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Use of family structure information in interaction with environments for leveraging genomic prediction models

The Crop Journal 2020年第5期8卷 843-854页

作者： Reyna Persa Hiroyoshi Iwata Diego Jarquin Department of Agronomy and Horticulture University of Nebraska-LincolnLincolnNE 68583USA Graduate School of Agricultural and Life Sciences The University of TokyoBunkyoTokyo 113-8657Japan

The characterization of genomes with great detail offered by the modern genotyping platforms have opened a venue for accurately predicting the genotype-by-environment interaction(GE)effects of untested genotypes in different environmental *** developed statistical models have shown the advantages of including the GE interaction component in the prediction context using molecular markers,pedigree,or *** order to leverage the family information of highly structured populations when pedigree data is not available,we developed a model that uses the family membership *** proposed model extends the reaction norm model by including the interaction between families and environments(FE).A representative fraction of a soybean Nested Association Mapping population(16,187 grain yield records)comprising 38 bi-parental families(1358 genotypes)observed in 18 environments(2011,2012,and 2013)was used to contrast the proposed model with three conventional prediction *** crossvalidation scenarios(prediction of tested[CV2]and untested[CV1]genotypes)with a twofold design(50%for training and testing sets)were used for mimicking prediction situations that breeders face in *** showed that the family factor in interaction with environments explains a sizable amount of the phenotypic *** helped to improve the predictive ability with respect to the main effects model(GBLUP)around 41%(CV2)and 49%(CV1),and about 17%with respect to the conventional reaction norm *** inclusion of the FE term not only improved the global results but also significantly increased the prediction accuracy of those environments where the conventional models showed a very poor *** results show the importance of taking into consideration the family structure existing in breeding programs for improving the selection strategies in multi-parental populations.

关键词： interaction structure instead

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