Table 3 Validation of predicted breeding values and parental average (PA) breeding values from three methods: pedigree-based BLUP (PBLUP), marker-based BLUP (GBLUP), and Bayesian variable selection prediction (Bayes-C-π), for early and late selection

EARLY SELECTION

Slope from regression of phenotype on EBV

PBLUP

0.63

1.12

0.71

0.87

0.93

0.88

0.85

0.70

0.56

1.06

0.52

1.05

0.56

1.16

1.03

0.88

GBLUP

0.53

0.87

0.58

0.93

0.70

0.81

0.67

0.58

0.34

1.07

0.54

0.73

0.61

1.05

0.93

0.82

Bayes-C-π

0.65

0.93

0.68

0.94

0.69

0.86

0.73

0.59

0.34

1.01

0.56

0.91

0.72

1.13

0.98

0.91

Average performance of top 30 individuals

PBLUP

89.9

61.0

1459.3

7.78

84.2

46.0

82.2

15.4

148.0

1.78

80.8

65.1

1453.3

7.29

76.5

18.1

GBLUP

90.3

63.5

1452.4

8.38

86.8

47.4

83.3

15.5

147.3

1.73

79.9

65.1

1440.9

7.22

80.0

18.3

Bayes-C-π

91.2

62.0

1453.7

8.41

85.9

48.3

83.4

15.4

147.2

1.70

78.1

64.7

1449.9

7.12

80.3

18.3

LATE SELECTION

Slope from regression of phenotype on EBV

PBLUP

1.08

0.90

0.51

1.13

0.93

0.85

1.07

0.80

0.90

1.12

0.47

1.04

0.46

1.29

0.95

0.97

GBLUP

0.72

0.85

0.50

1.06

0.82

0.83

0.81

0.72

0.60

1.10

0.54

0.83

0.60

1.06

0.91

0.89

Bayes-C-π

0.81

0.93

0.57

1.10

0.80

0.89

0.86

0.75

0.65

1.06

0.51

1.01

0.69

1.13

0.97

0.97