Table 5.
Putative QTL detected for Al tolerance in five MAGIC populations.
| QTL | Alleles | Position | DC1 | DC2 | 8way | DC12 | RMPRIL | Gene Symbol | References | |||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| R2 (%)a | Effectb | R2 (%)a | Effectb | R2 (%)a | Effectb | R2 (%)a | Effectb | R2 (%)a | Effectb | |||||
| qAlSL1.1 | C/T | 5969153 | – | – | – | – | – | – | 4.0 | −1.8 | – | – | – | – |
| qAlSL1.2 | T/C | 38381991 | 15 | −3.7 | – | – | 14.6 | −8 | 9.9 | −4.3 | 6.2 | −5.7 | OsMGT1 | Chen et al., 2012 |
| qAlSL3 | T/C | 35466303 | – | – | – | – | – | – | – | – | 2 | −1.8 | Os03g0760800 | Yamaji et al., 2009 |
| qAlRL1.1 | G/A | 9272759 | – | – | 0.1 | −3.7 | – | – | – | – | – | – | – | – |
| qAlRL1.2 | G/A | 18735343 | – | – | 0.1 | −4.2 | – | – | – | – | – | – | – | – |
| qAlRL1.3 | G/A | 35465639 | 9.4 | 1.2 | – | – | – | – | 5.1 | 1.2 | – | – | AltTRG 1.1 | Famoso et al., 2011 |
| qAlRL1.4 | C/A | 38207031 | – | – | 0.1 | 1.7 | – | – | – | – | 2.2 | 1.0 | OsMGT1 | Chen et al., 2012 |
| qAlRL6 | A/G | 1968315 | – | – | – | – | – | – | – | – | 1.9 | −0.6 | – | – |
| qAlRL12.1 | C/T | 17406215 | – | – | – | – | – | – | – | – | 1.9 | −0.6 | – | – |
| qAlRL12.2 | C/T | 23253056 | – | – | – | – | – | – | – | – | 2.1 | −0.6 | AltTRG 12.2 | Famoso et al., 2011 |
| qAlSDW1 | C/T | 38381358 | – | – | – | – | 4.2 | −0.0064 | – | – | – | – | OsMGT1 | Chen et al., 2012 |
| qAlSDW5 | T/C | 5368362 | 10.2 | −0.0037 | – | – | – | – | 4.9 | −0.0037 | – | – | LOC_Os05g09440 | Krill et al., 2010 |
| qAlSDW6 | A/G | 21082410 | 9.2 | −0.0026 | – | – | – | – | – | – | – | – | LOC_Os06g36450 | Krill et al., 2010 |
| qAlSDW7 | G/A | 8231321 | – | – | – | – | – | – | – | – | 2 | −0.0031 | – | – |
| qAlSDW9 | C/A | 14688117 | – | – | – | – | – | – | – | – | 2.2 | 0.0022 | qRRE-9 | Xue et al., 2006a |
| qAlRDW3 | T/C | 12767754 | 8.2 | 0.0012 | – | – | – | – | 4.4 | 0.0011 | – | – | LOC_Os03g21950 | Krill et al., 2010 |
| qAlRDW6 | G/T | 19697887 | 8.1 | 0.0011 | – | – | – | – | – | – | – | – | – | – |
| qAlRSL11 | C/T | 5880923 | – | – | – | – | 4.4 | 14.2 | – | – | – | – | qRRE-11 | Xue et al., 2006b |
| qAlRRL2 | T/C | 31634550 | – | – | – | – | – | – | – | – | 2.0 | −7.0 | LOC_Os02g51930 | Yamaji et al., 2009 |
| qAlRSDW10 | T/C | 16169758 | 9.6 | −31.7 | – | – | – | – | – | – | – | – | – | – |
| qAlRRDW12 | T/C | 22035605 | – | – | – | – | – | – | – | – | 2.0 | 6.6 | – | – |
a
R2 (%): Phenotypic variance explained.
b
Effect: Allele effect with respect to the minor allele.