Table 1 List of eight SNP markers associated with RST_C and one SNP marker associated with leaf injury for salt tolerance based on BLINK, FarmCPU, GLM, MLM, and MLMM in GAPIT 3, FarmCPU, GLM, and MLM in rMVP, and a t-test.

SNP	Chr	Pos	MAF %	LOD[-log(P-value)] in GAPIT3					LOD[-log(P-value)] in rMVP			PVE (%) (Model)	LOD	Tolerant allele	Sus. allale	Trait	Significant Model
SNP	Chr	Pos	MAF %	BLINK	FarmCPU	GLM	MLM	MLMM	FarmCPU	GLM	MLM	PVE (%) (Model)	t-test	Tolerant allele	Sus. allale	Trait	LOD > 5.73
SL4.0CH01_56850777	1	56,850,777	2.45	3.30	10.62	4.78	4.73	8.79	4.65	4.65	2.73	4.2 (MLMM)	2.23	T	C	RST_C	gapit3.(FarmCPU, MLMM)
SL4.0CH03_18798341	3	18,798,341	3.40	3.62	0.24	4.18	4.18	6.70	3.02	3.02	2.69	88.2 (MLMM)	0.59	G	A		gapit3.(MLMM)
SL4.0CH03_65018441	3	65,018,441	6.42	4.55	7.95	3.15	3.11	6.03	1.06	1.06	1.00		0.34	A	T		gapit3.(FarmCPU, MLMM)
SL4.0CH04_61946640	4	61,946,640	4.15	4.37	6.72	1.65	1.63	3.95	0.15	0.15	0.11		0.59	T	A		gapit3.FarmCPU
SL4.0CH05_60973295	5	60,973,295	19.62	6.42	3.73	6.09	5.75	4.03	6.19	6.19	3.18	8.2 (BLINK, GLM, MLM)	4.48	C	T		gapit3.(Blink, GLM, MLM) rMVP.(FarmCPU, GLM)
SL4.0CH06_765365	6	765,365	4.15	0.34	0.29	5.86	5.86	0.60	5.22	5.22	4.60	51.0 (GLM, MLM)	1.53	T	C		gapit3.(GLM, MLM)
SL4.0CH06_765393	6	765,393	4.34	10.08	14.77	5.92	5.91	10.09	5.20	5.20	4.60	51.0 (BLINK)	1.40	T	C		gapit3.(Blink, FarmCPU, GLM, MLM, MLMM)
SL4.0CH07_62312730	7	62,312,730	1.70	5.24	8.23	3.38	3.40	2.50	1.05	1.05	1.64		4.29	A	G		gapit3.FarmCPU
SL4.0CH05_60973295	5	60,973,295	19.62	6.82	6.20	5.50	5.17	5.93	5.47	5.48	3.54	16.9 (BLINK, MLMM)	4.65	C	T	Leaf Injury	gapit3.(Blink, FarmCPU, GLM, MLMM)

Quick links

Search