Talukder Zahirul I, Gong Li, Hulke Brent S, Pegadaraju Venkatramana, Song Qijian, Schultz Quentin, Qi Lili
Department of Plant Sciences, North Dakota State University, Fargo, North Dakota, United States of America.
Department of Plant Pathology, North Dakota State University, Fargo, North Dakota, United States of America.
PLoS One. 2014 Jul 11;9(7):e98628. doi: 10.1371/journal.pone.0098628. eCollection 2014.
A high-resolution genetic map of sunflower was constructed by integrating SNP data from three F2 mapping populations (HA 89/RHA 464, B-line/RHA 464, and CR 29/RHA 468). The consensus map spanned a total length of 1443.84 cM, and consisted of 5,019 SNP markers derived from RAD tag sequencing and 118 publicly available SSR markers distributed in 17 linkage groups, corresponding to the haploid chromosome number of sunflower. The maximum interval between markers in the consensus map is 12.37 cM and the average distance is 0.28 cM between adjacent markers. Despite a few short-distance inversions in marker order, the consensus map showed high levels of collinearity among individual maps with an average Spearman's rank correlation coefficient of 0.972 across the genome. The order of the SSR markers on the consensus map was also in agreement with the order of the individual map and with previously published sunflower maps. Three individual and one consensus maps revealed the uneven distribution of markers across the genome. Additionally, we performed fine mapping and marker validation of the rust resistance gene R12, providing closely linked SNP markers for marker-assisted selection of this gene in sunflower breeding programs. This high resolution consensus map will serve as a valuable tool to the sunflower community for studying marker-trait association of important agronomic traits, marker assisted breeding, map-based gene cloning, and comparative mapping.
通过整合来自三个F2作图群体（HA 89/RHA 464、B系/RHA 464和CR 29/RHA 468）的SNP数据，构建了向日葵的高分辨率遗传图谱。该整合图谱全长1443.84厘摩，由5019个源自RAD标签测序的SNP标记和118个公开可用的SSR标记组成，这些标记分布在17个连锁群中，与向日葵的单倍体染色体数相对应。整合图谱中标记间的最大间隔为12.37厘摩，相邻标记间的平均距离为0.28厘摩。尽管在标记顺序上存在一些短距离倒位，但整合图谱显示各单张图谱之间具有高度共线性，全基因组的平均斯皮尔曼等级相关系数为0.972。整合图谱上SSR标记的顺序也与单张图谱的顺序以及先前发表的向日葵图谱一致。三张单张图谱和一张整合图谱揭示了标记在基因组中的分布不均。此外，我们对锈病抗性基因R12进行了精细定位和标记验证，为向日葵育种计划中该基因的标记辅助选择提供了紧密连锁的SNP标记。这一高分辨率整合图谱将成为向日葵研究群体研究重要农艺性状的标记-性状关联、标记辅助育种、基于图谱的基因克隆以及比较作图的宝贵工具。
