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Table 4 Within site (PGTIS, Aleza Lake (AL), and Quesnel) genomic selection prediction accuracies and their standard errors for RR-BLUP and GRR models across 60% missing data imputation methods (MI-60%, kNN-Fam-60% and SVD-60%)

From: Prediction accuracies for growth and wood attributes of interior spruce in space using genotyping-by-sequencing

Trait GS model Imputation method
MI-60% kNN-Fam-60% SVD-60%
PGTIS AL Quesnel PGTIS AL Quesnel PGTIS AL Quesnel
HT RR-BLUP 0.54 ± 0.002 0.51 ± 0.003 0.40 ± 0.002 0.55 ± 0.002 0.56 ± 0.002 0.42 ± 0.002 0.53 ± 0.003 0.50 ± 0.004 0.42 ± 0.003
GRR 0.51 ± 0.005 0.45 ± 0.011 0.34 ± 0.007 0.51 ± 0.005 0.51 ± 0.006 0.39 ± 0.005 0.51 ± 0.004 0.47 ± 0.006 0.37 ± 0.005
DBH RR-BLUP 0.62 ± 0.002 0.60 ± 0.002 0.56 ± 0.003 0.62 ± 0.001 0.63 ± 0.002 0.55 ± 0.002 0.60 ± 0.002 0.59 ± 0.003 0.54 ± 0.003
GRR 0.59 ± 0.009 0.58 ± 0.004 0.53 ± 0.006 0.59 ± 0.005 0.62 ± 0.004 0.53 ± 0.004 0.59 ± 0.002 0.57 ± 0.004 0.52 ± 0.004
VOL RR-BLUP 0.60 ± 0.002 0.58 ± 0.003 0.49 ± 0.003 0.61 ± 0.002 0.63 ± 0.001 0.47 ± 0.002 0.59 ± 0.002 0.57 ± 0.003 0.48 ± 0.003
GRR 0.58 ± 0.005 0.55 ± 0.006 0.44 ± 0.009 0.58 ± 0.003 0.59 ± 0.005 0.44 ± 0.005 0.58 ± 0.003 0.56 ± 0.004 0.45 ± 0.005
V Dir RR-BLUP 0.62 ± 0.002 0.57 ± 0.002 0.46 ± 0.003 0.63 ± 0.002 0.61 ± 0.002 0.49 ± 0.002 0.58 ± 0.002 0.55 ± 0.002 0.46 ± 0.003
GRR 0.59 ± 0.005 0.51 ± 0.010 0.40 ± 0.006 0.60 ± 0.003 0.57 ± 0.005 0.46 ± 0.006 0.57 ± 0.004 0.53 ± 0.003 0.42 ± 0.004
WD Res RR-BLUP 0.53 ± 0.002 0.44 ± 0.002 0.62 ± 0.002 0.55 ± 0.002 0.49 ± 0.002 0.62 ± 0.002 0.56 ± 0.003 0.46 ± 0.004 0.58 ± 0.002
GRR 0.46 ± 0.007 0.36 ± 0.009 0.58 ± 0.004 0.47 ± 0.005 0.44 ± 0.007 0.59 ± 0.005 0.54 ± 0.003 0.43 ± 0.005 0.56 ± 0.003
WD X-ray RR-BLUP 0.49 ± 0.002 0.51 ± 0.002 0.53 ± 0.003 0.51 ± 0.002 0.53 ± 0.002 0.53 ± 0.002 0.50 ± 0.002 0.50 ± 0.002 0.50 ± 0.003
GRR 0.45 ± 0.006 0.47 ± 0.005 0.49 ± 0.009 0.48 ± 0.005 0.50 ± 0.006 0.48 ± 0.009 0.49 ± 0.005 0.49 ± 0.003 0.49 ± 0.004
MoE d RR-BLUP 0.62 ± 0.001 0.57 ± 0.002 0.45 ± 0.002 0.64 ± 0.001 0.61 ± 0.001 0.49 ± 0.002 0.59 ± 0.003 0.54 ± 0.004 0.45 ± 0.004
GRR 0.60 ± 0.003 0.52 ± 0.007 0.38 ± 0.007 0.61 ± 0.004 0.58 ± 0.004 0.45 ± 0.004 0.58 ± 0.002 0.52 ± 0.004 0.41 ± 0.005
Ave. RR-BLUP 0.57 ± 0.053 0.54 ± 0.056 0.50 ± 0.074 0.59 ± 0.050 0.58 ± 0.054 0.51 ± 0.064 0.56 ± 0.037 0.53 ± 0.045 0.49 ± 0.055
GRR 0.54 ± 0.065 0.49 ± 0.073 0.45 ± 0.086 0.55 ± 0.060 0.54 ± 0.063 0.48 ± 0.065 0.55 ± 0.039 0.51 ± 0.050 0.46 ± 0.067
  1. Traits are HT: height in m; DBH: diameter at breast height in cm; VOL: stem volume in m3; VDir: acoustic velocity in km/s; WDRes: resistance to drilling; WDX-ray: wood density in kg/m3 using X-ray densitometry; MoEd: dynamic modulus of elasticity.
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BMC Genomics

ISSN: 1471-2164

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