Mapping quantitative trait loci (QTLs) for seedling-vigor using recombinant inbred lines of rice (Oryza sativa L.) |
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| Institution: | 1. Key Laboratory of the Education Ministry of China for Plant Developmental Biology, College of Life Sciences, Wuhan University, Wuhan 430072, China;2. National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 430070, China;1. Plant Breeding and Biotechnology Division, DA-Philippine Rice Research Institute, Science City of Munoz, Nueva Ecija 3119, the Philippines;2. Crop Science Cluster, Department of Agronomy, U.P. Los Banos, College, Laguna 4031, the Philippines;3. Department of Agriculture-Southern Cagayan Research Center, Iguig, Cagayan, 3504, the Philippines;1. National Chung Hsing University, 145 Xingda Rd., South Dist., Taichung 402, Taiwan, ROC;2. Taiwan Forestry Research Institute, 67 Sanyuan St., Zhongzheng Dist., Taipei 100, Taiwan, ROC;3. School of Forest Resources and Conservation, University of Florida, Gainesville, FL 32611, USA;4. Taichung Tsau-Hou Elementary School, 32 Xihu Rd., Dali Dist., Taichung 412, Taiwan, ROC;1. Rice Research Institute, Sichuan Agricultural University, Wenjiang, 611130, China;2. State Key Laboratory of Hybrid Rice, Sichuan Agricultural University, Wenjiang, 611130, China;3. Station of Foundation and Improved Seed-breeding of Sichuan Province, Shuangliu, 610200, China;4. State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, 100101, China |
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| Abstract: | Seedling-vigor is important for optimum stand establishment and increasing weed competitive ability in rice cropping systems. In the current study, three seedling-vigor-related traits, seed germination rate, seedling shoot length and dry matter weight, were investigated by the paper-roll tests with rice recombinant inbred lines derived from a cross between Lemont (japonica) and Teqing (indica). The phenotype data, together with a linkage map consisting of 198 marker loci, was used to conduct composite interval mapping by QTLMapper 1.0 to simultaneously map both main-effect and epistatic QTLs for seedling-vigor in rice. Totally, 13 putative main-effect QTLs and 19 pairs of epistatic loci with R2 ≥ 5% were identified. Almost all of these QTLs or interactions individually explained only around 5–10% of the phenotypic variation. The majority (68%) of these main-effect and epistatic loci were clustered in seven chromosome regions, each spanning 12–28 cM (centi-Morgan) and containing three or more detectable loci. When detectable for the multiple seedling-vigor-related traits, either the main-effect QTLs or the epistatic interactions sharing the same map location had their additive or epistatic effects in the same direction, which agreed well with the positive correlations among the traits. The results demonstrated that seedling-vigor in rice could be controlled by many loci, most of which had small effects, but, relatively, epistasis as a genetic factor was much more important than main-effects of QTLs. Along with the results reported previously, this study revealed the extensive genetic diversity for seedling-vigor in rice. In addition, the QTL qSV-7 on chromosome 7 was found to have the largest main-effects on multiple seedling-vigor-related traits and therefore could be used as a potential target to be genetically manipulated by marker-assisted selection in rice seedling-vigor breeding programs. |
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