TABLE 2

Characteristics of O. rufipogon-derived QTL-affecting traits in a BC2 testcross population

TraitQTLChromosomeMarkerPV (%)aPbVC classcMixed classdRC classcAllele effecteV/64 (%)f
Days to heading dth1.1 1 RG5324.320.000374.6376.2377.833.204.27
dth3.1 3 RG9444.040.000574.5975.7876.972.383.17
dth5.1 5 RG4353.000.002874.6175.6776.732.122.83
dth6.1 6 RG26415.21<0.000175.3173.5771.83–3.48–4.64
dth7.1 7 RG1466.60<0.000174.6477.0779.504.866.48
dth8.1 8 BCD1476.91<0.000174.5376.0077.472.943.92
dth12.1 12 RZ8164.010.000575.0774.2573.43–1.64–2.19
Days to maturity dtm1.1 1 RG5325.81<0.0001109.30111.23113.163.863.54
dtm3.1 3 CDO3373.240.0019109.29110.42111.552.262.07
dtm3.2 3 RG9443.680.0009109.29110.46111.632.342.15
dtm5.1 5 RG4352.860.0035109.30110.38111.462.161.98
dtm6.1 6 RM25310.57<0.0001109.85108.39106.93–2.92–2.68
dtm7.1 7 RG1466.97<0.0001109.32111.93114.545.224.79
dtm8.1 8 BCD1476.09<0.0001109.21110.66112.112.902.66
dtm12.1 12 RZ8163.400.0014109.75108.96108.17–1.58–1.45
Plant height (cm) ph1.1 1 RZ73044.77<0.0001101.81123.04144.2742.4641.96
ph1.2 1 RG53211.28<0.0001102.48112.68122.8820.4020.16
ph4.1 4 Y10658.49<0.0001102.20108.56114.9212.7212.57
ph8.1 8 RM21014.47<0.0001102.46114.50126.5424.0823.79
ph9.1 9 RM2199.87<0.0001102.53111.84121.1518.6218.40
ph12.1 12 CDO45917.82<0.0001102.44117.30132.1629.7229.37
Panicle length (cm) pl1.1 1 RZ73014.20<0.000122.9824.5926.203.2214.25
pl1.2 1 RG1735.120.000123.0324.0725.112.089.20
pl2.1 2 RZ5995.150.000122.9423.4824.011.054.61
pl4.1 4 Y10654.870.000222.9823.6224.261.285.66
pl8.1 8 RM2106.90<0.000123.0324.1325.232.209.73
pl9.1 9 RG3865.330.000122.9523.5724.191.245.49
pl12.1 12 CD04594.480.000223.0424.0425.042.008.85
Panicles per plant ppl1.1 1 RZ7763.810.000710.2711.2412.211.9416.87
ppl2.1 2 RG2563.440.001410.2711.1512.031.7615.30
Spikelets per panicle spp1.1 1 RZ7307.81<0.0001114.71128.89143.0728.3623.89
spp1.2 1 RG5324.450.0003114.91125.15135.3920.4817.25
spp6.1 6 RM33.760.0010117.96113.01108.06–9.90–8.34
spp9.1 9 RG3863.500.0018114.47120.57126.6712.2010.28
Spikelets per plant spl1.1 1 RZ7304.230.00041187.541358.201528.86341.3225.00
Grains per panicle gpp1.1 1 RZ73013.36<0.000169.4185.87102.3332.9236.98
gpp4.1 4 RZ6565.180.000171.3462.1953.04–18.30–20.56
gpp8.1 8 RM254.430.000371.6265.1758.72–12.90–14.49
gpp8.2 8 CD0995.180.000169.4077.4385.4616.0618.04
gpp12.1 12 CD04594.920.000169.9381.0192.0922.1624.89
Grains per plant gpl1.1 1 RZ7762.470.0067722.38793.96865.54143.1613.98
gpl2.1 2 RG2562.310.0088722.06788.36854.66132.6012.95
gpl4.1 4 RZ6564.230.0006744.50624.05505.60–240.90–23.53
gpl5.1 5 RG4353.960.0006746.21647.25548.29–197.92–19.33
gpl8.1 8 RM256.57<0.0001751.31638.24525.17–226.14–22.09
gpl8.2 8 RM2103.080.0027726.91840.90954.89227.9822.27
Percentage seed set pss2.1 2 RG5203.980.000760.6064.3968.187.5810.11
pss3.1 3 RG9444.140.000461.8157.4553.09–8.72–11.63
pss4.1 4 CDO363.000.002860.5763.6966.816.248.32
pss4.2 4 RZ6567.00<0.000162.0354.9747.91–14.12–18.83
pss5.1 5 RG4353.920.000661.8557.5153.17–8.68–11.57
pss7.1 7 RG1463.990.000561.5554.6547.75–13.80–18.40
pss8.1 8 RM2514.61<0.000162.4754.7046.93–15.54–20.72
1000-grain weight (g) gw2.1 2 RG5202.780.004626.7826.1925.60–1.18–4.45
gw3.1 3 RZ67210.22<0.000127.0426.1825.32–1.72–6.49
gw4.1 4 RZ2625.170.000126.5427.4328.321.786.72
gw5.1 5 Y10499.56<0.000126.9326.0125.09–1.84–6.94
gw8.1 8 RZ3233.140.002226.5827.2327.881.304.91
gw9.1 9 RZ4224.810.000126.5927.7028.812.228.38
gw11.1 11 RM20B6.81<0.000126.5527.5728.592.047.70
gw12.1 12 RG1904.490.000326.5727.3328.091.525.74
Grain yield (tons/ha) yld1.1 1 RM52.810.00405.776.386.991.2218.26
yld2.1 2 RG2562.560.00585.766.336.901.1417.07
yld4.1 4 RZ6563.520.00175.945.064.19–1.76–26.32
yld5.1 5 RG4353.000.00285.965.274.58–1.37–20.57
yld8.1 8 RM255.160.00015.995.204.40–1.59–23.80
yld8.2 8 RM2104.160.00055.816.346.871.0715.94
yld12.1 12 CDO4592.880.00345.816.306.790.9814.61
  • a Percentage of the phenotypic variance explained by the QTL.

  • b Probability that the marker genotype had no effect on the trait.

  • c Genotypic classes defined by single markers: VC is the heterozygote (V20A/Ce64) and RC is the interspecific heterozygote (O. rufipogon/Ce64) in the BC2 testcross population.

  • d A BC2 testcross family that had a heterozygous marker genotype, with one allele from the maternal parent (V20A or V20B) and the other allele from O. rufipogon in the BC2 plant from which the BC2 testcross family was produced. Theoretically, half of the individuals have a VC genotype and half have a VR genotype in such a BC2 testcross family.

  • e The allele effect of a QTL is the difference of the phenotypic means between RC and VC classes.

  • f Percentage increase or decrease of the RC class in comparison to the elite V/64 hybrid.