Table 3.
Representative markers for quantitative trait loci (QTL) of wheat pre-harvest sprouting resistance identified in at least two of the experiments using sprouting rates (%) evaluated in the fall 2011 (2011F), spring 2012 (2012S), fall 2012 (2012F) and spring 2013 (2013S) greenhouse experiments, the 2013 and 2014 Manhattan (2013MH and 2014MH) and 2013 and 2014 Hays (2013Hays and 2014Hays) field experiments, and using the best linear unbiased predictions (BLUP) of each accession from all the greenhouse (GH_BLUP) and field (Field_BLUP) experiments
| Chromosome | Marker name | Marker type | Chromosome position (cM)a | Positive allele frequency | p | R 2 (%)b | Experiment |
|---|---|---|---|---|---|---|---|
| 1A | BS00011787_51 | 90K | 34.28 | 0.49 | 3.30E-05 | 9.2 | 2013MH |
| 1A | Kukri_c60564_136 | 90K | 50.20 | 0.93 | 6.54E-05 | 9.1 | 2011F |
| 1D | Ex_c6765_2118 | 90K | 48.90 | 0.83 | 5.74E-04 | 6.7 | 2013S |
| 1D | wsnp_Ku_c19622_29138795 | 90K | - | 0.67 | 3.38E-04 | 7.3 | 2013S |
| 1D | Xgwm337 | SSR | - | 0.18 | 4.98E-04 | 17.8 | 2012S |
| 1.30E-04 | 13.3 | 2013S | |||||
| 4.70E-04 | 13.5 | GH_BLUP | |||||
| 2D | BobWhite_c1477_315 | 90K | - | 0.33 | 9.48E-04 | 6.2 | 2013S |
| 2D | Xgwm539 | SSR | - | 0.11 | 5.00E-04 | 11.7 | 2013MH |
| 6.00E-04 | 15.1 | 2014Hays | |||||
| 3.38E-04 | 16.7 | Field_BLUP | |||||
| 3AS | wsnp_Ex_rep_c67702_66370241 | 9K | 9.12 | 0.78 | 4.42E-05 | 9.5 | 2011F |
| 3AS | wsnp_Ra_c2339_4506620 | 9K | 9.12 | 0.38 | 5.28E-05 | 8.7 | 2013MH |
| 5.66E-05 | 8.5 | Field_BLUP | |||||
| 3AS | KASP-TaPHS1.1 | STS | - | 0.78 | 5.55E-05 | 9.3 | 2011F |
| 3AS | Xbarc57.2 | SSR | - | 0.79 | 6.74E-06 | 14.0 | 2013MH |
| 6.56E-06 | 14.2 | 2013Hays | |||||
| 9.46E-05 | 15.3 | 2014MH | |||||
| 2.00E-04 | 13.7 | 2014Hays | |||||
| 3.78E-06 | 15.9 | Field_BLUP | |||||
| 3AL | wsnp_Ku_c5359_9531713 | 9K | L201.88 | 0.89 | 2.50E-04 | 7.6 | 2012S |
| 3AL | Tamyb10-A1-66 | STS | 114.02 | 0.61 | 4.67E-07 | 12.1 | 2013MH |
| 1.82E-05 | 9.2 | 2013Hays | |||||
| 3.00E-04 | 6.8 | 2014MH | |||||
| 2.83E-05 | 8.6 | 2014Hays | |||||
| 2.01E-06 | 10.9 | Field_BLUP | |||||
| 3AL | Xwmc559-1 | SSR | 107.20 | 0.89 | 9.00E-04 | 10.4 | 2013Hays |
| 3B | wsnp_BE446087B_Ta_2_1 | 9K | 46.66 | 0.91 | 3.22E-05 | 9.3 | 2013Hays |
| 3BL | Xbarc77 | SSR | - | 0.94 | 5.33E-04 | 12.3 | 2012S |
| 4.00E-04 | 7.6 | 2013MH | |||||
