Genetic analysis of scab disease resistance in common bean (Phaseolus vulgaris) varieties using GWAS and functional genomics approaches

Table 2 GWAS results for scab disease resistance in common beans using a FarmCPU model

SNP	Chromosome	Position	p.value	Maf	nobs	FDR_Adjusted p-values	Effect
S1_6571566	1	6571566	1.81E−06	0.084848	165	0.053767	0.455757
S3_1163619	3	1163619	8.18E−05	0.239394	165	0.764975	0.103413
S5_40017016	5	40017016	8.21E−05	0.118182	165	0.764975	− 0.15242
S11_1967229	11	1967229	0.000114	0.109091	165	0.764975	− 0.19997
S11_9666528	11	9666528	0.00017	0.093939	165	0.764975	0.255627
S11_38448497	11	38448497	0.000188	0.030303	165	0.764975	0.24817
S1_5502835	1	5502835	0.0002	0.081818	165	0.764975	0.382909
S11_1197707	11	1197707	0.000267	0.039394	165	0.764975	− 0.16957
S11_1949249	11	1949249	0.00034	0.112121	165	0.764975	0.176347
S11_1968309	11	1968309	0.00034	0.112121	165	0.764975	0.176347
S8_56783493	8	56783493	0.000359	0.084848	165	0.764975	− 0.3059
S8_56783506	8	56783506	0.000359	0.084848	165	0.764975	− 0.3059
S11_7225343	11	7225343	0.000362	0.109091	165	0.764975	− 0.17096
S11_1967299	11	1967299	0.00037	0.109091	165	0.764975	0.179289
S4_564961	4	564961	0.00042	0.048485	165	0.764975	0.180115
S11_7240334	11	7240334	0.000474	0.106061	165	0.764975	0.173539
S6_28477838	6	28477838	0.000552	0.042424	165	0.764975	− 0.15435
S1_6197061	1	6197061	0.000563	0.084848	165	0.764975	− 0.3005
S11_7239975	11	7239975	0.000649	0.139394	165	0.764975	0.146525
S11_7239986	11	7239986	0.000649	0.139394	165	0.764975	− 0.14653
S4_3739129	4	3739129	0.000656	0.112121	165	0.764975	0.14351
S4_3739177	4	3739177	0.000656	0.112121	165	0.764975	0.14351

The association table above includes information on the SNP (SNP), its chromosome (Chromosome), position (Position), p-value (P.value), minor allele frequency (maf), number of observations (nobs), and false discovery rate (FDR) adjusted p-values. The table also provides the effect of each SNP on scab disease resistance in common beans. The rows display the results for each SNP above the minor allele frequency threshold. The SNPs sorted by their p values from smallest to largest

ISSN: 2662-4044