Zhou Ling, Wang Shi-Bo, Jian Jianbo, Geng Qing-Chun, Wen Jia, Song Qijian, Wu Zhenzhen, Li Guang-Jun, Liu Yu-Qin, Dunwell Jim M, Zhang Jin, Feng Jian-Ying, Niu Yuan, Zhang Li, Ren Wen-Long, Zhang Yuan-Ming
State Key Laboratory of Crop Genetics and Germplasm Enhancement, National Center for Soybean Improvement, Jiangsu Collaborative Innovation Center for Modern Crop Production, Nanjing Agricultural University, Nanjing 210095, China.
BGI-Shenzhen, Shenzhen 518083, China.
Sci Rep. 2015 Mar 23;5:9350. doi: 10.1038/srep09350.
Flowering time and seed size are traits related to domestication. However, identification of domestication-related loci/genes of controlling the traits in soybean is rarely reported. In this study, we identified a total of 48 domestication-related loci based on RAD-seq genotyping of a natural population comprising 286 accessions. Among these, four on chromosome 12 and additional two on chromosomes 11 and 15 were associated with flowering time, and four on chromosomes 11 and 16 were associated with seed size. Of the five genes associated with flowering time and the three genes associated with seed size, three genes Glyma11g18720, Glyma11g15480 and Glyma15g35080 were homologous to Arabidopsis genes, additional five genes were found for the first time to be associated with these two traits. Glyma11g18720 and Glyma05g28130 were co-expressed with five genes homologous to flowering time genes in Arabidopsis, and Glyma11g15480 was co-expressed with 24 genes homologous to seed development genes in Arabidopsis. This study indicates that integration of population divergence analysis, genome-wide association study and expression analysis is an efficient approach to identify candidate domestication-related genes.
开花时间和种子大小是与驯化相关的性状。然而，关于大豆中控制这些性状的驯化相关位点/基因的鉴定报道较少。在本研究中，我们基于对包含286份材料的自然群体进行RAD-seq基因分型，共鉴定出48个驯化相关位点。其中，12号染色体上的4个以及11号和15号染色体上另外2个与开花时间相关，11号和16号染色体上的4个与种子大小相关。在与开花时间相关的5个基因和与种子大小相关的3个基因中，Glyma11g18720、Glyma11g15480和Glyma15g35080这3个基因与拟南芥基因同源，另外5个基因是首次发现与这两个性状相关。Glyma11g18720和Glyma05g28130与拟南芥中5个开花时间基因同源的基因共表达，Glyma11g15480与拟南芥中24个种子发育基因同源的基因共表达。本研究表明，群体分化分析、全基因组关联研究和表达分析相结合是鉴定驯化相关候选基因的有效方法。