| 2.00E-04 | 9.5 | 2014Hays | |||||
| 4.82E-04 | 8.1 | Field_BLUP | |||||
| 3BL | Xgwm108 | SSR | - | 0.81 | 9.00E-04 | 7.0 | 2013MH |
| 2.00E-04 | 7.5 | 2014MH | |||||
| 5.68E-04 | 7.3 | Field_BLUP | |||||
| 3BL | Xgwm181 | SSR | - | 0.92 | 3.00E-04 | 12.2 | 2011F |
| 3DS | BS00067117_51 | 90K | - | 0.47 | 8.26E-06 | 11.1 | 2014MH |
| 8.56E-05 | 7.4 | 2014Hays | |||||
| 3DS | Kukri_c50527_241 | 90K | - | 0.35 | 8.46E-04 | 6.3 | 2012S |
| 2.97E-05 | 9.7 | 2014MH | |||||
| 3DS | BobWhite_c3111_636 | 90K | - | 0.32 | 1.15E-05 | 10.8 | 2014MH |
| 8.88E-05 | 7.4 | 2014Hays | |||||
| 7.09E-05 | 8.3 | Field_BLUP | |||||
| 3DL | BS00067163_51 | 90K | 92.34 | 0.52 | 7.79E-05 | 8.3 | 2013MH |
| 3DL | Tamyb10-D1-93 | STS | - | 0.56 | 6.00E-04 | 5.7 | 2013MH |
| 3.00E-04 | 6.7 | 2013Hays | |||||
| 4A | Ex_c66324_1151 | 90K | 76.97 | 0.42 | 3.67E-17 | 47.6 | 2012F |
| 2.37E-05 | 9.9 | 2014MH | |||||
| 1.34E-12 | 31.5 | GH_BLUP | |||||
| 4A | wsnp_Ex_rep_c66324_64493429 | 90K | 76.97 | 0.43 | 1.51E-16 | 45.3 | 2012F |
| 2.60E-05 | 9.8 | 2014MH | |||||
| 2.99E-12 | 30.4 | GH_BLUP | |||||
| 4A | Xbarc236 | SSR | 92.92 | 0.23 | 7.41E-05 | 14.1 | 2012F |
| 4A | Xwmc757 | SSR | - | 0.11 | 9.84E-04 | 11.9 | 2012S |
| 5A | BobWhite_c4004_61 | 90K | 35.36 | 0.83 | 2.62E-04 | 7.6 | 2013S |
| 5A | Excalibur_c54774_408 | 90K | 47.99 | 0.77 | 5.60E-04 | 6.7 | 2012S |
| 6B.2 | wsnp_Ex_c19525_28494827 | 90K | 94.46 | 0.91 | 1.21E-05 | 10.2 | 2013MH |
| 8.19E-06 | 10.8 | 2013Hays | |||||
| 2.81E-05 | 9.3 | Field_BLUP | |||||
| 6B.2 | Excalibur_c15109_942 | 90K | 95.60 | 0.64 | 4.29E-04 | 7.0 | 2013S |
| 6B | Xgwm88 | SSR | - | 0.91 | 9.55E-04 | 8.9 | 2012S |
| 7A | wsnp_Ex_c26509_35755018 | 9K | 69.63 | 0.95 | 1.41E-06 | 13.5 | 2011F |
| 7A | Xwmc603 | SSR | - | 0.92 | 1.00E-04 | 25.4 | 2011F |
| 7A | Xgwm130 | SSR | - | 0.94 | 5.00E-04 | 10.6 | 2013MH |
| 1A/1D/3A/5B | Xbarc148 | SSR | - | 0.83 | 1.38E-08 | 22.8 | 2013MH |
| 3.38E-05 | 11.9 | 2013Hays | |||||
| 2.22E-05 | 14.5 | 2014Hays | |||||
| 3.43E-06 | 14.7 | Field_BLUP | |||||
| 5ABD | Xbarc232 | SSR | - | 0.92 | 6.00E-04 | 10.3 | 2013MH |
| 4.40E-05 | 12.6 | 2014MH | |||||
| 3.97E-05 | 13.6 | 2014Hays | |||||
| 3.80E-04 | 10.9 | Field_BLUP |
aThe positions of markers on W7984 reference sequence
bPhenotypic variance explained by a significant marker significantly related to pre-harvest sprouting resistance