Table 2.

Comparison of the major effective QTLs identified in this study with previously reported QTLs from O. rufipogon

Trait	CSSL	Chr.	Start positiion	End position	Effecta	QTLb	Referencec
Days-to-heading	RSL10	3	24,488,442	End	24.3% ↑
	RSL16	6	End	10,671,175	22.4% ↑	dth6.1	1
	RSL19	7	3,898,132	17,327,528	11.6% ↑	dth7.1	2, 3, 4, 6
Culm length	RSL27	10	End	3,552,082	59.1% ↓	ph10.1	3
Grain number	RSL28	10	2,541,199	17,555,159	46.9% ↑
Grain length	RSL9	3	57,726	24,488,442	15.5% ↑	gl3	5
	RSL23	8	23,167,567	End	6.8% ↑
	RSL27	10	End	3,552,082	6.4% ↓
Grain width	RSL7	2	9,256,584	27,919,903	9.0% ↓
	RSL8	2	9,256,584	End	10.3% ↓
	RSL14	5	3,173,133	7,305,956	10.3% ↓	qSW5	6
	RSL27	10	End	3,552,082	10.6% ↓
Fertility	RSL10	3	24,488,442	End	20.4% ↓	pss3.1	1, 4
	RSL16	6	End	10,671,175	16.8% ↓	pss6.1	4
	RSL33	12	17,499,935	End	92.4% ↓

^a↑ and ↓ indicate an increase or a decrease in the trait value compared to Koshihikari, respectively.

^bNames of QTLs reported in previous studies.

^cReference numbers are as follows; 1 Xiao et al. 1998, 2 Moncada et al. 2001, 3 Septiningsih et al. 2003, 4 Thomson et al. 2003, 5 Lee et al. 2005, 6 Onishi et al. 2007.