Sun Yang, Wang Jing, Li Yan, Jiang Bin, Wang Xu, Xu Wen-Hui, Wang Yu-Qing, Zhang Pei-Tao, Zhang Yong-Jun, Kong Xiang-Dong
Key Laboratory for Conservation and Use of Important Biological Resources of Anhui Province, Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases, College of Life Sciences, Anhui Normal University, Wuhu, China.
Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, China.
Front Plant Sci. 2022 Mar 25;13:835496. doi: 10.3389/fpls.2022.835496. eCollection 2022.
Melon () is an important vegetable crop that has been subjected to domestication and improvement. Several varieties of melons with diverse phenotypes have been produced. In this study, we constructed a melon pan-genome based on 297 accessions comprising 168 Mb novel sequences and 4,325 novel genes. Based on the results, there were abundant genetic variations among different melon groups, including 364 unfavorable genes in the IMP_A vs. LDR_A group, 46 favorable genes, and 295 unfavorable genes in the IMP_M vs. LDR_M group. The distribution of 709 resistance gene analogs (RGAs) was also characterized across 297 melon lines, of which 603 were core genes. Further, 106 genes were found to be variable, 55 of which were absent in the reference melon genome. Using gene presence/absence variation (PAV)-based genome-wide association analysis (GWAS), 13 gene PAVs associated with fruit length, fruit shape, and fruit width were identified, four of which were located in pan-genome additional contigs.
甜瓜是一种重要的蔬菜作物，已经历了驯化和改良。现已培育出多种具有不同表型的甜瓜品种。在本研究中，我们基于297份种质构建了甜瓜泛基因组，其中包含1.68亿碱基对的新序列和4325个新基因。结果表明，不同甜瓜群体间存在丰富的遗传变异，包括IMP_A与LDR_A组中的364个不利基因、IMP_M与LDR_M组中的46个有利基因和295个不利基因。还对297份甜瓜品系中709个抗病基因类似物（RGA）的分布进行了表征，其中603个为核心基因。此外，发现106个基因存在变异，其中55个在参考甜瓜基因组中不存在。利用基于基因存在/缺失变异（PAV）的全基因组关联分析（GWAS），鉴定出13个与果实长度、果实形状和果实宽度相关的基因PAV，其中4个位于泛基因组的附加重叠群中。
