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The genome of broomcorn millet

Author

Listed:
  • Changsong Zou

    (Chinese Academy of Sciences
    Henan University)

  • Leiting Li

    (Chinese Academy of Sciences)

  • Daisuke Miki

    (Chinese Academy of Sciences)

  • Delin Li

    (Data2Bio LLC
    Dryland Genetics LLC
    China Agricultural University)

  • Qiming Tang

    (Chinese Academy of Sciences)

  • Lihong Xiao

    (Chinese Academy of Sciences)

  • Santosh Rajput

    (Dryland Genetics LLC)

  • Ping Deng

    (Chinese Academy of Sciences)

  • Li Peng

    (Chinese Academy of Sciences)

  • Wei Jia

    (Chinese Academy of Sciences)

  • Ru Huang

    (Chinese Academy of Sciences)

  • Meiling Zhang

    (Chinese Academy of Sciences)

  • Yidan Sun

    (Chinese Academy of Sciences)

  • Jiamin Hu

    (Chinese Academy of Sciences)

  • Xing Fu

    (Chinese Academy of Sciences)

  • Patrick S. Schnable

    (Data2Bio LLC
    Dryland Genetics LLC
    China Agricultural University
    Iowa State University)

  • Yuxiao Chang

    (Chinese Academy of Agricultural Sciences)

  • Feng Li

    (Chinese Academy of Sciences)

  • Hui Zhang

    (Shandong Normal University)

  • Baili Feng

    (Northwest Agriculture & Forestry University)

  • Xinguang Zhu

    (Chinese Academy of Sciences)

  • Renyi Liu

    (Chinese Academy of Sciences)

  • James C. Schnable

    (Data2Bio LLC
    Dryland Genetics LLC
    University of Nebraska-Lincoln)

  • Jian-Kang Zhu

    (Chinese Academy of Sciences
    Purdue University)

  • Heng Zhang

    (Chinese Academy of Sciences
    Chinese Academy of Sciences)

Abstract

Broomcorn millet (Panicum miliaceum L.) is the most water-efficient cereal and one of the earliest domesticated plants. Here we report its high-quality, chromosome-scale genome assembly using a combination of short-read sequencing, single-molecule real-time sequencing, Hi-C, and a high-density genetic map. Phylogenetic analyses reveal two sets of homologous chromosomes that may have merged ~5.6 million years ago, both of which exhibit strong synteny with other grass species. Broomcorn millet contains 55,930 protein-coding genes and 339 microRNA genes. We find Paniceae-specific expansion in several subfamilies of the BTB (broad complex/tramtrack/bric-a-brac) subunit of ubiquitin E3 ligases, suggesting enhanced regulation of protein dynamics may have contributed to the evolution of broomcorn millet. In addition, we identify the coexistence of all three C4 subtypes of carbon fixation candidate genes. The genome sequence is a valuable resource for breeders and will provide the foundation for studying the exceptional stress tolerance as well as C4 biology.

Suggested Citation

  • Changsong Zou & Leiting Li & Daisuke Miki & Delin Li & Qiming Tang & Lihong Xiao & Santosh Rajput & Ping Deng & Li Peng & Wei Jia & Ru Huang & Meiling Zhang & Yidan Sun & Jiamin Hu & Xing Fu & Patrick, 2019. "The genome of broomcorn millet," Nature Communications, Nature, vol. 10(1), pages 1-11, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-08409-5
    DOI: 10.1038/s41467-019-08409-5
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    Cited by:

    1. Taikui Zhang & Weichen Huang & Lin Zhang & De-Zhu Li & Ji Qi & Hong Ma, 2024. "Phylogenomic profiles of whole-genome duplications in Poaceae and landscape of differential duplicate retention and losses among major Poaceae lineages," Nature Communications, Nature, vol. 15(1), pages 1-27, December.

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