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

BMC Genomics

Table 3 Annotation and QTL evidence for individual genes with the most consistent associations for lowering aflatoxin resistance^a

Marker	p	R^b	Effect	Geneid	TAIR Annotation^c	Bin	QTL^d
S1_45772203	0.0051	0.07	–0.69	GRMZM2G135359	LRRPK family protein	1.03	mqtl1_3
S2_23556305	0.0009	0.10	–0.77	GRMZM2G078279	expansin B3	2.03	mqtl2_1
S2_37133737	0.0001	0.07	–0.57	GRMZM2G057637	None	2.04	None
S3_23493748	0.0017	0.06	–0.83	GRMZM2G041352	endonuclease 2	3.04	mqtl3_2
S4_238436842	0.0009	0.07	–0.61	GRMZM2G174481	NAD(P)-OR superfamily protein	4.10	mqtl4_9
S5_193538196	0.0004	0.09	–0.76	GRMZM2G165601	None	5.05	None
S5_213916936	0.0061	0.07	–0.75	GRMZM2G469142	AlgP	5.08	mqtl5_6
S6_5158838	0.0023	0.08	–0.54	GRMZM2G125081	LRRPK family protein	6.00	None
S6_5158838	0.0023	0.08	–0.54	GRMZM2G125138	glycine-rich protein	6.00	None
S6_161709273	0.0040	0.07	–0.82	GRMZM2G121208	RTE1	6.06	mqtl6_8
S9_154403351	0.0002	0.08	–0.62	GRMZM2G092741	AP-2, α subunit	9.07	None
S9_154245175	0.0042	0.06	–0.68	GRMZM2G303312	ECT4	9.07	None
S10_2433643	0.0003	0.08	–0.61	GRMZM2G151903	MATE efflux family protein	10.00	None

^aTwo sequential filters applied. Filter 1 = p < 0.01, effect < −0.2, and R² > 0.04. Filter 2 = R² > 0.06 and effect < −0.5
^bProportion of the phenotypic variation accounted for by the tagSNP
^cAbbreviations: TAIR, The Arabidopsis Information Resource; LRRPK, leucine-rich repeat protein kinase; NAD(P)-OR, NAD(P)-linked oxidoreductase; AlgP, alginate regulatory protein; RTE1, reversion-to-ethylene sensitivity1; AP, adaptor protein complex; ECT4, evolutionarily conserved C-terminal region 4; MATE, multidrug and toxic compound extrusion. The AlgP annotation was from rice
^dData for QTL (resistant parent listed) and meta-QTL (mqtl) number for resistance to Aspergillus species were compiled from Mideros et al. Supplementary Table 8 [5]and Warburton and Williams [31]. TagSNP was either in or within 2 Mb of QTL

ISSN: 1471-2164