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Analysis wheat wild relatives Thinopyrum intermedium and Roegneria kamoji genomes reveal different polyploid evolution paths

Author

Listed:
  • Silong Sun

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Naixiu Che

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Liyang Chen

    (Smartgenomics Technology Institute)

  • Yongchao Hao

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Yongchang Xu

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Qingyang Chen

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Wenyang Ge

    (Anhui Agricultural University, Key Laboratory of Wheat Biology and Genetic Improvement on Southern Yellow & Huai River Valley, Ministry of Agriculture and Rural Affairs, College of Agronomy)

  • Shuangshuang Qin

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Wenxiu Zhang

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Chunmei Dong

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Jianqiang Li

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Yuxin Liu

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Fangfang Yan

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Long Han

    (Tai’an Academy of Agricultural Sciences)

  • Zhangwei Liu

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Liang Zhang

    (Shandong Agricultural University, College of Information Science and Engineering)

  • Chengzhi Jiang

    (University of Electronic Science and Technology of China, Center for Informational Biology, School of Life Science and Technology)

  • Zujun Yang

    (University of Electronic Science and Technology of China, Center for Informational Biology, School of Life Science and Technology)

  • Hongwei Wang

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

  • Lingrang Kong

    (Shandong Agricultural University, State Key Laboratory of Wheat Improvement, College of Agronomy)

Abstract

Many wild relatives of wheat in the Triticeae tribe provide important genetic resources for crop improvement, but their complex, polyploid genomes shaped by hybridization remain poorly understood. Here, we assemble and analyze the genomes of Thinopyrum intermedium and Roegneria kamoji, two species commonly used in wheat hybridization. We show that Th. intermedium contains genomic contributions from Pseudoroegneria (St), Dasypyrum (V), and Aegilops (J), while R. kamoji contains subgenomes related to Pseudoroegneria (St), Dasypyrum (V-related “Y”), and Hordeum (H). Phylogenomic evidence indicates that both species underwent independent polyploidization events, with Pseudoroegneria serving as the original maternal donor. R. kamoji likely evolved from tetraploid Roegneria. We also identify two Fhb7 homologs in the St and H subgenomes of R. kamoji that enhance Fusarium head blight resistance in a dosage-dependent manner. These findings refine the understanding of Triticeae polyploid evolution and offer valuable genomic resources for wheat improvement and forage breeding.

Suggested Citation

  • Silong Sun & Naixiu Che & Liyang Chen & Yongchao Hao & Yongchang Xu & Qingyang Chen & Wenyang Ge & Shuangshuang Qin & Wenxiu Zhang & Chunmei Dong & Jianqiang Li & Yuxin Liu & Fangfang Yan & Long Han &, 2025. "Analysis wheat wild relatives Thinopyrum intermedium and Roegneria kamoji genomes reveal different polyploid evolution paths," Nature Communications, Nature, vol. 16(1), pages 1-13, December.
    • Handle: RePEc:nat:natcom:v:16:y:2025:i:1:d:10.1038_s41467-025-63007-y
    DOI: 10.1038/s41467-025-63007-y
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