文献类型： 外文期刊

作者： Li, Wei ¹ ; Chu, Chong ² ; Zhang, Taikui ³ ; Sun, Haochen ¹ ; Wang, Shiyao ¹ ; Liu, Zeyuan ⁵ ; Wang, Zijun ¹ ; Li, Hui ¹ ; Li, Yuqi ¹ ; Zhang, Xingtan ⁶ ; Geng, Zhiqiang ⁷ ; Wang, Youqing ⁷ ; Li, Yi ⁸ ; Zhang, Hengtao ⁹ ; Fan, Weishu ¹⁰ ; Wang, Yi ¹ ; Xu, Xuefeng ¹ ; Cheng, Lailiang ¹¹ ; Zhang, Dehui ⁵ ; Xiong, Yao ¹ ; Li, Huixia ¹ ; Zhou, Bowen ¹ ; Guan, Qingmei ⁵ ; Deng, Cecilia H. ¹² ; Han, Yongming ⁷ ; Ma, Hong ³ ; Han, Zhenhai ¹ ;

作者机构： 1.China Agr Univ, Inst Hort Plants, Beijing, Peoples R China

2.Harvard Med Sch, Dept Biomed Informat, Boston, MA 02115 USA

3.Penn State Univ, Eberly Coll Sci, Dept Biol, University Pk, PA 16802 USA

4.Penn State Univ, Huck Inst Life Sci, University Pk, PA 16802 USA

5.Northwest A&F Univ, Coll Hort, State Key Lab Crop Stress Biol Arid Areas, Shaanxi Key Lab Apple, Yangling, Peoples R China

6.Chinese Acad Agr Sci, Guangdong Lab Lingnan Modern Agr, Genome Anal Lab, Minist Agr & Rural Affairs, Shenzhen, Peoples R China

7.Beijing Univ Chem Technol, Coll Informat Sci & Technol, Beijing, Peoples R China

8.Univ Connecticut, Dept Plant Sci & Landscape Architecture, Storrs, CT USA

9.Chinese Acad Agr Sci, Zhengzhou Fruit Res Inst, Zhengzhou, Peoples R China

10.Chinese Acad Sci, Kunming Inst Bot, Germplasm Bank Wild Species, Kunming, Peoples R China

11.Cornell Univ, Sch Integrat Plant Sci, Sect Hort, Ithaca, NY USA

12.New Zealand Inst Plant & Food Res Ltd, Plant & Food Res, Auckland, New Zealand

期刊名称：NATURE GENETICS （ 影响因子：29.0； 五年影响因子：37.4 ）

ISSN： 1061-4036

年卷期： 2025 年 57 卷 5 期

页码：

收录情况： SCI

摘要： Malus Mill., a genus of temperate perennial trees with great agricultural and ecological value, has diversified through hybridization, polyploidy and environmental adaptation. Limited genomic resources for wild Malus species have hindered the understanding of their evolutionary history and genetic diversity. We sequenced and assembled 30 high-quality Malus genomes, representing 20 diploids and 10 polyploids across major evolutionary lineages and geographical regions. Phylogenomic analyses revealed ancient gene duplications and conversions, while six newly defined genome types, including an ancestral type shared by polyploid species, facilitated the detection of strong signals for extensive introgressions. The graph-based pan-genome captured shared and species-specific structural variations, facilitating the development of a molecular marker for apple scab resistance. Our pipeline for analyzing selective sweep identified a mutation in MdMYB5 having reduced cold and disease resistance during domestication. This study advances Malus genomics, uncovering genetic diversity and evolutionary insights while enhancing breeding for desirable traits.