BioMed Research International

Research Article

Detection of Epistatic and Gene-Environment Interactions Underlying Three Quality Traits in Rice Using High-Throughput Genome-Wide Data

Table 5

Detected SNPs with significant genetic effects.


Trait	QTS	Chr.	Allele	Effect	Predict		(%)	Total

AC	rs1610021	6	G/A	a	−2.20	26.94	16.89	68.67
AC	rs1644460	6	C/T	a	−3.85	79.97	51.78	68.67

GC	rs1644460	6	C/T	a	15.02	61.32	52.15	58.58
				ae₁	−3.48	2.52	2.80
				ae₂	3.47	2.11	2.80
	rs919289	7	C/G	a	−3.96	4.97	3.63

GT	rs1289107	6	G/A	a	−0.54	25.06	24.00	52.01
				ae₁	0.25	3.49	5.00
				ae₂	−0.25	2.99	5.00
	rs1644460	6	C/T	a	−0.35	10.73	9.81
				ae₁	−0.30	5.01	7.40
				ae₂	0.30	4.05	7.40
	rs1289107 and rs1644460	6	G/A	aa	0.21	4.33	3.60
				aae₁	−0.16	1.76	2.20
		6	C/T	aae₂	0.17	1.61	2.20

AC: amylose content; GC: gel consistency; GT: gelatinization temperature; e₁: environment 1; e₂: environment 2; a: additive effect; ae₁ and ae₂: environment-specific additive effect; aae₁ and aae₂: environment-specific additive-additive epistasis effect. . (%) = heritability (%) due to the genetic component effect.