Table 6.

Summary of quantitative trait loci identified for grain Pb concentrations in rice.

Locus	Dataset	Chr.a	SSNb	Peak SNPc	Location	Alleled	MAFe	Effectf	P-value
qGPB1	ALL	1	1	SNP-1.19551811	19552857	A/C	0.12	0.24	6.01 × 10-7
qGPB2	ALL	2	1	SNP-2.20014678	20020547	A/G	0.08	0.27	6.92 × 10-7
qGPB3	ALL	5	1	SNP-5.27709958	27772602	A/G	0.18	-0.33	8.57 × 10-6
qGPB4	ALL	6	1	SNP-6.17148976	17149974	A/G	0.05	0.27	4.75 × 10-6
qGPB5	ALL	7	1	SNP-7.14289676	14290670	T/C	0.06	0.25	7.75 × 10-6
qGPB6	AUS	1	10	SNP-1.32496771	32497816	T/C	0.10	0.68	6.85 × 10-9
qGPB7	AUS	3	1	SNP-3.6994190	6995193	A/T	0.19	0.51	1.03 × 10-8
qGPB8	AUS	4	1	SNP-4.33548358	33733479	G/A	0.11	0.56	1.42 × 10-7
qGPB9	AUS	9	1	SNP-9.22783337	22783819	T/C	0.08	0.66	3.36 × 10-8
qGPB10	IND	10	1	SNP-10.8697001	8768140	C/T	0.10	0.45	9.45 × 10-6
qGPB11	IND	11	1	SNP-11.27173308ga	27644922	A/G	0.30	0.31	2.07 × 10-6
qGPB12	TEJ	4	1	SNP-4.4026939	4031333	C/T	0.15	0.36	7.82 × 10-6
qGPB13	TEJ	8	1	SNP-8.10036088	10037085	T/C	0.44	-0.30	6.90 × 10-6
qGPB14	TRJ	2	1	SNP-2.22983115	22988985	A/G	0.12	0.29	3.94 × 10-6
qGPB15	TRJ	3	1	SNP-3.25357731	25359651	C/T	0.08	0.35	9.55 × 10-6
qGPB16	TRJ	6	1	SNP-6.13136656	13137656	A/T	0.09	0.35	1.09 × 10-6
qGPB17	TRJ	6	2	SNP-6.17878030	17879028	T/C	0.09	0.37	2.86 × 10-7
qGPB18	TRJ	6	7	SNP-6.19647081	19648079	C/A	0.08	0.40	1.88 × 10-7
qGPB19	TRJ	7	23	SNP-7.17697649	17698643	A/G	0.14	0.32	4.88 × 10-8
qGPB20	TRJ	10	2	SNP-10.3177719	3178743	A/T	0.14	0.32	5.43 × 10-7
qGPB21	TRJ	12	1	SNP-12.11673044	11675709	T/G	0.08	0.35	9.75 × 10-6

Threshold for significance, P-value < 1.00 × 10^-5 (<2.62 × 10^-7 for AUS subpopulation). ^aChr., chromosome. ^bSSN, significant SNP number. ^cSNP with the best P-value. ^dAllele, minor/major alleles. ^eMAF, minor allele frequency. ^fEffect, allele effect with respect to the minor allele.