数字农科院2.0

Pangenomics and single-cell transcriptomics uncover the genetic basis of continuous bearing trait in grapevine

文献类型： 外文期刊

作者： Yuting Liu;Yang Dong;Xinyue Fang;Xu Wang;Jiacui Li;Tianhao Zhang;Qiming Long;Ying Su;Xiaoya Shi;Xiangnian Su;Yingchun Zhang;Ting Hou;Mengrui Du;Yiran Ren;Peipei Wang;Xinglong Ji;Yunjun Chang;Sheng Yan;Sifan Yang;Yongfeng Zhou;Yanling Peng;Xiangpeng Leng

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期刊名称： Horticulture Research

ISSN： 2052-7276

年卷期： 2025 年 12 卷 12 期

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收录情况： SCIE（2025版） ; ; CSCD（2025-2026年度） ; ; 科技核心（2024版） ; ; 农林核心（2024版）

摘要： Grapevine (Vitis vinifera) is economically important for fresh consumption, winemaking, and drying. The circadian systems of flowering and fruit development are crucial for viticulture and yield formation. However, the genetic basis of continuous flowering and bearing has been rarely elucidated. Here, we integrate pan-genomics, comparative genomics, single-cell transcriptomics, and bulk transcriptomics to investigate the continuous flowering and bearing trait (CFB) in the ‘Julian’ grape, which bears fruits at different development stages from flower to mature berries simultaneously. Pan-genomics and comparative genomics discovered 558 unique structural variations (SVs) and eight genes enriched in flowering pathways exclusively in Julian, based on the newly generated haplotype-resolved near telomere-to-telomere (T2T) genome of ‘Julian’ and 15 previously published genomes of grapevine, which bears fruits in the same developmental stage (i.e., seasonal flowering and bearing, SFB). Single-cell transcriptomes of flowering buds for CFB ‘Julian’ and SFB ‘Muscat Hamburg’ detected seven distinct cell types, which provide detailed cell-type-specific gene expression profiles for both cultivars, with differential gene expression (DEG) insights highlighting growth, metabolism, and hormonal regulation pathways in ‘Julian’. Integrating SVs and DEG data, we pinpoint 37 candidate genes potentially associated with CFB, including Auxin/IAA, Cytochrome P450, Vicilin-like antimicrobial peptides (AMP) and respiratory burst oxidase homolog protein B (RBOH) related genes. This study provides insights into the genetic basis of CFB in grapevine, facilitating grapevine breeding with continuous flowering and bearing.

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