Identification of Candidate Genes Related to Fruit Traits Using InDel Markers of Tomato (Solanum lycopersicum)
DONG Jie1, WANG Na2, HUO Shun-Li1, LI Ning2, YU Qing-Hui2,*
1 Bayingolin Mongolian Autonomous Prefecture Academy of Agricultural Sciences, Bayingolin Mongolian Autonomous Prefecture 841099, China; 2 Xinjiang Academy of Agricultural Sciences, Urumqi 830091, China
Abstract：As an annual herbaceous plant, tomato (Solanum lycopersicum) is rich in nutrients, and with the change in market demand, breeding high-yield and high-quality tomato varieties has become one of the main goals of breeding. The number of seeds, soluble solids, transverse diameter and longitudinal diameter of tomato fruit are of great significance to improve the yield and quality of tomato fruit. This study was conducted using insertion/deletion (InDel) markers to locate QTLs for tomato fruit seed number, soluble solids, transverse diameter and longitudinal diameter, and candidate genes were identified based on RNA-seq. In this study, F2 populations of 60 lines were obtained by crossbreeding 'Tomato microflora', which has low fruit seed number and soluble solids content and small transverse and longitudinal diameters, and 'M82' was used as the female parent, which has high fruit seed number and soluble solids content and large transverse and longitudinal diameters. Correlation and cluster analysis were carried out through the investigation of phenotypic data. Based on tomato genome information, candidate genes related to tomato fruit traits were explored. The results showed that the variation coefficients of F2 tomato material seed number, soluble solid content, longitudinal diameter and transverse diameter were all greater than 10%, and skewness and kurtosis showed that these 4 characteristics were normally distributed. Seed number was positively correlated with soluble solid content, longitudinal diameter and transverse diameter, and soluble solid content was negatively correlated with longitudinal diameter and transverse diameter. Longitudinal and transverse diameters were positively correlated. Twenty-five parental polymorphic InDel markers were detected in 62 tomato samples, and a total of 149 sites were detected. Unweighted pair-group method with arithmetic means (UPGMA) cluster analysis showed that 62 tomato samples could be divided into 4 types when the genetic similarity coefficient was 0.70~0.75. Based on 25 polymorphic InDel markers, a total of 5 QTLs were obtained, 4 candidate genes were mined, and their expression patterns were provided by RNA-seq. Solyc12g027770 was located in both seed number and soluble solid. This study provides reference for genetic analysis, molecular mechanism research and the development of molecular markers of seed number, soluble solids and longitudinal diameter of tomato fruit.
董洁, 王娜, 火顺利, 李宁, 余庆辉. 基于InDel标记挖掘与番茄果实性状相关的候选基因[J]. 农业生物技术学报, 2024, 32(7): 1494-1503.
DONG Jie, WANG Na, HUO Shun-Li, LI Ning, YU Qing-Hui. Identification of Candidate Genes Related to Fruit Traits Using InDel Markers of Tomato (Solanum lycopersicum). 农业生物技术学报, 2024, 32(7): 1494-1503.
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