Telomere-to-telomere genome assembly of melon(Cucumis melo L.var.inodorus)provides a high-quality reference for meta-QTL analysis of important traits
作者机构：National Key Laboratory for Germplasm Innovation&Utilization of Horticultural CropsCollege of Horticulture and Forestry SciencesHuazhong Agricultural UniversityWuhan 430070China Hami-melon Research CenterXinjiang Academy of Agricultural SciencesUrumqi 830091China Hainan Sanya Experimental Center for Crop BreedingXinjiang Academy of Agricultural SciencesSanya 572014China
出 版 物：《Horticulture Research》 (园艺研究（英文）)
年 卷 期：2023年第10卷第10期
页 面：202-214页
核心收录：
学科分类：0710[理学-生物学] 09[农学] 0902[农学-园艺学] 090201[农学-果树学]
基 金：This work was supported by the Key R&D Project of Hubei Province(2021BBA101) the Fundamental Research Funds for the Central Universities(2662020YLPY024) the Key R&D Project of Xinjiang Academy of Agricultural Sciences(xjkcpy-2022006) the Tianshan Innovation Team(2022D14015) the China Agriculture Research System(CARS-25).
摘 要：Melon is an important horticultural crop with extensive diversity in many horticultural groups.To explore its genomic diversity,it is necessary to assemble more high-quality complete genomes from different melon accessions.Meanwhile,a large number of QTLs have been mapped in several studies.Integration of the published QTLs onto a complete genome can provide more accurate information for candidate gene cloning.To address these problems,a telomere-to-telomere(T2T)genome of the elite melon landrace Kuizilikjiz(Cucumis melo L.var.inodorus)was de novo assembled and all the published QTLs were projected onto it in this study.The results showed that a high-quality Kuizilikjiz genome with the size of 379.2 Mb and N50 of 31.7 Mb was de novo assembled using the combination of short reads,PacBio high-fidelity long reads,Hi-C data,and a high-density genetic map.Each chromosome contained the centromere and telomeres at both ends.A large number of structural variations were observed between Kuizilikjiz and the other published genomes.A total of 1294 QTLs published in 67 studies were collected and projected onto the T2T genome.Several clustered,co-localized,and overlapped QTLs were determined.Furthermore,20 stable meta-QTLs were identified,which significantly reduced the mapping intervals of the initial QTLs and greatly facilitated identification of the candidate genes.Collectively,the T2T genome assembly together with the numerous projected QTLs will not only broaden the high-quality genome resources but also provide valuable and abundant QTL information for cloning the genes controlling important traits in melon.
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