In prediction of genomic values, single-step method has been demonstrated to outperform multi-step methods. In statistical analyses of longitudinal traits, random regression test-day model (RR-TDM) has clear advantages over other models. Our goal in this study was to evaluate the performance of the model integrating both single-step and RR-TDM prediction methods, called single-step random regression test-day model (SS RR-TDM), in comparison with the pedigree-based RR-TDM and genomic best linear unbiased prediction (GBLUP) model. We performed extensive simulations to exploit potential advantages of SS RR-TDM over the other two models under various scenarios with different level of heritability, the number of QTL as well as the selection scheme. SS RR-TDM was found to achieve the highest accuracy and unbiasedness under all scenarios, exhibiting robust prediction ability in longitudinal trait analyses. Moreover, SS RR-TDM showed better persistency of accuracy over generations than GBLUP model. In addition, we also found that the SS RR-TDM had advantages over RR-TDM and GBLUP in terms of a real dataset of human contributed by the GAW18 workshop. The findings in our study firstly proved the feasibility and advantages of the SS RR-TDM, and further enhanced strategies for the genomic prediction of longitudinal traits in the future.
simulated data under the scenario where heritability is 0.5
This package includes longitudinal data simulated under the scenario where heritability is 0.5. Files include pedigree file (ped), genotypic file (geno), phenotypic file (phe) and files containing true genetic value (tbv).
h2-0.5.zip
simulated data under the scenario where the number of QTL is 10
This package includes longitudinal data simulated under the scenario where the number of QTL is 10. Files include pedigree file (ped), genotypic file (geno), phenotypic file (phe) and files containing true genetic value (tbv).
QTL10.zip
simulated data under the scenario where heritability is 0.1
This package includes longitudinal data simulated under the scenario where heritability is 0.1. Files include pedigree file (ped), genotypic file (geno), phenotypic file (phe) and files containing true genetic value (tbv).
h2-0.1.zip
simulated data under the scenario where the number of QTL is 500
This package includes longitudinal data simulated under the scenario where the number of QTL is 500. Files include pedigree file (ped), genotypic file (geno), phenotypic file (phe) and files containing true genetic value (tbv).
QTL500.zip
simulated genotypic data of replicates 1-7 under the scenario where males were selected based on predicted genetic value
This package includes simulated genotypic data under the scenario where males were selected based on predicted genetic value. The genotypic data were those from replicates 1-7.
non-random-sel-ped-phe-tbv.zip
non-random-sel-geno-1-7.zip
simulated genotypic data of replicates 15-20 under the scenario where males were selected based on predicted genetic value
This package includes simulated genotypic data under the scenario where males were selected based on predicted genetic value. The genotypic data were those from replicates 15-20.
non-random-sel-geno-15-20.zip
simulated data under the scenario where males were selected based on predicted genetic value
This package includes longitudinal data simulated under the scenario where males were selected based on predicted genetic value. Files include pedigree file (ped), phenotypic file (phe) and files containing true genetic value (tbv).
non-random-sel-ped-phe-tbv.zip
simulated data under the default scenario
This package includes longitudinal data simulated under the default scenario. Files include pedigree file (ped), phenotypic file (phe) and files containing true genetic value (tbv).
default-ped-phe-tbv.zip
simulated genotypic data of replicates 8-14 under the scenario where males were selected based on predicted genetic value
This package includes simulated genotypic data under the scenario where males were selected based on predicted genetic value. The genotypic data were those from replicates 8-14.
large-refpop-geno-1-10.zip
non-random-sel-geno-8-14.zip
simulated genotypic data of 5 000 individuals from replicates 11-20 under the default scenario
This package includes genotypic data simulated under the default scenario. The genotypic data were from replicates 11-20. For each replicate, genotypic data were from training individuals and a larger training set compared to the default one.
large-refpop-geno-11-20.zip
simulated genotypic data of 5 000 individuals from replicates 1-10 under the default scenario
This package includes genotypic data simulated under the default scenario. The genotypic data were from replicates 1-10. For each replicate, genotypic data were from training individuals and a larger training set compared to the default one.
large-refpop-geno-1-10.zip
simulated genotypic data under the default scenario
This package includes genotypic data simulated under the default scenario. The genotypic data were from replicates 1-7.
default-geno-1-7.zip
simulated genotypic data under the default scenario
This package includes genotypic data simulated under the default scenario. The genotypic data were from replicates 8-14.
default-geno-8-14.zip
simulated genotypic data under the default scenario
This package includes genotypic data simulated under the default scenario. The genotypic data were from replicates 15-20.
default-geno-15-20.zip
generation files for simulated data under six scenarios
Generation files for simulated data under the six scenarios
generation.zip