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. 2017 Nov 7;8(1):53–62. doi: 10.1534/g3.117.300323

Table 3. Output on adding extraneous error component to the selected Model 1 or Base for DM, FYLD, SHTWT, and HI.

Data Trait Model Variance h2 LLk χ-square
σg2 σs2 σr2 σR2 σC2
Ibadan_2013_C1 FYLD Base 7.425 NA 19.791 NA NA 0.7 −1359.31 21.34
Model2 6.876 NA 18.171 NA 2.049 0.68 −1348.64 (3.80E−06)
SHTWT Model1 9.022 1.729 11.875 NA NA 0.59 −1275.65 6.48
Model2 8.686 1.763 11.419 NA 0.645 0.6 −1272.41 (0.01)
HI Base 0.005 NA 0.009 NA NA 0.44 1092.16 7.89
Model2 0.005 NA 0.009 NA 0.001 0.44 1096.1 (0.005)
Mokwa_2013_C1 FYLD Model1 1.649 1.113 19.218 NA NA 0.86 −1475.81 2.88
Model2 1.362 1.101 18.609 NA 0.824 0.87 −1474.37 (0.089)
HI Base 0.005 NA 0.009 NA NA 0.62 1270.87 10.15
Model2 0.005 NA 0.009 0.001 NA 0.66 1275.94 (0.001)
Mokwa_14_C1 HI Base 0.007 NA 0.006 NA NA 0.59 561.33 3.66
Model2 0.006 NA 0.005 0 NA 0.54 563.15 (0.055)
Ikenne_2014_C1 DM Base 31.949 NA 0.719 NA NA 0.44 −579.46 21.87
Model2 36.116 NA 0.033 NA 1.379 0.46 −568.52 (2.9e−06)
SHTWT Base 721.089 NA 29.191 NA NA 0.5 −1109.42 3.27
Model2 752.485 NA 15.792 10.999 NA 0.49 −1107.79 (0.071)

Base is the model having only the genetic variance component. Model 1 has a spatial variance component in addition, and Model 2 has extraneous error component added to the best model selected between Model 1 and Base for a particular trial and trait. Narrow sense heritability (h2) is calculated from BLUP values and genotypic variance. Chi-square statistic is calculated from the log likelihood values (LLk) of the Base/Model 1, and selected Model 2 is given with p-value in brackets. The table shows results from trial-trait analysis with significant improvement in model fit of Model 2 over the best of Base/Model 1 at α = 0.1.