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Analyses of a chromosome-scale genome assembly reveal the origin and evolution of cultivated chrysanthemum

Author

Listed:
  • Aiping Song

    (Nanjing Agricultural University)

  • Jiangshuo Su

    (Nanjing Agricultural University)

  • Haibin Wang

    (Nanjing Agricultural University)

  • Zhongren Zhang

    (Novogene Bioinformatics Institute)

  • Xingtan Zhang

    (Chinese Academy of Agricultural Sciences)

  • Yves Peer

    (Nanjing Agricultural University
    Ghent University, VIB Center for Plant Systems Biology
    University of Pretoria)

  • Fei Chen

    (Hainan University & Hainan Yazhou Bay Seed Laboratory)

  • Weimin Fang

    (Nanjing Agricultural University)

  • Zhiyong Guan

    (Nanjing Agricultural University)

  • Fei Zhang

    (Nanjing Agricultural University)

  • Zhenxing Wang

    (Nanjing Agricultural University)

  • Likai Wang

    (Nanjing Agricultural University)

  • Baoqing Ding

    (Nanjing Agricultural University)

  • Shuang Zhao

    (Nanjing Agricultural University)

  • Lian Ding

    (Nanjing Agricultural University)

  • Ye Liu

    (Nanjing Agricultural University)

  • Lijie Zhou

    (Nanjing Agricultural University)

  • Jun He

    (Nanjing Agricultural University)

  • Diwen Jia

    (Nanjing Agricultural University)

  • Jiali Zhang

    (Nanjing Agricultural University)

  • Chuwen Chen

    (Nanjing Agricultural University)

  • Zhongyu Yu

    (Nanjing Agricultural University)

  • Daojin Sun

    (Nanjing Agricultural University)

  • Jiafu Jiang

    (Nanjing Agricultural University)

  • Sumei Chen

    (Nanjing Agricultural University)

  • Fadi Chen

    (Nanjing Agricultural University)

Abstract

Chrysanthemum (Chrysanthemum morifolium Ramat.) is a globally important ornamental plant with great economic, cultural, and symbolic value. However, research on chrysanthemum is challenging due to its complex genetic background. Here, we report a near-complete assembly and annotation for C. morifolium comprising 27 pseudochromosomes (8.15 Gb; scaffold N50 of 303.69 Mb). Comparative and evolutionary analyses reveal a whole-genome triplication (WGT) event shared by Chrysanthemum species approximately 6 million years ago (Mya) and the possible lineage-specific polyploidization of C. morifolium approximately 3 Mya. Multilevel evidence suggests that C. morifolium is likely a segmental allopolyploid. Furthermore, a combination of genomics and transcriptomics approaches demonstrate the C. morifolium genome can be used to identify genes underlying key ornamental traits. Phylogenetic analysis of CmCCD4a traces the flower colour breeding history of cultivated chrysanthemum. Genomic resources generated from this study could help to accelerate chrysanthemum genetic improvement.

Suggested Citation

  • Aiping Song & Jiangshuo Su & Haibin Wang & Zhongren Zhang & Xingtan Zhang & Yves Peer & Fei Chen & Weimin Fang & Zhiyong Guan & Fei Zhang & Zhenxing Wang & Likai Wang & Baoqing Ding & Shuang Zhao & Li, 2023. "Analyses of a chromosome-scale genome assembly reveal the origin and evolution of cultivated chrysanthemum," Nature Communications, Nature, vol. 14(1), pages 1-15, December.
    • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-37730-3
    DOI: 10.1038/s41467-023-37730-3
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