Table 7.
Eighteen QTL identified on B genome by joint inclusive composite interval mapping (JICIM) for the CIMMYT NAM population.
| QTL | Trait name | Chr. | Pos. (cM) | Left markera | Right markera | Length (cM) | LOD | PVE (%)b | PB/DZc | PB/CB | PB/JC | PB/KS | PB/KB | PB/KK | PB/P76 | PB/MU | PB/KN | Known gene/QTL region |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| q1BS-1 | SR-OS2010 | 1BS | 14 | wPt-2389 | wPt-9639 | 3.2 | 32.4 | 18.8 | 2.8 | 6.3 | 7.0 | 13.6 | 8.0 | 2.8 | 9.5 | −6.1 | 8.7 | Validated by in silico mapping |
| YR-T2010 | 1BS | 33 | tPt-0325 | wPt-8177 | 1.3 | 8.2 | 11.6 | 1.3 | −0.6 | −0.9 | −7.6 | 0.7 | −11.0 | 3.1 | 0.3 | 2.3 | ||
| SR-MS2010 | 1BS | 38 | wPt-668076 | wPt-8682 | 1.5 | 53.0 | 27.9 | 2.5 | 7.0 | 6.1 | 15.8 | 19.4 | 9.3 | 8.2 | −3.7 | 14.1 | ||
| q1BS-2 | YR-T2010 | 1BS | 119 | wPt-3266 | wPt-0595 | 4.8 | 7.9 | 10.6 | 2.3 | −1.8 | 0.7 | −6.9 | 0.6 | −9.8 | 3.1 | −0.1 | 3.1 | |
| SR-MS2010 | 1BS | 131 | wPt-5740 | wPt-7905 | 0.9 | 66.4 | 18.7 | 2.9 | 11.7 | 9.4 | 16.9 | 19.6 | 10.0 | 8.6 | 5.6 | 14.5 | ||
| SR-OS2010 | 1BS | 133 | wPt-2075 | wPt-744960 | 1.3 | 39.7 | 26.4 | 3.3 | 5.6 | 8.5 | 15.0 | 8.6 | 2.8 | 9.7 | −8.8 | 9.7 | ||
| q1BL | LR-2010 | 1BL | 181 | wPt-742017 | wPt-2526 | 27.6 | 5.1 | 23.4 | 0.2 | 0.7 | −3.1 | −2.4 | −13.0 | Sr58/Yr29/Lr46 | ||||
| YR-T2010 | 1BL | 185 | wPt-742017 | wPt-2526 | 27.6 | 9.7 | 31.6 | 2.1 | −3.3 | 3.8 | 1.1 | 2.45 | −24.9 | 2.9 | 0.8 | −4.4 | ||
| YR-T2010 | 1BL | 200 | wPt-0944 | wPt-7066 | 12.3 | 9.0 | 9.6 | 0.8 | −3.5 | 3.3 | −5.1 | 1.7 | −12.2 | 0.3 | 0.7 | −4.0 | ||
| q2BS-1 | LR-2010 | 2BS | 45 | wPt-1964 | wPt-8398 | 16.4 | 6.6 | 4.6 | −0.2 | −0.2 | 7.4 | 1.4 | 2.9 | (Yu et al., 2011); Validated by in silico mapping | ||||
| SR-MS2009 | 2BS | 46 | wPt-1964 | wPt-8398 | 16.4 | 5.5 | 12.2 | 3.9 | 9.3 | 3.3 | 1.0 | 3.0 | ||||||
| q2BS-2 | LR-2010 | 2BS | 127 | wPt-1646 | wPt-2327 | 11.5 | 5.5 | 7.5 | 0.3 | −1.2 | 6.3 | 1.1 | −4.9 | Njau et al., 2013 | ||||
| YR-T2010 | 2BS | 122 | wPt-0489 | wPt-1646 | 4.2 | 9.8 | 5.8 | −5.4 | −0.4 | −1.8 | −1.5 | 0.7 | 7.6 | −0.1 | −3.2 | −4.0 | ||
| SR-MS2009 | 2BS | 110 | wPt-4125 | wPt-0094 | 9.7 | 5.0 | 10.7 | 3.6 | 7.5 | 1.5 | −0.1 | −2.6 | ||||||
| q2BL | SR-MS2010 | 2BL | 26 | wPt-7829 | wPt-2724 | 2.9 | 8.3 | 5.6 | 3.0 | 0.3 | −9.9 | 1.01 | 0.1 | −3.9 | 2.1 | −1.9 | −1.8 | (Kaur et al., 2009); Validated by in silico mapping |
