Haplotype^{a} | ZmVTE4 SNPs | Haplotype Frequency | Haplotype Mean | |||||
---|---|---|---|---|---|---|---|---|

ss196416269 | S5_200369481 | S5_200369534 | Overall | Temperate | Tropical | αT, μg·g^{−1} | SD | |

A,C,G | A | C | G | 50 | 44 | 6 | 3.02 | 2.48 |

G,C,G | G | C | G | 151 | 125 | 26 | 9.18 | 4.01 |

A,G,G | A | G | G | 1 | 1 | − | 3.51 | − |

G,G,G | G | G | G | 28 | 15 | 13 | 15.95 | 3.90 |

G,C,T | G | C | T | 22 | 22 | − | 2.77 | 2.83 |

R^{2}_{LR} (%)^{b} | 60.2 | |||||||

Partial R^{2}_{LR} (%)^{c} | 48.4 | |||||||

P-value^{d} | 2.2 × 10^{−38} | |||||||

Fold change^{e} | 5.76 |

MLMM, multilocus mixed model; αT, alpha tocopherol; SNP, single-nucleotide polymorphism; SD, standard deviation of the untransformed BLUPs; BLUPs, best linear unbiased predictors;

↵a The most favorable allele for each of the

*ZmVTE4*SNPs is underlined.↵b R

^{2}_{LR,}likelihood-ratio based R^{2}statistic, percentage of total phenotypic variation explained by the unified mixed model.↵c Partial R

^{2}_{LR}, likelihood-ratio based partial R^{2}statistic, percentage of total phenotypic variation explained by the haplotypes.↵d The

*P*-value was from a unified mixed linear model that tested for an association between haplotypes and αT levels.↵e Fold change was calculated as the ratio between the most favorable (G, G, G) and least favorable (G, C, T) haplotypes for αT levels.