Table 2.
Quantitative trait loci (QTLs) for thousand grain weight (TGW), grain number per spike (GNS), grain width (GW), grain length (GL), plant height (PH), spike length (SL) and spikelet number per spike (SNS) identified across multi-environments in the CM42×CM39 RIL population
| Trait | QTL | Env. | Chr. | Interval (cM) |
|---|---|---|---|---|
| TGW | QTgw.cib-6A.1 | 18SHF/18SHL/BLUP | 6A | 41.3-42.46 |
| QTgw.cib-6A.2 | 17SHF/18SHL/19SHF/19SHL/BLUP | 6A | 52.98-59.52 | |
| GW | QGw.cib-2A | 18SHF/19SHF | 2A | 14.86-17.08 |
| QGw.cib-2B.1 | 19SHF/19SHL | 2B | 39.6-43.07 | |
| QGw.cib-2B.2 | 17SHF/BLUP | 2B | 121.67-121.93 | |
| QGw.cib-5A | 17SHF/BLUP | 5A | 27.76-27.97 | |
| QGw.cib-6A | 17SHF/17SHL/18SHL/19SHF/19SHL/BLUP | 6A | 49.98-58.87 | |
| QGw.cib-7B | 18SHF/19SHL | 7B | 179.93-180.13 | |
| GL | QGl.cib-3A | 17SHF/17SHL/18SHL/19SHF/19SHL/BLUP | 3A | 64.7-66.41 |
| QGl.cib-5A.1 | 17SHL/BLUP | 5A | 3.46-7.55 | |
| QGl.cib-5A.2 | 18SHL/19SHF | 5A | 86.87-87.49 | |
| QGl.cib-6A | 17SHF/18SHF/18SHL/19SHF/19SHL/BLUP | 6A | 42.36-43.4 | |
| QGl.cib-6D | 18SHL/19SHF/BLUP | 6D | 76.06-83.69 | |
| QGl.cib-7D | 17SHF/17SHL/BLUP | 7D | 32.68-38.76 | |
| PH | QPh.cib-1A | 16SHF/17SHL/19SHF | 1A | 28.34-30.95 |
| QPh.cib-2D | 16SHF/17SHL/18SHF/18SHL/19SHF/BLUP | 2D | 1.48-5.16 | |
| QPh.cib-4A | 16SHF/17SHL | 4A | 82.78-83.05 | |
| QPh.cib-5A | 17SHF/19SHL/BLUP | 5A | 126.27-126.52 | |
| QPh.cib-5B | 16SHF/17SHL | 5B | 134.43-134.74 | |
| QPh.cib-6A | 16SHF/17SHL/19SHF | 6A | 54.61-54.76 | |
| GNS | QGns.cib-2D | 18SHF/19SHF/BLUP | 2D | 0-5.16 |
| QGns.cib-6A | 18SHL/19SHF/BLUP | 6A | 56.45-59.52 | |
| SL | QSl.cib-2D | 16SHF/16SHL/17SHF/17SHL/18SHF/18SHL/19SHF/19SHL/BLUP | 2D | 1.48-5.16 |
| QSl.cib-5A | 18SHL/19SHF/BLUP | 5A | 17.71-21.48 | |
| QSl.cib-5B | 16SHF/16SHL/17SHF/BLUP | 5B | 40.07-40.38 | |
| QSl.cib-6A | 19SHF/BLUP | 6A | 58.87-64.37 | |
| SNS | QSns.cib-1B | 17SHF/18SHL/19SHF/BLUP | 1B | 28.8-33.3 |
| QSns.cib-1D | 17SHL/BLUP | 1D | 146.67-148.82 | |
| QSns.cib-4A | 17SHF/18SHL/19SHF/BLUP | 4A | 72.98-81.71 | |
| QSns.cib-7A | 19SHF/19SHL | 7A | 81.76-85.42 |
| Trait | Flanking Markers | LOD | PVE(%) | Add |
|---|---|---|---|---|
| TGW | Marker87546-Marker87736 | 6.17/8.03/4.44 | 13.49/16.38/9.89 | -1.89/-2/-1.04 |
| Marker90290-Marker91587 | 9.48/7.95/7.27/10.52/9.62 | 20.39/16.68/15.31/20.51/23.75 | -2.58/-2.06/-2.36/-2.88/-1.65 | |
| GW | Marker26336-Marker26958 | 5.48/2.76 | 9.51/5.81 | 0.05/0.04 |
| Marker29502-Marker29525 | 2.66/4.09 | 5.46/6.62 | -0.04/-0.05 | |
| Marker34419-Marker34417 | 3.83/3.7 | 5.2/5.2 | -0.04/-0.03 | |
