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Identification of qLG2, qLG8, and qWG2 as novel quantitative trait loci for grain shape and the allelic analysis in cultivated rice

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Abstract

Main conclusion

Three novel QTLs for grain shape were genetically fine mapped, with two of which to a 250-kb target interval on rice chromosome 2 that contains fourteen candidate genes.

Abstract

Grain shape (grain length, width, and thickness) determines crop yield and grain quality. However, the trait is regulated by numerous naturally occurring quantitative trait loci (QTLs) and the underlying mechanism remains largely unknown. Here, we report the genetic mapping of three new QTLs, qLG2, qWG2, and qLG8 that each exerts a semi-dominant effect on grain shape in cultivated rice. These QTLs were validated using populations derived from the corresponding chromosome segment substitution lines (CSSLs), and were further delimited to small genomic intervals in progeny testing experiments. Especially, qLG2/qWG2 was placed into an about 250-kb genomic candidate region, and 14 predicted ORFs localized within the interval. We also evaluated the individual and pyramiding genetic effect(s) of these QTL(s) using the corresponding nearly isogenic lines, and found that they have additive effects on the traits. Collectively, these findings provided useful information as a tool to improve grain shape in crop breeding programs and established foundations for future QTL cloning.

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Abbreviations

CSSL:

Chromosome segment substitution line

NIL:

Near isogenic line

QTL:

Quantitative trait locus

SSR:

Simple sequence repeat

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Acknowledgements

This work was supported by the National Key Research and Development Program of China (2016YFD0100402), the National Natural Science Foundation of China (91735302, 91435113, and 31471466).

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Author notes

  1. Gao-Jie Wang and Ying Wang contributed equally.

Authors and Affiliations

  1. Key Laboratory of Plant Molecular Physiology, Institute of Botany, The Chinese Academy of Sciences, No. 20 Nanxincun, Xiangshan, Beijing, 100093, China

    Gao-Jie Wang, Ying Wang & Xian-Jun Song

  2. National Key Laboratory of Rice Biology and Chinese Center of Rice Improvement, China National Rice Research Institute, Hangzhou, 310006, China

    Jie-Zheng Ying

  3. University of Chinese Academy of Sciences, Beijing, China

    Gao-Jie Wang, Ying Wang & Xian-Jun Song

  4. The Innovative Academy of Seed Design, The Chinese Academy of Sciences, Beijing, China

    Xian-Jun Song

Authors
  1. Gao-Jie Wang
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  2. Ying Wang
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  3. Jie-Zheng Ying
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  4. Xian-Jun Song
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Correspondence to Xian-Jun Song.

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Wang, GJ., Wang, Y., Ying, JZ. et al. Identification of qLG2, qLG8, and qWG2 as novel quantitative trait loci for grain shape and the allelic analysis in cultivated rice. Planta 252, 18 (2020). https://doi.org/10.1007/s00425-020-03420-3

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  • DOI: https://doi.org/10.1007/s00425-020-03420-3

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