| q3BS-1 | YR-K2011 | 3BS | 28 | wPt-666139 | wPt-3921 | 3.0 | 3.3 | 10.8 | 2.1 | Sr2/Yr30/Lr27 (Kaur et al., 2009); Validated by in silico mapping | ||||||||
| SR-MS2010 | 3BS | 34 | wPt-3921 | wPt-800213 | 8.9 | 50.0 | 19.1 | −5.5 | 1.5 | 9.0 | 10.1 | 13.2 | 12.1 | 12.0 | 14.5 | 11.3 | ||
| LR-2010 | 3BS | 35 | wPt-3921 | wPt-800213 | 8.9 | 4.3 | 3.8 | 0.0 | 0.2 | −6.1 | −0.8 | 2.0 | ||||||
| YR-K2010 | 3BS | 38 | wPt-800213 | wPt-3609 | 1.8 | 5.4 | 8.4 | −1.6 | 4.0 | 0.9 | 6.9 | 0.4 | ||||||
| SR-MS2009 | 3BS | 39 | wPt-800213 | wPt-3609 | 1.8 | 20.5 | 25.9 | 1.6 | 12.6 | 5.5 | 6.7 | 3.5 | ||||||
| YR-T2010 | 3BS | 39 | wPt-800213 | wPt-3609 | 1.8 | 9.4 | 2.3 | 2.7 | 1.7 | 0.3 | 5.3 | 4.4 | −0.1 | 0.2 | 1.3 | 0.8 | ||
| SR-MS2011 | 3BS | 40 | wPt-3761 | wPt-2757 | 8.2 | 23.1 | 43.7 | 6.9 | 11.5 | |||||||||
| SR-OS2010 | 3BS | 41 | wPt-3761 | wPt-2757 | 8.2 | 53.6 | 15.6 | −5.1 | 1.3 | 8.0 | 11.6 | 11.2 | 14.0 | 9.6 | 10.5 | 10.7 | ||
| q3BS-2 | YR-T2010 | 3BS | 99 | wPt-743847 | wPt-1081 | 6.2 | 5.9 | 1.8 | −0.6 | 2.1 | −3.2 | 1.4 | 3.4 | 2.3 | 2.2 | 1.2 | −0.8 | Njau et al., 2013 |
| SR-MS2009 | 3BS | 104 | wPt-1081 | wPt-9066 | 9.7 | 17.3 | 23.4 | −0.9 | 9.8 | 5.0 | 7.8 | 3.5 | ||||||
| SR-OS2010 | 3BS | 107 | wPt-1081 | wPt-9066 | 9.7 | 29.3 | 10.3 | 0.9 | −3.3 | 5.4 | 3.8 | 9.1 | 10.0 | 9.8 | 10.2 | 7.3 | ||
| SR-MS2010 | 3BS | 108 | wPt-1081 | wPt-9066 | 9.7 | 33.1 | 16.0 | 0.8 | −0.8 | 4.25 | 1.92 | 9.8 | 9.8 | 11.5 | 14.1 | 10.6 | ||
| YR-K2011 | 3BS | 111 | wPt-1081 | wPt-9066 | 9.7 | 3.7 | 12.7 | 2.3 | ||||||||||
| SR-MS2011 | 3BS | 114 | wPt-9066 | wPt-740604 | 9.9 | 16.3 | 45.8 | −1.3 | 10.9 | |||||||||
| q3BS-3 | SR-OS2010 | 3BS | 186 | wPt-664393 | wPt-9170 | 0.4 | 9.4 | 10.6 | 5.8 | −0.1 | 4.2 | 10.6 | −5.8 | 5.5 | −1.0 | 1.3 | 1.7 | |
| q3BS-4 | LR-2010 | 3BS | 233 | rPt-5396 | wPt-5786 | 22.5 | 5.5 | 4.0 | 1.7 | 1.2 | 7.0 | −0.8 | −0.3 | Yu et al., 2011 | ||||
| SR-MS2010 | 3BS | 259 | wPt-10142 | wPt-7786 | 10.1 | 12.6 | 4.7 | 3.8 | 12.2 | 7.2 | 3.7 | 4.5 | 5.0 | 3.0 | 3.8 | 1.6 | ||
| YR-T2010 | 3BS | 261 | wPt-4364 | wPt-1940 | 0.6 | 15.9 | 14.0 | 1.4 | −0.1 | −0.4 | 3.6 | −0.5 | 2.1 | −12.0 | −0.5 | 0.5 | ||
| q3BL-1 | LR-2010 | 3BL | 328 | wPt-11278 | wPt-0021 | 27.7 | 4.5 | 3.8 | −0.4 | −0.9 | 6.9 | 0.4 | 1.4 | |||||
| SR-OS2010 | 3BL | 346 | wPt-0021 | wPt-9368 | 13.8 | 9.5 | 13.3 | 3.0 | −6.6 | −9.9 | 9.58 | 1.2 | −0.5 | −0.9 | 1.5 | 2.6 | ||
| q3BL-2 | YR-K2010 | 3BL | 384 | wPt-6834 | wPt-6131 | 3.6 | 5.4 | 11.2 | 3.9 | −0.1 | −0.6 | −8.0 | −0.4 | |||||
