Mapping 49 quantitative trait loci at high resolution through sequencing-based genotyping of rice recombinant inbred lines |
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| Authors: | Lu Wang Ahong Wang Xuehui Huang Qiang Zhao Guojun Dong Qian Qian Tao Sang Bin Han |
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| Institution: | (1) National Center for Gene Research and Institute of Plant Physiology and Ecology, Shanghai Institutes of Biological Sciences, Chinese Academy of Sciences, Shanghai, 200233, China;(2) State Key Laboratory of Rice Biology, China National Rice Research Institute, Chinese Academy of Agricultural Sciences, Hangzhou, 310006, China;(3) Department of Plant Biology, Michigan State University, East Lansing, MI 48824, USA;(4) Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing, 100029, China; |
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| Abstract: | Mapping chromosome regions responsible for quantitative phenotypic variation in recombinant populations provides an effective
means to characterize the genetic basis of complex traits. We conducted a quantitative trait loci (QTL) analysis of 150 rice
recombinant inbred lines (RILs) derived from a cross between two cultivars, Oryza sativa ssp. indica cv. 93-11 and Oryza sativa ssp. japonica cv. Nipponbare. The RILs were genotyped through next-generation sequencing, which accurately determined the recombination
breakpoints and provided a new type of genetic markers, recombination bins, for QTL analysis. We detected 49 QTL with phenotypic
effect ranging from 3.2 to 46.0% for 14 agronomics traits. Five QTL of relatively large effect (14.6–46.0%) were located on
small genomic regions, where strong candidate genes were found. The analysis using sequencing-based genotyping thus offers
a powerful solution to map QTL with high resolution. Moreover, the RILs developed in this study serve as an excellent system
for mapping and studying genetic basis of agricultural and biological traits of rice. |
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