A genomic variation map provides insights into potato evolution and key agronomic traits.

IF 17.1 1区生物学 Q1 BIOCHEMISTRY & MOLECULAR BIOLOGY

Molecular Plant Pub Date : 2025-04-07 Epub Date: 2025-01-23 DOI:10.1016/j.molp.2025.01.016

Qun Lian, Yingying Zhang, Jinzhe Zhang, Zhen Peng, Weilun Wang, Miru Du, Hongbo Li, Xinyan Zhang, Lin Cheng, Ran Du, Zijian Zhou, Zhenqiang Yang, Guohui Xin, Yuanyuan Pu, Zhiwen Feng, Qian Wu, Guochao Xuanyuan, Shunbuer Bai, Rong Hu, Sónia Negrão, Glenn J Bryan, Christian W B Bachem, Yongfeng Zhou, Ruofang Zhang, Yi Shang, Sanwen Huang, Tao Lin, Jianjian Qi

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引用次数: 0

Abstract

Hybrid potato breeding based on diploid inbred lines is transforming the way of genetic improvement of this staple food crop, which requires a deep understanding of potato domestication and differentiation. In the present study, we resequenced 314 diploid wild and landrace accessions to generate a variome map of 47,203,407 variants. Using the variome map, we discovered the reshaping of tuber transcriptome during potato domestication, characterized genome-wide differentiation between landrace groups Stenotomum and Phureja. We identified a jasmonic acid biosynthetic gene possibly affecting the tuber dormancy period. Genome-wide association studies revealed a UDP-glycosyltransferase gene for the biosynthesis of anti-nutritional steroidal glycoalkaloids (SGAs), and a Dehydration Responsive Element Binding (DREB) transcription factor conferring increased average tuber weight. In addition, genome similarity and group-specific SNP analyses indicated that tetraploid potatoes originated from the diploid Solanum tuberosum group Stenotomum. These findings shed light on the evolutionary trajectory of potato domestication and improvement, providing a solid foundation for advancing hybrid potato-breeding practices.

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基因组变异图提供了对马铃薯进化和关键农艺性状的深入了解。

基于二倍体自交系的杂交马铃薯育种正在改变这一主要粮食作物的遗传改良方式，这需要对马铃薯的驯化和分化有深刻的认识。在这里，我们对314个二倍体野生和地方品种进行了重测序，生成了47,203,407个变异的变异图谱。利用变异图谱，我们发现了马铃薯在驯化过程中块茎转录组的重塑，表征了地方品种组Stenotomum和Phureja之间的全基因组分化，并鉴定了一个可能影响块茎休眠的茉莉酸生物合成基因。全基因组关联研究发现了一个用于抗营养甾体糖生物碱（SGAs）生物合成的udp -糖基转移酶基因，以及一个脱水反应元件结合（DREB）转录因子，使块茎平均重量增加。此外，基因组相似性和群体特异性SNP分析表明，四倍体马铃薯起源于二倍体S. tuberosum类群Stenotomum。这些发现揭示了马铃薯驯化和改良的进化轨迹，为推进杂交马铃薯育种实践提供了坚实的基础。

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

Molecular Plant 植物科学-生化与分子生物学

CiteScore

37.60

自引率

2.20%

发文量

1784

审稿时长

1 months

期刊介绍： Molecular Plant is dedicated to serving the plant science community by publishing novel and exciting findings with high significance in plant biology. The journal focuses broadly on cellular biology, physiology, biochemistry, molecular biology, genetics, development, plant-microbe interaction, genomics, bioinformatics, and molecular evolution. Molecular Plant publishes original research articles, reviews, Correspondence, and Spotlights on the most important developments in plant biology.