数字农科院2.0

Pan-Genome Analysis Reveals the Abundant Gene Presence/Absence Variations Among Different Varieties of Melon and Their Influence on Traits

文献类型： 外文期刊

作者： Yang Sun; Jing Wang; Yan Li; Bin Jiang; Xu Wang; Wen-Hui Xu; Yu-Qing Wang; Pei-Tao Zhang; Yong-Jun Zhang; Xiang-Dong Kong

作者机构：

关键词： domestication;GWAS;improvement;melon;pan-genome;presence/absence variation (PAV);resistance gene analogs (RGAs)

期刊名称： Frontiers in Plant Science

ISSN： 1664-462X

年卷期： 2022 年 13 卷

页码：

收录情况： SCIE（2022版）

摘要： Melon (Cucumismelo L.) 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. Copyright © 2022 Sun, Wang, Li, Jiang, Wang, Xu, Wang, Zhang, Zhang and Kong.

分类号：

  • 相关文献

[1]Identification of natural allelic variation in TTL1 controlling thermotolerance and grain size by a rice super pan-genome. Lin, Yarong,Zhu, Yiwang,Cui, Yuchao,Qian, Hongge,Yuan, Qiaoling,Chen, Rui,Lin, Yan,Chen, Jianmin,Zhou, Xishi,Shi, Chuanlin,He, Huiying,Hu, Taijiao,Gu, Chenbo,Yu, Xiaoman,Zhu, Xiying,Wang, Yuexing,Qian, Qian,Zhang, Cuijun,Wang, Feng,Shang, Lianguang. 2023

[2]Pan-genome analysis of 13 Spinacia accessions reveals structural variations associated with sex chromosome evolution and domestication traits in spinach. She, Hongbing,Liu, Zhiyuan,Xu, Zhaosheng,Zhang, Helong,Wu, Jian,Cheng, Feng,Wang, Xiaowu,Qian, Wei. 2024

[3]A special short-wing petal faba genome and genetic dissection of floral and yield-related traits accelerate breeding and improvement of faba bean. Liu, Rong,Hu, Chaoqin,Gao, Dan,Li, Mengwei,Yuan, Xingxing,Chen, Liyang,Shu, Qin,Wang, Zonghe,Yang, Xin,Dai, Zhengming,Yu, Haitian,Yang, Feng,Zheng, Aiqing,Lv, Meiyuan,Garg, Vanika,Jiao, Chengzhi,Zhang, Hongyan,Hou, Wanwei,Teng, Changcai,Zhou, Xianli,Du, Chengzhang,Xiang, Chao,Xu, Dongxu,Tang, Yongsheng,Chitikineni, Annapurna,Duan, Yinmei,Maalouf, Fouad,Agrawal, Shiv Kumar,Wei, Libin,Zhao, Na,Barmukh, Rutwik,Li, Xiang,Wang, Dong,Ding, Hanfeng,Liu, Yujiao,Chen, Xin,Varshney, Rajeev K.,He, Yuhua,Zong, Xuxiao,Yang, Tao. 2025

[4]New insights into the novel sequences of the chicken pan-genome by liquid chip. Fei Wang,Yingwei Guo,Zhenyu Liu,Qiao Wang,Yu Jiang,Guiping Zhao. 2022

[5]Pan-genome of Citrullus genus highlights the extent of presence/absence variation during domestication and selection. Yang Sun,Dou Rong Kou,Yan Li,Jiang Ping Ni,Jing Wang,Yong Mei Zhang,Qing Nan Wang,Bin Jiang,Xu Wang,Yue Xin Sun,Xin Tong Xu,Xiao Juan Tan,Yong Jun Zhang,Xiang dong Kong. 2023

[6]Natural variation of OsML1, a mitochondrial transcription termination factor, contributes to mesocotyl length variation in rice. Meng, Yun,Zhan, Junhui,Liu, Hongyan,Liu, Jindong,Wang, Yamei,Guo, Zhan,He, Sang,Nie, Lixiao,Kohli, Ajay,Ye, Guoyou. 2023

[7]Large-scale genomic and transcriptomic analyses elucidate the genetic basis of high meat yield in chickens. Tan, Xiaodong,Liu, Ranran,Zhao, Di,He, Zhengxiao,Li, Wei,Zheng, Maiqing,Li, Qinghe,Wang, Qiao,Liu, Dawei,Feng, Furong,Zhu, Dan,Zhao, Guiping,Wen, Jie. 2024

[8]越瓜. 张德纯. 2008

[9]甜瓜. 张德纯. 2008

[10]菜瓜. 张德纯. 2008

[11]李宝聚博士诊病手记(五十八)甜瓜白粉病的发生规律及防治技术. 所凤阅,卯婷婷,谷祖敏,王怀松,李宝聚. 2013

[12]李宝聚博士诊病手记(四十一)瓜类细菌性果斑病的发生规律及防治. 范晓溪,金伟,周慧敏,李宝聚. 2011

[13]Genetic diversity within Oryza rufipogon germplasms preserved in Chinese field gene banks of wild rice as revealed by microsatellite markers. Zhang, Chi-Hong,Li, Dao-Yuan,Pan, Da-Jian,Jia, Ji-Zeng,Dong, Yu-Shen.

[14]Brief Introduction to the Development of Chinese Dairy Buffalo Industry. Yang, Bing-Zhuang,Liang, Xiang-Wei,Qin, Jing,Yang, Cheng-Jian,Shang, Jiang-Hua. 2013

[15]Improvement of Water Balance Model Based on Wireless Water Sensor. Li Shijuan,Li Shijuan. 2015

[16]Genetic Analysis in Maize Foundation Parents with Mapping Population and Testcross Population: Ye478 Carried More Favorable Alleles and Using QTL Information Could Improve Foundation Parents. Hou, Xianbin,Xiao, Qianlin,Yi, Qiang,Bian, Shaowei,Hu, Yufeng,Huang, Yubi,Liu, Hanmei,Zhang, Junjie,Hao, Xiaoqin,Cheng, Weidong,Li, Yu. 2016

[17]Resequencing of white jute (Corchorus capsularis L.) provides insights into genome diversity, population historical dynamics, and improvement. Chen, Jiquan,Li, Alei,Tang, Qing,Deng, Canhui,Zhang, Xiaoyu,Xu, Ying,Cheng, Chaohua,Dai, Zhigang,Su, Jianguang,Yang, Zemao. 2023

[18]Rice grain quality: Where we are and where to go?. Jihua Cheng,Xin Lin,Yu Long,Qin Zeng,Kaijun Zhao,Peisong Hu,Junhua Peng. 2022

[19]The genetic basis and improvement of photosynthesis in tomato. Dong, Haiqiang,Li, Fangman,Xuan, Xiaoxiao,Ahiakpa, John Kojo,Tao, Jinbao,Zhang, Xingyu,Ge, Pingfei,Wang, Yaru,Gai, Wenxian,Zhang, Yuyang. 2025

[20]Uncovering the breeding contribution of transposable elements from landraces to improved varieties through pan-genome-wide analysis in rice. Li, Xiaoxia,Dai, Xiaofan,He, Huiying,Chen, Wu,Qian, Qian,Shang, Lianguang,Guo, Longbiao,He, Wenchuang. 2025

作者其他论文 更多>>