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A genotyping platform assembled with high-throughput DNA extraction, codominant functional markers, and automated CE system to accelerate marker-assisted improvement of rice

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Abstract

The introgression of multiple genes into traditional cultivars using marker-assisted selection (MAS) in order to obtain favorable traits is an effective strategy to achieve improved rice lines. Genotyping of markers is a central component of the evaluation of germplasm and the selection of progeny lines. However, efficient DNA extraction and genotyping of large breeding populations still remain limiting factors in rice molecular breeding programs. This study has developed and validated a cost-effective, rapid (<1 h for 96 samples), and high-throughput (96-well format) total DNA-extraction method based on magnetic particle technology. To improve the grain-quality traits of two rice varieties, we have designed and employed an efficient codominant functional marker system (including Wx, ALK, Chalk5, and fgr genes), in combination with genotyping based on automated capillary electrophoresis. Rice lines with simultaneous improvement at multiple loci were obtained and found to have superior grain quality and to be fragrant. The genotyping pipeline established in this study represents an efficient, reliable, and precise platform for MAS.

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Acknowledgments

Financial support for this research was provided in part by a grant from Science and Technology Planning Project of Guangdong Province, China (2015B020231011), National Key Technology Research and Development Program of China (No. 2016YFD0102102), and the earmarked fund for Modern Agro-industry Technology Research System (CARS-01-12).

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Authors and Affiliations

  1. National Engineering Research Center of Plant Space Breeding, South China Agricultural University, Guangzhou, 510642, China

    Likai Chen, Weiwei Gao, Tao Guo, Cuihong Huang, Ming Huang, Jiafeng Wang, Wuming Xiao, Guili Yang, Yongzhu Liu, Hui Wang & Zhiqiang Chen

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  1. Likai Chen
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  2. Weiwei Gao
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  3. Tao Guo
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  4. Cuihong Huang
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  5. Ming Huang
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  6. Jiafeng Wang
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  7. Wuming Xiao
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  8. Guili Yang
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  9. Yongzhu Liu
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  10. Hui Wang
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  11. Zhiqiang Chen
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Correspondence to Tao Guo or Zhiqiang Chen.

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Chen, L., Gao, W., Guo, T. et al. A genotyping platform assembled with high-throughput DNA extraction, codominant functional markers, and automated CE system to accelerate marker-assisted improvement of rice. Mol Breeding 36, 123 (2016). https://doi.org/10.1007/s11032-016-0547-y

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