Table 3 QTL with same effect direction between TeoNAM and BC2S3
TraitQTLChrQTL peak (V4) (Mb)Support interval (V4) (Mb)QTL peak (cM)Support interval (cM)P-valueTIL01TIL03TIL11TIL14TIL258759aCandidate gene
BAREBARE4.3455.939.0–124.361.558.2–66.84.72E–070.190.250.190.14b0.09b0.63tga1
DTADTA1.114.52.8–5.69.03.4–13.21.26E–160.591.021.231.310.770.81zagl1
DTADTA3.33231.4226.3–233.4167.2156.7–170.04.54E–080.641.050.680.13b0.730.49
DTADTA5.156.96.7–7.230.729.2–31.52.62E–181.110.801.111.241.300.66Zmm31
DTADTA7.27180.4180.1–180.8140.7139.3–141.82.92E–140.531.370.770.581.160.59dlf1
DTADTA8.18126.9126.6–126.968.368.2–68.34.05E–541.642.002.631.721.591.54ZCN8
DTADTA9.19117.5115.7–118.872.972.4–74.64.76E–330.653.161.240.741.390.79ZmCCT9
DTADTA10.11095.494.9–99.454.754.3–55.19.29E–1213.473.222.464.874.543.61ZmCCT10
EBEB7.17121.5103.9–132.764.860.1–72.75.18E–140.02b0.01b0.060.050.01b0.05
EDED1.31277.1265.1–283.1134.7127.6–141.36.45E–06−1.02−0.28b−1.38−0.25b−0.64−1.87tb1
EDED2.42217.2211.9–223.4123.3116.8–133.51.22E–06−0.46b−0.79−0.39b−0.72−0.85−0.88smk1
EDED3.23218.4214.8–219.8140.1133.8–142.31.34E–13−1.18−0.45−0.72−0.34b−1.33−0.89
EDED4.147.86.8–11.123.821.5–30.11.50E–11−1.59−0.48−0.01b−0.64−0.25b−0.74
EDED7.27163.6160.4–164.298.094.1–98.42.47E–19−0.67−0.94−1.59−1.30−0.78−0.81
ELEL7.17125.5123.7–130.366.865.7–70.54.64E–17−0.82−0.34−0.56−0.21b−0.81−0.97
ELEL8.18156.5150.4–157.682.578.1–83.42.84E–11−0.19b−0.48−0.15b−0.21b−0.68−0.66
ELEL10.110115.0115.0–118.958.558.8–60.06.87E–40−0.12b−0.88−0.85−1.68−1.17−1.34GIF1
GLCOGLCO4.1442.139.0–42.159.658.2–59.65.98E–240.01b0.120.08b0.310.370.27
GLUMGLUM4.1442.140.4–55.959.659.1–61.52.57E–1680.740.770.730.931.060.8tga1
KRNKRN1.31298.5298.1–299.6165.7164.9–168.22.73E–16−0.51−0.58−0.35−0.09b−0.26−0.63ids1
KRNKRN4.34243.5241.6–244.8145.6137.4–152.18.27E–07−0.22−0.41−0.18−0.23−0.23−0.55
KRNKRN5.152.42.3–2.912.711.7–15.08.72E–140.360.510.12b0.400.240.3
KRNKRN7.1795.221.5–123.758.649.6–65.77.00E–11−0.36−0.18−0.54−0.06b−0.42−0.26ra1
KRNKRN8.28171.3169.6–173.4106.8100.8–113.06.70E–13−0.49−0.40−0.38−0.04b−0.15b−0.25
KWKW1.21234.3222.8–252.5110.3106.5–116.46.01E–10−0.01−0.01−0.01−0.00b−0.01−0.01
KWKW2.1253.336.9–57.574.364.3–76.11.32E–11−0.01−0.00b−0.01−0.01−0.00b−0.01
KWKW4.24170.1156.8–174.882.873.6–84.21.69E–08−0.01−0.01−0.01−0.00b−0.00b−0.01
KWKW8.18137.7132.5–145.972.770.4–75.41.31E–12−0.00b−0.01−0.01−0.01−0.01−0.01
REPEREPE1.1147.046.5–51.864.964.4–68.32.71E–11−0.10−0.10−0.06−0.10−0.10−0.10P1
SHNSHN1.11265.1264.1–265.1127.6127.2–127.63.21E–160.080.090.180.170.110.07ZmSh1-1
SHNSHN6.16162.5162.2–163.698.297.4–101.13.49E–110.060.04b0.170.03b0.100.06
STAMSTAM1.21270.5269.8–270.5130.2129.5–130.21.23E–270.280.02b0.120.070.090.11tb1
TILNTILN3.23138.3137.6–158.680.580.2–86.25.22E–240.00b0.420.330.08b0.200.14ZAG2
TILNTILN5.1569.036.0–140.775.469.9–82.76.66E–100.180.240.140.140.160.10
TILNTILN10.11062.525.3–82.147.745.0–51.14.10E–130.150.240.06b0.08b0.280.12
  • BARE, barren ear base; DTA, days to anthesis; EB, ear branch number; ED, ear diameter; EL, ear length; GLCO, glume color; GLUM, glume score; KRN, kernel row number; KW, kernel weight; REPE, red pericarp; SHN, shattering; STAM, staminate spikelet; TILN, tiller number. Chr, chromosome; JLM, joint linkage mapping; TeoNAM, teosinte nested association mapping.

  • a The allele effect of 8759 relative to maize was estimated in BC2S3 by Shannon (2012).

  • b Indicates that the additive allele effect of teosinte relative to maize estimated from JLM in TeoNAM is not significant.