Skip to main content

Table 4 Prediction accuracies for wood quality and growth traits estimated with cross-validation sets built with individuals within full-sib families using pedigree (CV1-A), ridge regression (CV1-RR) or both (CV1-RRA) sources of information with all SNPs ( m= 6,932) and various subpopulations of individuals

From: Genomic selection accuracies within and between environments and small breeding groups in white spruce

   Cross-validation
Trait Subpopulation* Pedigree (CV1-A) Markers (CV1-RR) Markers and pedigree (CV1-RRA) Relative efficiency markers/pedigree (%)
ADEN BG1 0.86 0.79 0.83 92
  BG1 → BG2 −0.02 0.06 0.22
  S1 0.83 0.75 0.80 90
  S1 → S2 0.72 0.66 0.71 92
AMFA BG1 0.84 0.77 0.82 92
  BG1 → BG2 0.03 0.03 0.03
  S1 0.79 0.71 0.77 90
  S1 → S2 0.70 0.61 0.67 87
HT17 BG1 0.67 0.58 0.65 87
  BG1 → BG2 0.02 −0.10 −0.08
  S1 0.76 0.68 0.74 89
  S1 → S2 0.40 0.34 0.40 85
DBH17 BG1 0.60 0.52 0.58 87
  BG1 → BG2 −0.01 −0.16 −0.14
  S1 0.78 0.69 0.76 88
  S1 → S2 0.29 0.24 0.30 83
MSE   0.026 0.024 0.021
  1. ADEN: average wood density; AMFA: average microfibril angle; HT17: 17-year height; DBH17: 17-year diameter at breast height.
  2. *BG1: both training and testing sets from breeding group 1; BG1 → BG2: training sets from breeding group 1 and testing sets from breeding group 2; S1: both training and testing sets from site 1; S1 → S2: training sets from site 1 and testing sets from site 2.
  3. Mean standard error over cross-validation iterations and subpopulations.