Using genome-wide associations to identify metabolic pathways involved in maize aflatoxin accumulation resistance

BMC Genomics

Table 2 Annotation and QTL evidence for genes from the JA biosynthesis pathway with the most significant associations and greatest effects^a on lowering aflatoxin accumulation

tagSNP	p	R^b	Effect	Gene Identifier	MaizeCyc Annotation	Step^c	Bin	QTL^d
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

ISSN: 1471-2164