Table 3.
The 14 stable loci for leaf type traits in two populations across different environments
| RILs namea | Loci nameb | QTL namec | Chrd | Bin name | CIv1.1 (bp)e | Position (cM) | LODf | ADDg | R2 (%)h | CIv2.0 (bp)i |
|---|---|---|---|---|---|---|---|---|---|---|
| ZH | Z-loci-31 | qLL11c-2 | 11 | Bin107 | 36,478,191–36,619,869 | 85.70 | 2.89 | −0.33 | 7.10 | 32,011,930–32,147,322 |
| qLL11d | 11 | Bin107 | 36,478,191–36,619,869 | 85.70 | 2.99 | −0.30 | 6.77 | 32,011,930–32,147,322 | ||
| Z-loci-36 | qLA14a | 14 | Bin23 | 4,871,116–4,920,206 | 29.80 | 2.71 | −1.18 | 6.06 | 4,954,181–5,005,224 | |
| qLA14c | 14 | Bin23 | 4,871,116–4,920,206 | 29.80 | 2.64 | −1.48 | 6.42 | 4,954,181–5,005,224 | ||
| Z-loci-37 | qLW14a | 14 | Bin25 | 5,292,323–5,333,084 | 30.90 | 4.40 | −0.15 | 10.44 | 5,403,689–5,448,621 | |
| qLW14c-1 | 14 | Bin25 | 5,292,323–5,333,084 | 30.90 | 4.52 | −0.19 | 10.86 | 5,403,689–5,448,621 | ||
| GB | G-loci-10 | qPL3g-1 | 3 | Bin35 | 4,763,728–5,164,283 | 34.90 | 3.65 | 0.56 | 5.19 | 4,566,741–5,065,688 |
| qPL3i-2 | 3 | Bin35 | 4,763,728–5,164,283 | 34.90 | 2.87 | 0.75 | 4.28 | 4,566,741–5,065,688 | ||
| G-loci-15 | qLS3h | 3 | Bin142 | 41,133,188–41,201,407 | 102.80 | 3.30 | 0.05 | 3.61 | 39,126,123–39,181,924 | |
| qLS3i | 3 | Bin142 | 41,133,188–41,201,407 | 102.80 | 2.56 | 0.06 | 2.71 | 39,126,123–39,181,924 | ||
| G-loci-18 | qLL4e-1 | 4 | Bin16 | 4,020,745–4,048,162 | 21.60 | 5.11 | −0.26 | 7.51 | 4,070,205–4,094,078 | |
| qLL4g-1 | 4 | Bin16 | 4,020,745–4,048,162 | 21.60 | 13.82 | −0.47 | 18.12 | 4,070,205–4,094,078 | ||
| qLL4i | 4 | Bin16 | 4,020,745–4,048,162 | 21.60 | 11.13 | −0.44 | 15.84 | 4,070,205–4,094,078 | ||
| G-loci-23 | qPL4f | 4 | Bin27 | 4,764,737–4,814,980 | 25.70 | 2.77 | −0.42 | 4.01 | 4,822,857–4,873,263 | |
| qPL4g | 4 | Bin27 | 4,764,737–4,814,980 | 25.70 | 4.63 | −0.63 | 6.47 | 4,822,857–4,873,263 | ||
| G-loci-56 | qLS12g | 12 | Bin126 | 36,772,134–36,809,388 | 122.10 | 2.63 | −0.05 | 3.00 | 36,730,431–36,766,381 | |
| qLS12h | 12 | Bin126 | 36,772,134–36,809,388 | 122.10 | 3.48 | −0.05 | 4.06 | 36,730,431–36,766,381 | ||
| G-loci-59 | qLW13g | 13 | Bin187 | 33,303,067–33,385,748 | 142.20 | 2.60 | 0.13 | 3.32 | 34,514,243–34,601,384 | |
| qLW13h | 13 | Bin187 | 33,303,067–33,385,748 | 142.20 | 2.84 | 0.11 | 3.47 | 34,514,243–34,601,384 | ||
| G-loci-63 | qLS14e | 14 | Bin6 | 495,526–538,526 | 4.50 | 11.01 | 0.04 | 13.67 | 506,220–544,002 | |
| qLS14f | 14 | Bin6 | 495,526–538,526 | 4.50 | 2.89 | 0.02 | 3.95 | 506,220–544,002 | ||
| qLS14h | 14 | Bin6 | 495,526–538,526 | 4.50 | 2.78 | 0.05 | 3.06 | 506,220–544,002 | ||
