TABLE 2

Simulation results of using different QTL mapping methods under the F2/F3 design with different numbers of phenotyping progeny

QAQB
DesignMethodPosi = 25a1 = 2LRTPower (%)Posi = 25a2 = 2LRTPower (%)iad = 2σ2 = 85.5LRT
F2/F3 k = 1IMe43.071.434.691137.732.066.8026
(29.46)(1.53)(3.06)(27.41)(1.46)(4.21)
a43.551.454.671036.782.056.7124
(29.77)(1.51)(3.06)(26.44)(1.44)(4.08)
MIMae43.061.464.901237.732.087.072781.6311.70
(30.34)(1.52)(3018)(27.41)(1.46)(4.48)(9.99)(5.69)
a43.001.484.841136.782.066.942584.4211.58
(29.91)(1.50)(3.26)(26.44)(1.45)(4.36)(9.90)(5.52)
MIMbe43.061.626.721237.732.039.43321.2577.7013.52
(29.23)(2.01)(3.39)(27.41)(1.44)(5.04)(5.48)(10.22)(5.93)
a42.581.376.661736.782.059.34330.7383.5813.37
(28.42)(4.42)(3.51)(26.44)(1.46)(5.16)(2.94)(9.90)(5.85)
F2/F3 k = 3IMe30.121.568.313728.162.0413.8979
(19.09)(0.25)(4.29)(14.47)(0.49)(5.90)
a29.681.578.303726.782.0813.7979
(18.71)(0.58)(4.30)(13.52)(0.19)(5.89)
MIMae32.221.518.774028.162.0914.448083.9522.66
(22.61)(0.68)(4.66)(14.47)(0.49)(6.15)(10.62)(4.21)
a31.161.518.753926.782.0814.347985.9022.54
(20.97)(0.68)(4.65)(13.52)(0.48)(6.15)(10.59)(7.20)
MIMbe29.601.8210.424628.162.0915.68831.4882.224.31
(22.43)(1.04)(4.44)(14.47)(0.49)(6.81)(2.96)(10.59)(4.13)
a28.741.4510.424726.782.0916.42820.7885.0124.21
(21.36)(0.76)(4.39)(13.52)(0.49)(6.64)(1.49)(10.52)(7.10)
F2/F3 k = 5IMe28.641.5612.336725.222.0220.2291
(16.09)(0.49)(5.89)(8.25)(0.47)(8.90)
a28.561.5612.316725.252.0120.1391
(16.07)(0.48)(5.87)(8.23)(0.16)(8.86)
MIMae27.121.5112.927025.222.0021.069285.9933.14
(13.04)(0.49)(6.06)(8.25)(0.45)(9.09)(10.53)(9.67)
a27.041.5212.977025.252.0020.989287.6833.14
(12.90)(0.49)(6.08)(8.23)(0.45)(9.01)(10.52)(9.66)
MIMbe27.541.9614.947325.222.0122.31931.9184.2535.16
(15.82)(0.68)(6.40)(8.25)(0345)(9.92)(2.18)(10.34)(10.07)
a27.101.4815.007225.252.0123.54930.9884.2535.16
(16.03)(0.49)(6.46)(8.23)(0.45)(9.79)(1.10)(10.36)(10.12)
F2/F3 k = 10IMe26.031.5319.659325.532.0235.8100
(8.42)(0.40)(8.42)(4.49)(0.35)(11.62)
a26.211.5419.649325.522.0135.65100
(8.31)(0.42)(8.03)(4.50)(0.35)(11.58)
MIMae26.21.4922.299925.531.9938.6410085.3858.09
(8.27)(0.29)(7.93)(4.49)(0.33)(12.26)(9.24)(13.84)
a26.141.4922.359925.521.9938.2510054.0158.00
(8.34)(0.29)(7.92)(4.50)(0.33)(12.22)(0.92)(13.81)
MIMbe27.041.8924.679925.532.0040.151001.6283.7460.47
(10.42)(0.46)(8.14)(4.49)(0.34)(12.70)(1.38)(8.83)(13.87)
a27.301.4924.739925.522.0041.251000.8185.3760.38
(10.39)(0.31)(8.13)(4.50)(0.34)(12.49)(0.69)(0.89)(13.83)
  • A total of 100 replicates, each with sample size 200, were analyzed with two unlinked epistatic QTL, QA and QB, controlling the trait variation. The heritability is 0.05 in the F2 population. The critical value for the methods of IM and MIM without epistasis is Embedded Image, and the value for MIM with epistasis is Embedded Image. Posi, position. k, the number of phenotyping progeny. e, proposed (exact) method. a, approximate method.

  • a Without epistasis.

  • b With epistasis.