数字农科院2.0

A comprehensive omics resource and genetic tools for genetic research and precision breeding of Cucumis melo ssp. agrestis

文献类型： 外文期刊

作者： Yuanchao Xu;Bin Liu;Yang Li;Xinxiu Chen;Chao Yan;Yue Liu;Jie Wang;Wenjing Dong;Shijun Deng;Naonao Wang;Hangyu Wu;Huixin Guo;Zekai Zhang;Xiuhua Yao;Jing Feng;Jinjing Sun;Huimin Zhang;Kuipeng Xu;Xiaofeng Liu;Xuejun Zhang;Zhonghua Zhang;Sen Chai

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期刊名称： Plant Cell

ISSN： 1040-4651

年卷期： 2025 年 37 卷 11 期

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收录情况： SCIE（2025版） ; ; Nature Index（2023版）

摘要： Melon (Cucumis melo L.) is a globally important fruit crop, but progress in molecular breeding has been hampered by limited functional dissection of genes associated with agronomic traits. Therefore, we developed a comprehensive genome resource based on the C. melo ssp. agrestis accession 13C. This resource includes a complete telomere-to-telomere genome assembly, including accurate quantification of 45S rDNA copy number in melon, a transcriptome atlas from 31 tissue samples, a phenotypically diverse EMS-induced mutant library and a stable transformation system. By sequencing 1,125 M2 families, we identified about 660,000 variants, which cover 97.33% of the annotated gene space. Leveraging these integrated resources, we identified and functionally characterized several key genes, including CLAVATA3 INSENSITIVE RECEPTOR KINASES 2 (CmCIK2), which regulates carpel number; PARA-AMINOBENZOIC ACID SYNTHASE (CmACDS), a central regulator of folate biosynthesis; and a mutant allele of the known gynoecious gene WIP DOMAIN PROTEIN 1 (CmWIP1). In addition, we discovered a specific EMS-induced variant in the fruit ripening regulator CmNAC-NOR, and further validated its function by generating targeted mutants. The CmNAC-NOR mutants exhibited delayed fruit ripening, thus providing a valuable resource for improving ripening traits in agrestis accessions. To facilitate broader utilization, we developed the Melon Information Resource, available at https://zhanglab.qau.edu.cn/melon/index.php, an integrated platform housing 13C comprehensive genome resources and associated convenient analysis tools. This unified and accession-specific resource offers unprecedented opportunities to accelerate gene discovery and trait improvement in melon through functional genomics and molecular breeding.

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