| G-loci-65 | qLW14h | 14 | Bin9 | 664,663–746,688 | 6.70 | 4.73 | −0.09 | 7.08 | 659,428–753,278 | |
| qLW14i-1 | 14 | Bin9 | 664,663–746,688 | 6.70 | 3.85 | −0.20 | 4.91 | 659,428–753,278 | ||
| G-loci-77 | qLS16e | 16 | Bin179 | 35,798,290–35,892,430 | 122.30 | 12.01 | 0.05 | 15.30 | 36,302,667–36,395,478 | |
| qLS16i | 16 | Bin179 | 35,798,290–35,892,430 | 122.30 | 2.67 | 0.06 | 2.83 | 36,302,667–36,395,478 | ||
| G-loci-93 | qLA19g | 19 | Bin136 | 45,183,988–45,457,039 | 110.70 | 3.16 | −1.52 | 4.24 | 45,304,487–45,567,452 | |
| qLA19h-2 | 19 | Bin136 | 45,183,988–45,457,039 | 110.70 | 4.69 | −1.37 | 6.67 | 45,304,487–45,567,452 | ||
| qLA19i | 19 | Bin136 | 45,183,988–45,457,039 | 110.70 | 2.65 | −1.79 | 3.89 | 45,304,487–45,567,452 | ||
| qLW19g | 19 | Bin136 | 45,183,988–45,457,039 | 110.70 | 12.83 | −0.30 | 18.31 | 45,304,487–45,567,452 | ||
| qLW19h-2 | 19 | Bin136 | 45,183,988–45,457,039 | 110.70 | 9.64 | −0.21 | 12.76 | 45,304,487–45,567,452 | ||
| G-loci-94 | qLS19g-2 | 19 | Bin144 | 46,060,014–46,274,131 | 115.90 | 9.44 | 0.10 | 13.77 | 46,167,548–46,388,153 | |
| qLS19i-2 | 19 | Bin144 | 46,060,014–46,274,131 | 115.90 | 8.19 | 0.11 | 11.03 | 46,167,548–46,388,153 |
aRIL name: ZH Zhonghuang 24 × Huaxia 3 RIL population; GB Guizao 1 × Brazil 13 RIL population
bLoci name is composited with the first letter of RIL population name known as ‘Z’ or ‘G’ and ‘loci’ following its former order
cThe name of QTL is a composite of the leaf traits: leaf area (LA); leaf length (LL); leaf width (LW); petiole length (PL); leaf shape (LS); a: the V6 growth stage in the summer of 2017 at Zengcheng; c: the R4 growth stage in the summer of 2017 at Zengcheng;d: the R6 growth stage in the summer of 2017 at Zengcheng; e: the V6 growth stage in the summer of 2017 at Zengcheng; f: the R2 growth stage in the spring of 2017 at Zengcheng; g: the R4 growth stage in the summer of 2016 at Zengcheng; h: the R6 growth stage in the summer of 2017 at Zengcheng; i: the R6 growth stage in the summer of 2017 at the Guangzhou experimental station
dChr refers to chromosome
eThe physical position corresponding to the 95% confidence interval for the detected QTL based on Glyma.Wm82. a1. v1.1 gene model
fLOD indicates the logarithm of odds score
gPositive and negative values indicated additive effect by the alleles of parents, respectively
hR2 indicates the phenotypic variance explained by individual QTL
iThe most proximal Glyma.Wm82.a2.v1 gene model physical intervals of the detected QTLs were transformed by focusing on the positions of the interval nearest 3′ and 5′ ending genes