Haplotype-resolved genome of a heterozygous wild peach reveals the PdaWRKY4-PdaCYP716A1 module mediates resistance to aphids by regulating betulin biosynthesis

IF 9.3 1区 生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY
Jun-Xiu Wang, Yong Li, Xin-Wei Wang, Ke Cao, Chang-Wen Chen, Jin-Long Wu, Wei-Chao Fang, Geng-Rui Zhu, Xue-Jia Chen, Dan-Dan Guo, Jiao Wang, Ya-Lin Zhao, Jia-Qi Fan, Su-Ning Liu, Wen-Qing Li, Hang-Ling Bie, Qiang Xu, Li-Rong Wang
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引用次数: 0

Abstract

Wild species of domesticated crops provide valuable genetic resources for resistance breeding. Prunus davidiana, a wild relative of peach with high heterozygosity and diverse stress tolerance, exhibits high resistance against aphids. However, the highly heterozygous genome of P. davidiana makes determining the underlying factors influencing resistance traits challenging. Here, we present the 501.7 Mb haplotype-resolved genome assembly of P. davidiana. Genomic comparisons of the two haplotypes revealed 18,152 structural variations, 2,699 Pda_hap1-specific and 2,702 Pda_hap2-specific genes, and 1,118 allele-specific expressed genes. Genome composition indicated 4.1% of the P. davidiana genome was non-peach origin, out of which 94.5% was derived from almond. Based on the haplotype genome, the aphid resistance quantitative trait locus (QTL) was mapped at the end of Pda03. From the aphid resistance QTL, PdaWRKY4 was identified as the major dominant gene, with a 9-bp deletion in its promoter of the resistant phenotype. Specifically, PdaWRKY4 regulates aphid resistance by promoting PdaCYP716A1-mediated anti-aphid metabolite betulin biosynthesis. Moreover, we employed a genome design to develop a breeding workflow for rapidly and precisely producing aphid-resistant peaches. In conclusion, this study identifies a novel aphid resistance gene and provides insights into genome design for the development of resistant fruit cultivars.

杂合野生桃的单倍型基因组显示,PdaWRKY4-PdaCYP716A1模块通过调节甜菜素的生物合成来介导对蚜虫的抗性。
驯化作物的野生物种为抗性育种提供了宝贵的遗传资源。Prunus davidiana 是桃的野生近缘种,具有高杂合度和多种抗逆性,对蚜虫表现出很强的抗性。然而,P. davidiana 基因组的高度杂合性使得确定影响抗性性状的潜在因素具有挑战性。在这里,我们展示了 501.7 Mb 单倍型解析的 P. davidiana 基因组组装。两个单倍型的基因组比较发现了 18,152 个结构变异、2,699 个 Pda_hap1 特异基因和 2,702 个 Pda_hap2 特异基因以及 1,118 个等位基因特异表达基因。基因组组成表明,4.1% 的 P. davidiana 基因组来自非桃树,其中 94.5% 来自杏树。根据单倍型基因组,抗蚜虫数量性状基因座(QTL)被绘制在 Pda03 的末端。从蚜虫抗性 QTL 中发现,PdaWRKY4 是主要的显性基因,其启动子上的 9-bp 缺失会导致抗性表型。具体来说,PdaWRKY4 通过促进 PdaCYP716A1 介导的抗蚜虫代谢物 betulin 的生物合成来调节蚜虫抗性。此外,我们还利用基因组设计开发了一套育种流程,用于快速、精确地培育抗蚜虫桃子。总之,本研究发现了一种新型抗蚜虫基因,并为抗性水果栽培品种的开发提供了基因组设计方面的启示。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Journal of Integrative Plant Biology
Journal of Integrative Plant Biology 生物-生化与分子生物学
CiteScore
18.00
自引率
5.30%
发文量
220
审稿时长
3 months
期刊介绍: Journal of Integrative Plant Biology is a leading academic journal reporting on the latest discoveries in plant biology.Enjoy the latest news and developments in the field, understand new and improved methods and research tools, and explore basic biological questions through reproducible experimental design, using genetic, biochemical, cell and molecular biological methods, and statistical analyses.
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