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Genetic control of flowering time in rice: integration of Mendelian genetics and genomics

Theoretical and Applied Genetics volume 129, pages 2241–2252 (2016)Cite this article

Abstract

Key message

Integration of previous Mendelian genetic analyses and recent molecular genomics approaches, such as linkage mapping and QTL cloning, dramatically strengthened our current understanding of genetic control of rice flowering time.

Abstract

Flowering time is one of the most important agronomic traits for seed production in rice (Oryza sativa L.). It is controlled mainly by genes associated with photoperiod sensitivity, particularly in short-day plants such as rice. Since the early twentieth century, rice breeders and researchers have been interested in elucidating the genetic basis of flowering time because its modification is important for regional adaptation and yield optimization. Although flowering time is a complex trait controlled by many quantitative trait loci (QTLs), classical genetic studies have shown that many associated genes are inherited in accordance with Mendelian laws. Decoding the rice genome sequence opened a new era in understanding the genetic control of flowering time on the basis of genome-wide mapping and gene cloning. Heading date 1 (Hd1) was the first flowering time QTL to be isolated using natural variation in rice. Recent accumulation of information on rice genome has facilitated the cloning of other QTLs, including those with minor effects on flowering time. This information has allowed us to rediscover some of the flowering genes that were identified by classical Mendelian genetics. The genes characterized so far, including Hd1, have been assigned to specific photoperiod pathways. In this review, we provide an overview of the studies that led to an in-depth understanding of the genetic control of flowering time in rice, and of the current state of improving and fine-tuning this trait for rice breeding.

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Acknowledgments

The research activities at the Institute of Crop Science, NARO (formally National Institute of Agrobiological Sciences), have been supported mainly by the Ministry of Agriculture, Forestry and Fisheries of Japan and the Program for the Promotion of Basic Research Activities for Innovative Biosciences, and partly by the Ministry of Education, Culture, Sports, Science and Technology of Japan.

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Affiliations

  1. Institute of Crop Science, NARO, Tsukuba, Japan

    Kiyosumi Hori, Kazuki Matsubara & Masahiro Yano

Authors
  1. Kiyosumi Hori
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  2. Kazuki Matsubara
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  3. Masahiro Yano
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Correspondence to Masahiro Yano.

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The authors declare that they have no conflict of interest.

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Communicated by H. Bürstmayr and J. Vollmann.

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Hori, K., Matsubara, K. & Yano, M. Genetic control of flowering time in rice: integration of Mendelian genetics and genomics. Theor Appl Genet 129, 2241–2252 (2016). https://doi.org/10.1007/s00122-016-2773-4

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  • DOI: https://doi.org/10.1007/s00122-016-2773-4

Keywords

  • Quantitative Trait Locus
  • Flowering Time
  • Rice Variety
  • Circadian Clock
  • Quantitative Trait Locus Analysis