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Construction and integration of genetic linkage maps from three multi-parent advanced generation inter-cross populations in rice

文献类型： 外文期刊

作者： Qu, Pingping 1 ; Shi, Jinhui 1 ; Chen, Tianxiao 2 ; Chen, Kai 2 ; Shen, Congcong 2 ; Wang, Jiankang 1 ; Zhao, Xiangqia 1 ;

作者机构： 1.Chinese Acad Agr Sci, Natl Key Facil Crop Gene Resources & Genet Improv, Inst Crop Sci, Beijing 100081, Peoples R China

2.Chinese Acad Agr Sci, Agr Genom Inst, Shenzhen 518210, Peoples R China

3.Zhejiang Acad Agr Sci, Inst Crop Sci & Nucl Technol Utilizat, Hangzhou 310021, Peoples R China

4.Int Rice Res Inst, Genet & Biotechnol Div, Banos, Laguna, Philippines

关键词： Multi-parent population; Quantitative trait locus (QTL); Linkage map; QTL mapping; Integrated map

期刊名称：RICE （ 影响因子：4.783； 五年影响因子：5.23 ）

ISSN： 1939-8425

年卷期： 2020 年 13 卷 1 期

页码：

收录情况： SCI

摘要： Background The construction of genetic maps based on molecular markers is a crucial step in rice genetic and genomic studies. Pure lines derived from multiple parents provide more abundant genetic variation than those from bi-parent populations. Two four-parent pure-line populations (4PL1 and 4PL2) and one eight-parent pure-line population (8PL) were developed from eight homozygous indica varieties of rice by the International Rice Research Institute (IRRI). To the best of our knowledge, there have been no reports on linkage map construction and their integration in multi-parent populations of rice. Results We constructed linkage maps for the three multi-parent populations and conducted quantitative trait locus (QTL) mapping for heading date (HD) and plant height (PH) based on the three maps by inclusive composite interval mapping (ICIM). An integrated map was built from the three individual maps and used for QTL projection and meta-analysis. QTL mapping of the three populations was also conducted based on the integrated map, and the mapping results were compared with those from meta-analysis. The three linkage maps developed for 8PL, 4PL1 and 4PL2 had 5905, 4354 and 5464 bins and were 1290.16, 1720.01 and 1560.30 cM in length, respectively. The integrated map was 3022.08 cM in length and contained 10,033 bins. Based on the three linkage maps, 3, 7 and 9 QTLs were detected for HD while 6, 9 and 10 QTLs were detected for PH in 8PL, 4PL1 and 4PL2, respectively. In contrast, 19 and 25 QTLs were identified for HD and PH by meta-analysis using the integrated map, respectively. Based on the integrated map, 5, 9, and 10 QTLs were detected for HD while 3, 10, and 12 QTLs were detected for PH in 8PL, 4PL1 and 4PL2, respectively. Eleven of these 49 QTLs coincided with those from the meta-analysis. Conclusions In this study, we reported the first rice linkage map constructed from one eight-parent recombinant inbred line (RIL) population and the first integrated map from three multi-parent populations, which provide essential information for QTL linkage mapping, meta-analysis, and map-based cloning in rice genetics and breeding.

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