Genome-Wide Association Study of Rice Diversity Panel Reveals New QTLs for Tolerance to Water Deficit Under the Egyptian Conditions

Ghazy, Mohamed I.; EL-Naem, Sabry A.; Hefeina, Ahmed G.; Sallam, Ahmed; Eltaher, Shamseldeen

doi:10.1186/s12284-024-00703-1

Rice

Table 6 The significant SNPs associated with NDH, FLA, PH, NTP, NPP, PL, HGW and SET% under WD and N irrigation in both growing season

From: Genome-Wide Association Study of Rice Diversity Panel Reveals New QTLs for Tolerance to Water Deficit Under the Egyptian Conditions

Stress	Trait	No. of SNPs	− log10 P value		Allele effect
Stress	Trait	No. of SNPs	Min.	Max.	Min.	Max.
Season 2021
WD	NDH	9	5.15 × 10⁻³³	1.10 × 10⁻⁶	− 106.50	5.85
N		11	9.54 × 10^–20	5.50 × 10^–7	− 3.82	8.24
WD	FLA	19	2.10 × 10^–8	1.19 × 10^–6	7.91	27.88
N		12	1.37 × 10^–7	1.18 × 10^–6	− 7.17	4.64
WD	PH	11	1.07 × 10^–10	1.14 × 10^–6	− 9.77	11.56
N		7	8.76 × 10^–11	1.37 × 10^–6	− 9.33	35.80
WD	NTP	42	1.44 × 10^–8	1.41 × 10^–6	− 2.06	8.61
N		8	3.50 × 10^–8	1.12 × 10^–6	1.74	4.33
WD	NPP	11	7.35 × 10^–17		2.69 × 10^–7
N		8	4.39 × 10^–8	1.14 × 10^–6	1.74	4.33
WD	PL	1	5.14 × 10^–7		− 1.97
N		5	2.96 × 10^–7	1.17 × 10^–6	1.64	4.10
WD	HGW	14	2.83 × 10^–12	1.12 × 10^–6	− 0.86	0.91
N		7	1.14 × 10^–10	7.34 × 10^–7	− 0.16	0.26
WD	SET%	16	1.70 × 10^–17	1.40 × 10^–6	− 6.31	47.02
N		10	2.30 × 10^–24	9.31 × 10^–7	− 1.01	11.27
Season 2022
WD		12	1.18 × 10^–10	1.13 × 10^–6	− 17.46	26.03
N	NDH	8	2.24 × 10^–15	4.58 × 10^–7	3.39	26.48
WD	FLA	2	2.6 × 10^–7	1.35 × 10^–6	3.10	6.62
N		11	1.36 × 10^–7	1.37 × 10^–6	− 6.19	4.56
WD	PH	13	3.54 × 10^–10	7.65 × 10^–7	− 20.02	11.83
N		7	1.46 × 10^–11	6.98 × 10^–7	− 17.81	10.47
WD	NTP	7	9.49 × 10^–14	8.44 × 10^–7	− 0.94	7.03
N		8	3.57 × 10^–8	1.12 × 10^–6	1.74	4.26
WD	NPP	10	6.16 × 10–¹⁶	1.14 × 10^–6	− 1.16	7.38
N		7	2.71 × 10^–8	1.07 × 10^–6	1.73	4.17
WD	PL	1	5.84 × 10^–7		− 1.97
N		5	3.06 × 10^–7	1.28 × 10^–6	1.65	4.13
WD	HGW	5	5.95 × 10^–8	1.16 × 10^–6	0.159	0.308
N		6	1.25 × 10^–7	1.14 × 10^–6	0.123	0.18
WD	SET%	16	2.19 × 10^–17	1.17 × 10^–6	− 2.59	35.31
N		15	5.60 × 10^–20	8.04 × 10^–7	− 1.28	9.92

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