| Marker70243-Marker70216 | 3.91/4.73 | 5.29/6.72 | 0.04/0.03 | |
| Marker90210-Marker91133 | 13.09/4.95/8.93/4.02/5.8/14.53 | 19.87/8.92/19.17/8.6/10.1/23.31 | -0.08/-0.09/-0.07/-0.05/-0.06/-0.06 | |
| Marker111000-Marker110965 | 5.36/5.98 | 9.07/9.89 | -0.05/-0.06 | |
| GL | Marker40793-Marker40901 | 5.31/2.97/6.1/5.69/3.87/5.68 | 11.86/6.55/10.17/10.31/7.37/9.54 | -0.13/-0.08/-0.12/-0.1/-0.09/-0.09 |
| Marker69377-Marker69395 | 2.83/3.66 | 6.28/6.26 | -0.08/-0.07 | |
| Marker71923-Marker71919 | 3.79/3.82 | 6.13/6.76 | -0.09/-0.08 | |
| Marker87807-Marker87738 | 5.32/4.62/7.72/3.39/5.37/7.41 | 11.85/10.15/13.11/5.96/10.37/12.7 | -0.13/-0.12/-0.13/-0.08/-0.11/-0.1 | |
| Marker99119-Marker99140 | 4.17/5/3.17 | 6.95/8.98/5.17 | 0.1/0.1/0.06 | |
| Marker111521-Marker111597 | 3/4.64/6.19 | 6.63/11.34/10.49 | -0.09/-0.11/-0.09 | |
| PH | Marker5758-Marker6328 | 5.58/6.07/3.64 | 7.62/7.53/5.87 | 2.96/3.03/2.65 |
| Marker35344-Marker35422 | 3.42/4.31/3/4.7/3.14/2.56 | 4.54/5.23/6.73/9.38/5.03/6.2 | 2.29/2.53/3/3.72/2.46/2.31 | |
| Marker57956-Marker57959 | 4.76/5.71 | 6.43/7.05 | -2.73/-2.95 | |
| Marker72631-Marker72950 | 3.02/2.91/2.52 | 7.18/7.03/5.62 | -2.8/-2.32/-2.2 | |
| Marker83905-Marker83879 | 3.07/3.18 | 4.07/3.8 | 2.17/2.16 | |
| Marker90459-Marker90388 | 6.13/8.86/5.6 | 8.42/11.37/9.25 | -3.24/-3.88/-3.46 | |
| GNS | Marker35164-Marker35422 | 2.57/2.63/4.73 | 5.73/4.97/6.46 | -1.44/-1.93/-1.27 |
| Marker90628-Marker91587 | 3.35/3.83/4.91 | 7.73/7.46/6.56 | 2.07/2.46/1.33 | |
| SL | Marker35344-Marker35422 | 3.42/6.86/6.82/8.05/8.05/8.83/4.82/4.43/7.43 | 6.84/11.15/9.46/10.91/14.89/13.41/6.18/8.31/13.51 | 0.46/0.6/0.66/0.76/0.75/0.7/0.53/0.48/0.58 |
| Marker69427-Marker69525 | 2.59/6/2.61 | 3.47/7.8/4.22 | -0.36/-0.6/-0.32 | |
| Marker81580-Marker81513 | 2.99/3.06/2.87/2.51 | 5.96/4.76/3.79/4.04 | 0.43/0.39/0.42/0.32 | |
| Marker91133-Marker91933 | 4.62/3 | 5.9/5.63 | -0.54/-0.39 | |
| SNS | Marker15740-Marker17413 | 16.86/4.13/6.11/5.4 | 16.18/7.47/9.85/8.21 | 0.82/0.35/0.4/0.25 |
| Marker23471-Marker23475 | 5.65/4.49 | 8.39/6.77 | -0.5/-0.22 | |
| Marker57882-Marker57915 | 2.51/4.94/5.3/5.63 | 2.34/10.46/9.69/9.68 | -0.31/-0.41/-0.39/-0.27 | |
| Marker103527-Marker103903 | 3.25/4.47 | 5.06/8.18 | 0.28/0.3 |
PVE mean of phenotypic variation explained, LOD logarithm of the odd, Add additive effect (Positive values indicate that the alleles from CM39 increases the trait scores, and negative values indicate that the allele from CM42 increases the trait scores), BLUP best linear unbiased prediction, Chr. chromosome, Env. environment