Table II.
Comparison of QTL intervals identified using image-based phenotyping with previously reported QTL intervals in the literature

Most QTL intervals identified with the platform overlapped with QTLs or causal genes reported previously for related phenotypes (Hart et al., 2001; Feltus et al., 2006; Mace and Jordan, 2011; Morris et al., 2013; Higgins et al., 2014). Dw3 was cloned previously (Multani et al., 2003). For image-based QTL intervals, the LOD-2 interval and peak coordinate for the phenotype with the maximum MLOD are reported, and the phenotype name is indicated by an asterisk; maximum MLOD coordinates are not applicable to intervals from the literature, indicated by a dash. Supplemental Table S1 contains all identified organ-level QTLs. Leaf pitch and leaf curve are both measures of Euclidean distance from the leaf base to the apex of the curved leaf blade and from the leaf base to the leaf tip, respectively (Feltus et al., 2006).

ChromosomeOriginInterval BeginMax MLOD CoordinateInterval EndRelated Traits with Overlapping IntervalsPrior Locus Names
Mb
4Image based57.4862.4563.40Leaf length*, leaf surface area, leaf widthQLcv.txs-D2, QLpt.txs-D
Literature61.8665.07Leaf curve, leaf pitch
6Image based40.1042.7744.83Shoot cylinder height*Dw2
Literature39.7242.64Preflag leaf height
Image based48.4550.9755.08Leaf width*QLcv.txs-I
Literature53.7356.52Leaf curve
7Image based59.5159.6559.99Leaf angle*, shoot cylinder heightDw3
Literature59.82190559.829910Leaf angle, culm height, culm uniformity
10Image based1.232.008.21Leaf length*, leaf surface areaQLcv.txs-G, QLpt.txs-G, QLln.txs-G, QHtu.txs.G, QHGT_meta1.10
5.277.4652.24Shoot cylinder height*
Literature1.115.76Leaf curve, leaf pitch
6.4013.05Leaf length, culm height, culm uniformity
ChromosomeOriginInterval BeginMax MLOD CoordinateInterval EndRelated Traits with Overlapping IntervalsPrior Locus Names
Mb
4Image based57.4862.4563.40Leaf length*, leaf surface area, leaf widthQLcv.txs-D2, QLpt.txs-D
Literature61.8665.07Leaf curve, leaf pitch
6Image based40.1042.7744.83Shoot cylinder height*Dw2
Literature39.7242.64Preflag leaf height
Image based48.4550.9755.08Leaf width*QLcv.txs-I
Literature53.7356.52Leaf curve
7Image based59.5159.6559.99Leaf angle*, shoot cylinder heightDw3
Literature59.82190559.829910Leaf angle, culm height, culm uniformity
10Image based1.232.008.21Leaf length*, leaf surface areaQLcv.txs-G, QLpt.txs-G, QLln.txs-G, QHtu.txs.G, QHGT_meta1.10
5.277.4652.24Shoot cylinder height*
Literature1.115.76Leaf curve, leaf pitch
6.4013.05Leaf length, culm height, culm uniformity
Table II.
Comparison of QTL intervals identified using image-based phenotyping with previously reported QTL intervals in the literature

Most QTL intervals identified with the platform overlapped with QTLs or causal genes reported previously for related phenotypes (Hart et al., 2001; Feltus et al., 2006; Mace and Jordan, 2011; Morris et al., 2013; Higgins et al., 2014). Dw3 was cloned previously (Multani et al., 2003). For image-based QTL intervals, the LOD-2 interval and peak coordinate for the phenotype with the maximum MLOD are reported, and the phenotype name is indicated by an asterisk; maximum MLOD coordinates are not applicable to intervals from the literature, indicated by a dash. Supplemental Table S1 contains all identified organ-level QTLs. Leaf pitch and leaf curve are both measures of Euclidean distance from the leaf base to the apex of the curved leaf blade and from the leaf base to the leaf tip, respectively (Feltus et al., 2006).

ChromosomeOriginInterval BeginMax MLOD CoordinateInterval EndRelated Traits with Overlapping IntervalsPrior Locus Names
Mb
4Image based57.4862.4563.40Leaf length*, leaf surface area, leaf widthQLcv.txs-D2, QLpt.txs-D
Literature61.8665.07Leaf curve, leaf pitch
6Image based40.1042.7744.83Shoot cylinder height*Dw2
Literature39.7242.64Preflag leaf height
Image based48.4550.9755.08Leaf width*QLcv.txs-I
Literature53.7356.52Leaf curve
7Image based59.5159.6559.99Leaf angle*, shoot cylinder heightDw3
Literature59.82190559.829910Leaf angle, culm height, culm uniformity
10Image based1.232.008.21Leaf length*, leaf surface areaQLcv.txs-G, QLpt.txs-G, QLln.txs-G, QHtu.txs.G, QHGT_meta1.10
5.277.4652.24Shoot cylinder height*
Literature1.115.76Leaf curve, leaf pitch
6.4013.05Leaf length, culm height, culm uniformity
ChromosomeOriginInterval BeginMax MLOD CoordinateInterval EndRelated Traits with Overlapping IntervalsPrior Locus Names
Mb
4Image based57.4862.4563.40Leaf length*, leaf surface area, leaf widthQLcv.txs-D2, QLpt.txs-D
Literature61.8665.07Leaf curve, leaf pitch
6Image based40.1042.7744.83Shoot cylinder height*Dw2
Literature39.7242.64Preflag leaf height
Image based48.4550.9755.08Leaf width*QLcv.txs-I
Literature53.7356.52Leaf curve
7Image based59.5159.6559.99Leaf angle*, shoot cylinder heightDw3
Literature59.82190559.829910Leaf angle, culm height, culm uniformity
10Image based1.232.008.21Leaf length*, leaf surface areaQLcv.txs-G, QLpt.txs-G, QLln.txs-G, QHtu.txs.G, QHGT_meta1.10
5.277.4652.24Shoot cylinder height*
Literature1.115.76Leaf curve, leaf pitch
6.4013.05Leaf length, culm height, culm uniformity
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