| q4BS | LR-2010 | 4BS | 5 | wPt-5559 | wPt-4607 | 13.2 | 7.6 | 5.0 | 0.8 | 0.3 | 7.5 | −0.5 | 2.9 | Kaur et al., 2009 | ||||
| q5BL | LR-2010 | 5BL | 9 | wPt-5896 | wPt-1304 | 24.6 | 11.2 | 11.4 | 0.3 | 1.8 | 7.3 | −2.6 | −6.1 | Kaur et al., 2009 | ||||
| SR-OS2010 | 5BL | 20 | wPt-5896 | wPt-1304 | 24.6 | 5.4 | 17.7 | 1.3 | 4.3 | −1.8 | 13.9 | −2.2 | −1.1 | 1.3 | −2.1 | −4.2 | ||
| q6BS | LR-2010 | 6BS | 55 | wPt-5971 | wPt-2964 | 5.4 | 6.9 | 2.2 | 1.5 | −0.3 | −4.9 | −0.7 | −1.5 | |||||
| q6BL | SR-MS2010 | 6BL | 6 | wPt-2164 | wPt-3168 | 4.2 | 6.6 | 6.7 | 2.6 | −1.2 | −4.2 | 8.4 | −0.5 | −0.9 | 2.5 | 2.1 | 4.4 | |
| SR-OS2010 | 6BL | 9 | wPt-2164 | wPt-3168 | 4.2 | 6.1 | 11.6 | 0.9 | −2.4 | −2.2 | 12.1 | −3.2 | −1.8 | 1.5 | 1.3 | 1.0 | ||
| YR-T2010 | 6BL | 16 | wPt-743099 | wPt-8721 | 17.6 | 7.5 | 2.6 | 4.2 | 0.1 | 1.0 | 3.8 | 1.0 | −3.4 | 1.7 | 3.9 | 2.5 | ||
| SR-MS2009 | 6BL | 21 | wPt-743099 | wPt-8721 | 17.6 | 3.8 | 8.0 | −0.6 | 1.7 | −1.2 | 5.6 | 1.4 | ||||||
| q7BS | SR-OS2010 | 7BS | 24 | wPt-0138 | wPt-1541 | 26.2 | 9.5 | 31.1 | 0.0 | −3.8 | 1.9 | 6.9 | 4.0 | −0.8 | −3.3 | −20.2 | −1.4 | Yu et al., 2011; Ghazvini et al., 2012 |
| YR-T2010 | 7BS | 29 | wPt-0138 | wPt-1541 | 26.2 | 5.3 | 3.7 | −2.1 | −0.6 | 0.8 | −0.8 | −2.5 | −0.9 | −4.9 | −7.1 | −0.6 | ||
| q7BL | SR-OS2010 | 7BL | 44 | wPt-664219 | wPt-0194 | 12.5 | 7.1 | 23.2 | 2.6 | −3.5 | −0.2 | −3.5 | −0.9 | 4.7 | 2.5 | −18.6 | −0.8 | |
| LR-2011 | 7BL | 45 | wPt-664219 | wPt-0194 | 12.5 | 4.2 | 17.1 | −0.2 | −0.7 | 3.7 | −4.9 | |||||||
| YR-T2010 | 7BL | 45 | wPt-664219 | wPt-0194 | 12.5 | 6.1 | 9.4 | 6.8 | −0.9 | −1.9 | 5.5 | −0.5 | 5.6 | 0.1 | −6.6 | −0.7 |
a
Marker name in bold means this marker was also detected by single family mapping;
b
PVE, the phenotypic variance explained;
c
PB/DZ, PB/CB, PB/JC, PB/KS, PB/KB, PB/KK, PB/P76, PB/MU, and PB/KN were the RIL populations derived by PBW343 and Diniza, PBW343 and Crosbill, PBW343 and Juchi, PBW343 and Kenya Swara, PBW343 and Kingbird, PBW343 and Kenya Kudu, PBW343 and Pavon76, PBW343 and MUU, and PBW343 and Kenya Nyangumi, respectively. Underlined values were significant additive effects. Blanks means additive effects cannot be estimated, since there was no phenotypic data under the corresponding family. LOD threshold of 4.0 was used to report QTLs and determine common QTL across trials and populations. QTL having LOD score in the range of 3.0–4.0, and with pleiotropic effect with other QTL having LOD score higher than 4.0, were also reported.