Table 2.
Annotation and QTL evidence for genes from the JA biosynthesis pathway with the most significant associations and greatest effectsa on lowering aflatoxin accumulation
| tagSNP | p | Rb | Effect | Gene Identifier | MaizeCyc Annotation | Stepc | Bin | QTLd |
|---|---|---|---|---|---|---|---|---|
| S1_188114572 | 0.059 | 0.01 | –0.23 | GRMZM5G822593 | lipoxygenase13 | 1 | 1.06 | mqtl1_5 mqtl1_6 |
| S2_45193435 | 0.047 | 0.01 | –0.24 | GRMZM2G104843 | lipoxygenase8 | 1 | 2.04 | mqtl2_2 |
| S3_168834972 | 0.076 | 0.03 | –0.36 | GRMZM2G156861 | lipoxygenase1 | 1 | 3.05 | mqtl3_3 |
| S4_230398767 | 0.007 | 0.02 | –0.37 | GRMZM2G168404 | hydroperoxide dehydratase | 2 | 4.09 | mqtl4_8 |
| S5_31133128 | 0.002 | 0.04 | –0.60 | GRMZM2G110201 | acetyl-CoA C-acyltransferase | 9 | 5.03 | Mp715 |
| S6_124147817 | 0.065 | 0.01 | –0.15 | GRMZM2G002959 | acyl-CoA dehydrogenase | 6 | 6.05 | None |
| S6_138501372 | 0.062 | 0.02 | –0.20 | GRMZM2G117357 | enoyl-CoA hydratase | 7 | 6.05 | None |
| S8_171705472 | 0.047 | 0.03 | –0.27 | GRMZM2G106250 | 3-hydroxyacyl-CoA dehydrogenase | 8 | 8.08 | None |
aSubset had association p < 0.1 and effect < −0.1
bProportion of the phenotypic variation accounted for by the tagSNP
c Pathway step described in the text
dData for QTL (resistant parent listed) and meta-QTL (mqtl) for resistance to Aspergillus species were compiled from Mideros et al. Supplementary Table 8 [5] and Warburton and Williams [31]. TagSNP was in or within 2 Mb of QTL