Introgression and selection shaping the genome and adaptive loci of weedy rice in northern China

Authors

  • Jian Sun,

    1. Key Laboratory of Northeast Rice Biology and Breeding, Ministry of Agriculture, and Key Laboratory of Northern Japonica Rice Genetics and Breeding, Ministry of Education, Rice Research Institute, Shenyang Agricultural University, Shenyang, China
    Search for more papers by this author
    • These authors contributed equally to this work.
  • Qian Qian,

    1. State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, China
    Search for more papers by this author
    • These authors contributed equally to this work.
  • Dian-Rong Ma,

    1. Key Laboratory of Northeast Rice Biology and Breeding, Ministry of Agriculture, and Key Laboratory of Northern Japonica Rice Genetics and Breeding, Ministry of Education, Rice Research Institute, Shenyang Agricultural University, Shenyang, China
    Search for more papers by this author
    • These authors contributed equally to this work.
  • Zheng-Jin Xu,

    1. Key Laboratory of Northeast Rice Biology and Breeding, Ministry of Agriculture, and Key Laboratory of Northern Japonica Rice Genetics and Breeding, Ministry of Education, Rice Research Institute, Shenyang Agricultural University, Shenyang, China
    Search for more papers by this author
  • Dan Liu,

    1. Key Laboratory of Northeast Rice Biology and Breeding, Ministry of Agriculture, and Key Laboratory of Northern Japonica Rice Genetics and Breeding, Ministry of Education, Rice Research Institute, Shenyang Agricultural University, Shenyang, China
    Search for more papers by this author
  • Hong-Bo Du,

    1. Key Laboratory of Northeast Rice Biology and Breeding, Ministry of Agriculture, and Key Laboratory of Northern Japonica Rice Genetics and Breeding, Ministry of Education, Rice Research Institute, Shenyang Agricultural University, Shenyang, China
    Search for more papers by this author
  • Wen-Fu Chen

    Corresponding author
    • Key Laboratory of Northeast Rice Biology and Breeding, Ministry of Agriculture, and Key Laboratory of Northern Japonica Rice Genetics and Breeding, Ministry of Education, Rice Research Institute, Shenyang Agricultural University, Shenyang, China
    Search for more papers by this author

Author for correspondence:

Wen-Fu Chen

Tel: +8688487186

Email: wfchen5512@126.com

Summary

  • As a weed of rice paddy fields, weedy rice has spread worldwide. In northern China, the expansion of weedy rice has been rapid over the past two decades. Its evolutionary history and adaptive mechanisms are poorly understood.
  • Evolutionary relationships between northern weedy rice and rice cultivars were analyzed using presumed neutral markers sampled across the rice genome. Genes involved in rice domestication were evaluated for their potential roles in weedy rice adaptation. Seed longevity, a critical trait of weedy rice, was examined in an F2 population derived from a cross between weedy rice and a rice cultivar to evaluate weedy rice adaptation and the potential effect of candidate genes.
  • Weedy rice in northern China was not derived directly from closely related wild Oryza species or from the introgression of indica subspecies. Introgression with local cultivars, coupled with selection that maintained weedy identity, shaped the evolution of weedy rice in northern China.
  • Weedy rice is a unique system with which to investigate how weedy plants adapt to an agricultural environment. Our finding that extensive introgression from local cultivars, combined with the continuing ability to maintain weedy genes, is characteristic of weedy rice in northern China provides a clue for the field control of weedy rice.

Ancillary