Table 1.

Summary of the significant SNPs marker identified with different models which are associated with Septoria tritici blotch (STB) resistance in GWAS analysis with 175 winter wheat genotypes.

SNP marker name	Chr	Model	Position (cM)	MAF	Alleles	R2	Allelic effecvt	Physical location
BobWhite_c1361_1187	1A	FarmCPU**** Super****	13.73	0.14	A/G	–	0.16	1525253
BobWhite_c42716_71	1B	FarmCPU**** GLM*** MLM* MLMM*** Super****	97.71	0.46	A/G	0.11	0.02	623712765
wsnp_Ex_rep_c66255_64400455	1B	GLM**	97.71	0.47	A/G	0.09	−0.01	623729791
RFL_Contig5937_1677	1B	GLM**	99.07	0.45	A/G	0.08	−0.01	623730512
RAC875_c47427_75	1B	GLM*** MLM*	99.07	0.47	A/G	0.10	−0.01	623731255
Excalibur_rep_c72368_68	1B	GLM*** MLM*	97.71	0.46	T/C	0.09	−0.003	623770763
BS00110231_51	1B	GLM**	97.36	0.43	T/G	0.09	0.01	623989423
wsnp_Ex_c22423_31615798	2B	FarmCPU*** Super***	96.99	0.37	A/C	–	0.08	215593752
wsnp_Ex_c5929_10402147	3A	FarmCPU**** Super****	86.16	0.31	T/C	–	−0.09	481018206
Excalibur_c17553_84	5A	FarmCPU*** Super***	43.27	0.35	C/T	–	0.09	375375809

Chr, chromosome; MAF, minor allele frequency, physical location – start positions (in bp) of the markers on the chromosomes in the assembly IWGSC Refseq v1. FDR-adjusted p value *0.05, **0.01, ***0.001, ****0.0001. The percentage of variation (R²) explained by the GLM model was calculated as the difference between the R² of the GAPIT model with and without the associated SNP. Allelic effect estimates the additive contribution of the tested marker and were obtained primarily from the GLM model when available else from FarmCPU model.