Genome-wide association study reveals the genetic architecture for calcium accumulation in grains of hexaploid wheat (Triticum aestivum L.)

Table 2 List of significant loci and their detailed information for Ca accumulation identified by GLM, MLM and FarmCPU models

ID^a	Chr.^b	Interval (bp)	No. of SNPs^c	Location	Peak SNP^d	Position (bp)	P value^*	R²(%)^e
1	2A	49,069,207–49,219,472	20	KF	AX-110634514	49,219,472	2.76E-05	16.10
				YY	AX-110634514	49,219,472	7.01E-05	13.89
2	3A	38,138,188–38,141,372	2	BLUP	AX-111799835	38,138,188	5.27E-05	17.09
3	3A	662,398,903	1	SQ	AX-109541359	662,398,903	6.77E-05	9.66
				YY	AX-109541359	662,398,903	1.77E-05	14.91
4	3B	2,151,413–20,504,151	7	YY	AX-110013515	13,967,085	2.33E-05	15.03
				BLUP	AX-110013515	13,967,085	3.33E-05	18.03
5	3B	376,625,452–404,801,032	2	YY	AX-110922471	376,625,452	1.71E-09	24.81
				BLUP	AX-110922471	376,625,452	5.56E-05	17.04
6	3D	40,526,440	1	SQ	AX-94729264	40,526,440	1.05E-05	11.55
				YY	AX-94729264	40,526,440	2.65E-13	26.80
				BLUP	AX-94729264	40,526,440	1.68E-05	18.15
7	4A	676,781,724–699,571,654	34	KF	AX-108912427	699,571,654	2.35E-05	16.55
				SQ	AX-108912427	699,571,654	2.87E-06	12.89
				YY	AX-108912427	699,571,654	2.24E-13	26.93
				BLUP	AX-108912427	699,571,654	3.83E-06	19.55
8	4B	10,703,582–10,703,651	2	SQ	AX-110637930	10,703,582	3.79E-05	10.24
9	5B	431,075,720	1	YY	AX-108753683	431,075,720	8.71E-05	13.77
10	5B	606,299,294–606,814,678	4	SQ	AX-111141605	606,299,294	5.00E-05	9.96
11	6A	520,873,173	1	YY	AX-111183340	520,873,173	2.88E-05	14.83

^*The p-values were calculated by the MLM model
^a The ID of the loci identified in the GWAS
^b Chromosome
^c The number of significant SNPs
^d Most significant SNP
^e Percentage of phenotypic variance explained by the MTA from the results of MLM model

ISSN: 1471-2229