Biology

    Environment Control in Biology 56 (2), 67-72, 2018

    Japanese Society of Agricultural, Biological and Environmental Engineers and Scientists

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