Liu Xiaoxi, Geng Xiaolin, Zhang Hongchi, Shen Huolin, Yang Wencai
Beijing Key Laboratory of Growth and Developmental Regulation for Protected Vegetable Crops, Department of Vegetable Science, China Agricultural UniversityBeijing, China.
Front Plant Sci. 2017 Jul 19;8:1269. doi: 10.3389/fpls.2017.01269. eCollection 2017.
Tomato () fruit weight (FW), soluble solid content (SSC), fruit shape and fruit color are crucial for yield, quality and consumer acceptability. In this study, a 192 accessions tomato association panel comprising a mixture of wild species, cherry tomato, landraces, and modern varieties collected worldwide was genotyped with 547 InDel markers evenly distributed on 12 chromosomes and scored for FW, SSC, fruit shape index (FSI), and color parameters over 2 years with three replications each year. The association panel was sorted into two subpopulations. Linkage disequilibrium ranged from 3.0 to 47.2 Mb across 12 chromosomes. A set of 102 markers significantly ( < 1.19-1.30 × 10) associated with SSC, FW, fruit shape, and fruit color was identified on 11 of the 12 chromosomes using a mixed linear model. The associations were compared with the known gene/QTLs for the same traits. Genetic analysis using F populations detected 14 and 4 markers significantly ( < 0.05) associated with SSC and FW, respectively. Some loci were commonly detected by both association and linkage analysis. Particularly, one novel locus for FW on chromosome 4 detected by association analysis was also identified in F populations. The results demonstrated that association mapping using limited number of InDel markers and a relatively small population could not only complement and enhance previous QTL information, but also identify novel loci for marker-assisted selection of fruit traits in tomato.
番茄的果实重量（FW）、可溶性固形物含量（SSC）、果实形状和果实颜色对于产量、品质及消费者接受度至关重要。在本研究中，一个由192份材料组成的番茄关联群体，包含世界各地收集的野生种、樱桃番茄、地方品种和现代品种的混合材料，利用均匀分布于12条染色体上的547个InDel标记进行基因分型，并在两年中每年进行三次重复，对FW、SSC、果实形状指数（FSI）和颜色参数进行评分。该关联群体被分为两个亚群。12条染色体上的连锁不平衡范围为3.0至47.2 Mb。使用混合线性模型在12条染色体中的11条上鉴定出一组102个与SSC、FW、果实形状和果实颜色显著关联（<1.19 - 1.30×10）的标记。将这些关联与相同性状的已知基因/QTL进行比较。利用F群体进行的遗传分析分别检测到14个和4个与SSC和FW显著关联（<0.05）的标记。一些位点在关联分析和连锁分析中均被检测到。特别地，通过关联分析在4号染色体上检测到的一个FW新位点在F群体中也被鉴定出来。结果表明，使用有限数量的InDel标记和相对较小的群体进行关联作图，不仅可以补充和增强先前的QTL信息，还能够鉴定出用于番茄果实性状标记辅助选择的新位点。
