Table 2. Trait heritability and QTL of leaf inclination angle.

Cross	Phenotyped	Leaf no.	Heritability ($\widehat{{\mathit{h}}^2}$)	QTL
				Chr.	LOD2 (Mbp)	Variance (%)
BTx623 × IS3620c	Fields; 90 DAP (n = 88)	3	0.62***	7	57.6–59.1a	37
		4	0.60***	1	55.6–60.4	12
				7	57.6–59.2a	38
	Greenhouse; 38 DAP (n = 336)	3	0.54***	7	58.3–58.8a	37
		4	0.50***	5	2.7–4.8	5
				7	58.3–58.8a	33
R07018 × R07020	Greenhouse; 39 DAP (n = 94)	3	0.39***	1	53.7–54.8b	24
		4	0.31***	1	13.6–61.3b	20
	Fields; 80 DAP (n = 94)	3	0.12**	7	55.2–58.3b	16
		4	0.23**	1	13.1–54.7b	19
		5	0.33***	1	13.1–15.2b	20
				1	53.4–54.7b	17
	Fields; 114 DAP (n = 94)	3	0.09*	3	5.6–61.1b	16
		4	0.12**	3	51.4–60.1	16
		5	0.14**	3	56.5–59.5	22

Estimates of trait heritability $\widehat{h^2}$ were approximated from estimations of variance explained by SNPs and indels across the genome for each phenotype (Yang et al. 2013). ***, **, and * denote P-values less than 0.0001, 0.05, and 0.1, respectively, for testing the null hypothesis that the trait is not heritable. All QTL models were chosen via model selection of multiple-QTL mapping analyses, as described in Manichaikul et al. (2009). All QTL were additive and have P-values < 0.001. The biparental cross, phenotype location (field or greenhouse), number of days after planting (DAP), individuals (n), and leaf number assayed in each experiment are given as metadata. The physical position [Sbi1, Paterson et al. (2009)] of largest LOD for each QTL and other statistics on the QTL models can be found in File S2.

^aLOD₂ intervals that contain the dw3 gene (chromosome 7: 58.55–58.56 Mbp).

^bLOD₂ intervals in which RILs 63 and 73 (the RILs used in field measurements of light extinction) are not genotypically identical.