新疆农业科学院Qinghui Yu，中国农业科学院Hongbo Li和Huan Wang共同合作，近期取得重要工作进展。他们研究利用超级泛基因组分析，突出了野生和栽培番茄物种的基因组多样性和结构变异。相关研究成果2023年4月6日在线发表于《自然—遗传学》杂志上。

据介绍，有效利用野生近缘种是克服遗传基础狭窄的栽培番茄遗传改良挑战的关键。然而，目前还需要更多的努力去破译番茄野生物种高质量基因组。

研究人员报道了来自九个野生物种和两个栽培材料的染色体规模的番茄基因组，这是番茄分支茄科番茄的代表。结合两个先前发布的基因组，研究人员阐明了番茄的系统发育，并构建了一个全基因组的基因库。研究人员揭示了结构变异的概况，并为番茄野生亲缘关系的基因组多样性提供了入口，从而能够发现具有可能提高现代栽培番茄产量的野生番茄基因。构建基于图谱的基因组可以进行基于结构变异的全基因组关联研究，识别与番茄风味相关性状和果实代谢产物相关的许多信号。

总之，番茄超级泛基因组资源将加快这种全球重要作物的生物学研究和育种。

附：英文原文

Title: Super-pangenome analyses highlight genomic diversity and structural variation across wild and cultivated tomato species

Author: Li, Ning, He, Qiang, Wang, Juan, Wang, Baike, Zhao, Jiantao, Huang, Shaoyong, Yang, Tao, Tang, Yaping, Yang, Shengbao, Aisimutuola, Patiguli, Xu, Ruiqiang, Hu, Jiahui, Jia, Chunping, Ma, Kai, Li, Zhiqiang, Jiang, Fangling, Gao, Jie, Lan, Haiyan, Zhou, Yongfeng, Zhang, Xinyan, Huang, Sanwen, Fei, Zhangjun, Wang, Huan, Li, Hongbo, Yu, Qinghui

Issue&Volume: 2023-04-06

Abstract: Effective utilization of wild relatives is key to overcoming challenges in genetic improvement of cultivated tomato, which has a narrow genetic basis; however, current efforts to decipher high-quality genomes for tomato wild species are insufficient. Here, we report chromosome-scale tomato genomes from nine wild species and two cultivated accessions, representative of Solanum section Lycopersicon, the tomato clade. Together with two previously released genomes, we elucidate the phylogeny of Lycopersicon and construct a section-wide gene repertoire. We reveal the landscape of structural variants and provide entry to the genomic diversity among tomato wild relatives, enabling the discovery of a wild tomato gene with the potential to increase yields of modern cultivated tomatoes. Construction of a graph-based genome enables structural-variant-based genome-wide association studies, identifying numerous signals associated with tomato flavor-related traits and fruit metabolites. The tomato super-pangenome resources will expedite biological studies and breeding of this globally important crop.

DOI: 10.1038/s41588-023-01340-y

Source: https://www.nature.com/articles/s41588-023-01340-y