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Potential of marker selection to increase prediction accuracy of genomic selection in soybean (Glycine max L.)

文献类型： 外文期刊

作者： Ma, Yansong 2 ; Reif, Jochen C. 4 ; Jiang, Yong 4 ; Wen, Zixiang 5 ; Wang, Dechun 5 ; Liu, Zhangxiong 2 ; Guo, Yong 2 ; W 1 ;

作者机构： 1.Northeast Agr Univ, Coll Agr, Harbin 150030, Peoples R China

2.Chinese Acad Agr Sci, Inst Crop Sci, Natl Key Facil Crop Gene Resources & Genet Improv, Beijing 100081, Peoples R China

3.Heilongjiang Acad Agr Sci, Soybean Res Inst, Harbin 150086, Peoples R China

4.Leibniz Inst Plant Genet & Crop Plant Res IPK, Dept Breeding Res, D-06466 Gatersleben, Germany

5.Michigan State Univ, Dept Plant Soil & Microbial Sci, E Lansing, MI 48824 USA

6.Chinese Acad Agr Sci, Inst Crop Sci, Beijing 100081, Peoples R China

7.Heilongjiang Acad Agr Sci, Harbin 150086, Peoples R China

8.Jilin Acad Agr Sci, Soybean Res Inst, Changchun 130033, Peoples R China

9.Chifeng Inst Agr Sci, Chifeng 024031, Peoples R China

10.Hebei Acad Agr & Forestry Sci, Inst Cereal & Oil Crops, Shijiazhuang 050031, Peoples R China

11.Henan Acad Agr Sci, Econ Crops Inst, Zhengzhou 450002, Peoples R China

12.Shandong Acad Agr Sci, Crop Res Inst, Jinan 250010, Peoples R China

13.Chinese Acad Agr Sci, Oil Crop Res Inst, Wuhan 430062, Peoples R China

14.Jiangxi Acad Agr Sci, Inst Crop Sci, Nanchang 330200, Peoples R China

15.Guangxi Acad Agr Sci, Inst Econ Crops, Nanning 530007, Peoples R China

16.Hulun Buir Inst Agr Sci, Hulun Buir 021000, Peoples R China

17.Heilongjiang Acad Agr Sci, Heihe Branch Inst, Heihe 164300, Peoples R China

18.Crop Res & Breeding Ctr Land Reclamat, Harbin 150090, Heilongjiang, Peoples R China

19.Heilongjiang Acad Agr Sci, Suihua Branch Inst, Suihua 152052, Peoples R China

20.Heilongjiang Acad Agr Sci, Jiamusi Branch Inst, Jiamusi 154007, Peoples R China

21.Anhui Acad Agr Sci, Crop Inst, Hefei 230031, Anhui, Peoples R China

22.Zhoukou Inst Agr Sci, Zhoukou 466001, Henan, Peoples R China

关键词： Genomic selection;Prediction accuracy;Glycine max;Sampling method

期刊名称：MOLECULAR BREEDING （ 影响因子：2.589； 五年影响因子：2.75 ）

ISSN：

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收录情况： SCI

摘要： Genomic selection is a promising molecular breeding strategy enhancing genetic gain per unit time. The objectives of our study were to (1) explore the prediction accuracy of genomic selection for plant height and yield per plant in soybean [Glycine max (L.) Merr.], (2) discuss the relationship between prediction accuracy and numbers of markers, and (3) evaluate the effect of marker preselection based on different methods on the prediction accuracy. Our study is based on a population of 235 soybean varieties which were evaluated for plant height and yield per plant at multiple locations and genotyped by 5361 single nucleotide polymorphism markers. We applied ridge regression best linear unbiased prediction coupled with fivefold cross-validations and evaluated three strategies of marker preselection. For plant height, marker density and marker preselection procedure impacted prediction accuracy only marginally. In contrast, for grain yield, prediction accuracy based on markers selected with a haplotype block analyses-based approach increased by approximately 4 % compared with random or equidistant marker sampling. Thus, applying marker preselection based on haplotype blocks is an interesting option for a cost-efficient implementation of genomic selection for grain yield in soybean breeding.

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