Genome-wide association studies for agronomical traits in a world wide spring barley collection

Pasam, Raj K; Sharma, Rajiv; Malosetti, Marcos; van Eeuwijk, Fred A; Haseneyer, Grit; Kilian, Benjamin; Graner, Andreas

doi:10.1186/1471-2229-12-16

BMC Plant Biology

Table 10 GWAS results for trait starch content

From: Genome-wide association studies for agronomical traits in a world wide spring barley collection

SNP	Chr	Position	MAF	P-values	-log10(P)	² (%)	Effect	QTL	Reference QTL	Literature
SNP20	1H	43.28	0.099	0.0076	2.12	0.3	-0.915	QTL1_SC
SNP22	1H	47.47	0.340	0.0045	2.35	0.34
SNP36	1H	51.23	0.396	0.0299	1.52	0.2	-0.78	QTL2_SC
SNP47	1H	55.49	0.495	0.0190	1.72	0.22
SNP53	1H	60.19	0.309	0.0105	1.98	0.28
SNP56	1H	61.53	0.264	0.0059	2.23	0.32	1.34	QTL3_SC
SNP66	1H	69.53	0.474	0.0148	1.83	0.25
SNP92	1H	101.45	0.288	0.0009	3.04	0.43	-0.70	QTl4_SC
SNP108	1H	126.01	0.108	0.0236	1.63	0.32	-0.76	QTL5_SC
SNP136	2H	33.74	0.349	0.0093	2.03	0.28	-0.63	QTL6_SC	Qsch2a	[76]
SNP174	2H	63.53	0.406	0.0142	1.85	0.25
SNP176	2H	63.53	0.184	0.0315	1.50	0.19
SNP180	2H	64.24	0.225	0.0066	2.18	0.31	-1.14	QTL7_SC
SNP181	2H	64.24	0.209	0.0137	1.86	0.26
SNP192	2H	71.12	0.474	0.0259	1.59	0.21	-0.68	QTl8_SC	QStr.StMo-2H	Grain genes
SNP222	2H	90.10	0.485	0.0277	1.56	0.22	-1.05	QTL9_SC	Qsch2b	[76]
SNP311	3H	51.73	0.214	0.0227	1.64	0.22	-1.15	QTL10_SC
SNP334	3H	55.57	0.373	0.0067	2.17	0.31
SNP358	3H	72.26	0.358	0.0087	2.06	0.29	0.96	QTL11_SC
SNP507	4H	65.05	0.491	0.0160	1.80	0.23	-0.55	QTL12_SC
SNP539	4H	111.68	0.175	0.0048	2.32	0.33	1.18	QTL13_SC
SNP543	4H	123.29	0.256	0.0039	2.41	0.35	1.10	QTL14_SC
SNP599	5H	58.70	0.351	0.0272	1.57	0.21	0.67	QTL_15SC	QStr.StMo-5H	Grain genes
SNP612	5H	65.49	0.445	0.0135	1.87	0.26
SNP643	5H	110.26	0.104	0.0080	2.10	0.27	-1.79	QTL16_SC
SNP725	6H	22.35	0.469	0.0117	1.93	0.27	0.73	QTL17_SC
SNP727	6H	24.36	0.433	0.0244	1.61	0.22
SNP795	6H	71.08	0.392	0.0282	1.55	0.2	-0.57	QTL18_SC	QStr.StMo-6H	Grain genes
SNP823	6H	112.32	0.299	0.0252	1.60	0.21	-0.81	QTL19_SC
SNP836	7H	0	0.199	0.0175	1.76	0.24	-0.74	QTL20_SC
SNP844	7H	12.42	0.096	0.0003	3.50	0.65	-1.72	QTL21_SC	waxy	Grain genes
SNP893	7H	78.22	0.127	0.0040	2.40	0.53	0.81	QTL22_SC
SNP918	7H	87.97	0.297	0.0296	1.53	0.17	0.38	QTL23_SC	Qsch7a	[76]
SNP930	7H	121.09	0.074	0.0083	2.08	0.24	-1.74	QTL24_SC
SNP951	7H	149.03	0.24	0.0168	1.77	0.27	-0.76	QTL25_SC

Significant markers associated for SC with K-model, their MAF, P-value of association, variance explained by marker (R²), effect of the most significant marker within the QTL interval, name of the QTL, and the reference QTL or gene from literature.

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ISSN: 1471-2229

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