Development and validation of InDel markers for identification of QTL underlying flowering time in soybean  

作　　者：Jialin Wang Lingping Kong Kanchao Yu Fengge Zhang Xinyi Shi Yanping Wang Haiyang Nan Xiaohui Zhao Sijia Lu Dong Cao Xiaoming Li Chao Fang Feifei Wang Tong Su Shichen Li Xiaohui Yuan Baohui Liu Fanjiang Kong 

机构地区：[1]The Key Laboratory of Soybean Molecular Design Breeding,Northeast Institute of Geography and Agroecology,Chinese Academy of Sciences,Harbin 150081,Heilongjiang,China [2]School of Life Sciences,Guangzhou University,Guangzhou 510006,Guangdong,China [3]Qiqihar Branch of Heilongjiang Academy of Agricultural Sciences,Qiqihar 161006,Heilongjiang,China [4]Mudanjiang Branch of Heilongjiang Academy of Agricultural Sciences,Mudanjiang 157041,Heilongjiang,China [5]University of Chinese Academy of Sciences,Beijing 100049,China [6]College of Agriculture,Northeast Agricultural University,Harbin 150030,Heilongjiang,China [7]The Key Laboratory of Soybean Molecular Design Breeding,Northeast Institute of Geography and Agroecology,Chinese Academy of Sciences,Harbin 150081,Heilongjiang,China.

出　　处：《The Crop Journal》2018年第2期126-135,共10页作物学报（英文版）

基　　金：supported by National Natural Science Foundation of China (31430065, 31571686, 31371643, 31071445);National Key Research and Development Program (2016YFD0100401);“Strategic Priority Research Program” of the Chinese Academy of Sciences (XDA08030108);the Open Foundation of the Key Laboratory of Soybean Molecular Design Breeding of Chinese Academy of Sciences;“One-hundred Talents” Startup Funds from Chinese Academy of Sciences;Scientific Research Foundation for Returned Chinese Scholars of Heilongjiang Province, China (LC201417);the Science Foundation for Creative Research Talents of Harbin Science and Technology Bureau, China (2014RFQYJ046)

摘　　要：Soybean [Glycine max(L.) Merrill] is a major plant source of protein and oil. An accurate and well-saturated molecular linkage map is a prerequisite for forward genetic studies of gene function and for modern breeding for many useful agronomic traits. Next-generation sequence data available in public databases provides valuable information and offers new insights for rapid and efficient development of molecular markers. In this study, we attempted to show the feasibility and facility of using genomic resequencing data as raw material for identifying putative In Del markers. First, we identified 17,613 In Del sites among 56 soybean accessions and obtained 12,619 primer pairs. Second, we constructed a genetic map with a random subset of 2841 primer pairs and aligned 300 polymorphic markers with the 20 consensus linkage groups(LG). The total genetic distance was 2347.3 c M and the number of mapped markers per LG ranged from 10 to 23 with an average of 15 markers. The largest and smallest genetic distances between adjacent markers were 52.3 c M and 0.1 cM, respectively. Finally, we validated the genetic map constructed by newly developed In Del markers by QTL analysis of days to flowering(DTF) under different environments. One major QTL(qDTF4) and four minor QTL(qDTF20, qDTF13, qDTF12,and q DTF11) on 5 LGs were detected. These results demonstrate the utility of the In Del markers developed in this work for map-based cloning and molecular breeding in soybean.Soybean [Glycine max(L.) Merrill] is a major plant source of protein and oil. An accurate and well-saturated molecular linkage map is a prerequisite for forward genetic studies of gene function and for modern breeding for many useful agronomic traits. Next-generation sequence data available in public databases provides valuable information and offers new insights for rapid and efficient development of molecular markers. In this study, we attempted to show the feasibility and facility of using genomic resequencing data as raw material for identifying putative In Del markers. First, we identified 17,613 In Del sites among 56 soybean accessions and obtained 12,619 primer pairs. Second, we constructed a genetic map with a random subset of 2841 primer pairs and aligned 300 polymorphic markers with the 20 consensus linkage groups(LG). The total genetic distance was 2347.3 c M and the number of mapped markers per LG ranged from 10 to 23 with an average of 15 markers. The largest and smallest genetic distances between adjacent markers were 52.3 c M and 0.1 cM, respectively. Finally, we validated the genetic map constructed by newly developed In Del markers by QTL analysis of days to flowering(DTF) under different environments. One major QTL(qDTF4) and four minor QTL(qDTF20, qDTF13, qDTF12,and q DTF11) on 5 LGs were detected. These results demonstrate the utility of the In Del markers developed in this work for map-based cloning and molecular breeding in soybean.

关 键 词：SOYBEAN RESEQUENCING data INDEL MARKERS Genetic map QTL analysis 

分 类 号：S[农业科学]