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Population-level super-pangenome reveals genome evolution and empowers precision breeding in watermelon.

Nature genetics - 1 May 2026

Sun Honghe, Zhang Jie, Liao Shengjin, Guo Shaogui, Zhou Zhe, Zhao Xuebo, Wu Shan, Zhao Jiantao, Gong Guoyi, Wang Jinfang, Li Maoying, Yu Yongtao, Ren Yi, Tian Shouwei, Li Shaofang, Zhang Haiying, Hammar Sue A, McGregor Cecilia, Jarret Robert, Wechter Patrick, Branham Sandra E, Kousik Chandrasekar, Levi Amnon, Grumet Rebecca, Fei Zhangjun, Xu Yong

Abstract excerpt

Pangenomes are increasingly important for harnessing crop genetic diversity, yet their resolution and utility are often limited by insufficient sampling of high-quality genome assemblies. Here we present a population-level watermelon super-pangenome constructed from 138 reference-grade assemblies, including 135 newly generated genomes representing all seven species. This super-pangenome captures approximately 1...

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PMID: 42086854
DOI: 10.1038/s41588-026-02598-8

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