Table 3. QTL with same effect direction between TeoNAM and BC2S3.
Trait | QTL | Chr | QTL peak (V4) (Mb) | Support interval (V4) (Mb) | QTL peak (cM) | Support interval (cM) | P-value | TIL01 | TIL03 | TIL11 | TIL14 | TIL25 | 8759a | Candidate gene |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
BARE | BARE4.3 | 4 | 55.9 | 39.0–124.3 | 61.5 | 58.2–66.8 | 4.72E–07 | 0.19 | 0.25 | 0.19 | 0.14b | 0.09b | 0.63 | tga1 |
DTA | DTA1.1 | 1 | 4.5 | 2.8–5.6 | 9.0 | 3.4–13.2 | 1.26E–16 | 0.59 | 1.02 | 1.23 | 1.31 | 0.77 | 0.81 | zagl1 |
DTA | DTA3.3 | 3 | 231.4 | 226.3–233.4 | 167.2 | 156.7–170.0 | 4.54E–08 | 0.64 | 1.05 | 0.68 | 0.13b | 0.73 | 0.49 | |
DTA | DTA5.1 | 5 | 6.9 | 6.7–7.2 | 30.7 | 29.2–31.5 | 2.62E–18 | 1.11 | 0.80 | 1.11 | 1.24 | 1.30 | 0.66 | Zmm31 |
DTA | DTA7.2 | 7 | 180.4 | 180.1–180.8 | 140.7 | 139.3–141.8 | 2.92E–14 | 0.53 | 1.37 | 0.77 | 0.58 | 1.16 | 0.59 | dlf1 |
DTA | DTA8.1 | 8 | 126.9 | 126.6–126.9 | 68.3 | 68.2–68.3 | 4.05E–54 | 1.64 | 2.00 | 2.63 | 1.72 | 1.59 | 1.54 | ZCN8 |
DTA | DTA9.1 | 9 | 117.5 | 115.7–118.8 | 72.9 | 72.4–74.6 | 4.76E–33 | 0.65 | 3.16 | 1.24 | 0.74 | 1.39 | 0.79 | ZmCCT9 |
DTA | DTA10.1 | 10 | 95.4 | 94.9–99.4 | 54.7 | 54.3–55.1 | 9.29E–121 | 3.47 | 3.22 | 2.46 | 4.87 | 4.54 | 3.61 | ZmCCT10 |
EB | EB7.1 | 7 | 121.5 | 103.9–132.7 | 64.8 | 60.1–72.7 | 5.18E–14 | 0.02b | 0.01b | 0.06 | 0.05 | 0.01b | 0.05 | |
ED | ED1.3 | 1 | 277.1 | 265.1–283.1 | 134.7 | 127.6–141.3 | 6.45E–06 | −1.02 | −0.28b | −1.38 | −0.25b | −0.64 | −1.87 | tb1 |
ED | ED2.4 | 2 | 217.2 | 211.9–223.4 | 123.3 | 116.8–133.5 | 1.22E–06 | −0.46b | −0.79 | −0.39b | −0.72 | −0.85 | −0.88 | smk1 |
ED | ED3.2 | 3 | 218.4 | 214.8–219.8 | 140.1 | 133.8–142.3 | 1.34E–13 | −1.18 | −0.45 | −0.72 | −0.34b | −1.33 | −0.89 | |
ED | ED4.1 | 4 | 7.8 | 6.8–11.1 | 23.8 | 21.5–30.1 | 1.50E–11 | −1.59 | −0.48 | −0.01b | −0.64 | −0.25b | −0.74 | |
ED | ED7.2 | 7 | 163.6 | 160.4–164.2 | 98.0 | 94.1–98.4 | 2.47E–19 | −0.67 | −0.94 | −1.59 | −1.30 | −0.78 | −0.81 | |
EL | EL7.1 | 7 | 125.5 | 123.7–130.3 | 66.8 | 65.7–70.5 | 4.64E–17 | −0.82 | −0.34 | −0.56 | −0.21b | −0.81 | −0.97 | |
EL | EL8.1 | 8 | 156.5 | 150.4–157.6 | 82.5 | 78.1–83.4 | 2.84E–11 | −0.19b | −0.48 | −0.15b | −0.21b | −0.68 | −0.66 | |
EL | EL10.1 | 10 | 115.0 | 115.0–118.9 | 58.5 | 58.8–60.0 | 6.87E–40 | −0.12b | −0.88 | −0.85 | −1.68 | −1.17 | −1.34 | GIF1 |
GLCO | GLCO4.1 | 4 | 42.1 | 39.0–42.1 | 59.6 | 58.2–59.6 | 5.98E–24 | 0.01b | 0.12 | 0.08b | 0.31 | 0.37 | 0.27 | |
GLUM | GLUM4.1 | 4 | 42.1 | 40.4–55.9 | 59.6 | 59.1–61.5 | 2.57E–168 | 0.74 | 0.77 | 0.73 | 0.93 | 1.06 | 0.8 | tga1 |
KRN | KRN1.3 | 1 | 298.5 | 298.1–299.6 | 165.7 | 164.9–168.2 | 2.73E–16 | −0.51 | −0.58 | −0.35 | −0.09b | −0.26 | −0.63 | ids1 |
KRN | KRN4.3 | 4 | 243.5 | 241.6–244.8 | 145.6 | 137.4–152.1 | 8.27E–07 | −0.22 | −0.41 | −0.18 | −0.23 | −0.23 | −0.55 | |
KRN | KRN5.1 | 5 | 2.4 | 2.3–2.9 | 12.7 | 11.7–15.0 | 8.72E–14 | 0.36 | 0.51 | 0.12b | 0.40 | 0.24 | 0.3 | |
KRN | KRN7.1 | 7 | 95.2 | 21.5–123.7 | 58.6 | 49.6–65.7 | 7.00E–11 | −0.36 | −0.18 | −0.54 | −0.06b | −0.42 | −0.26 | ra1 |
KRN | KRN8.2 | 8 | 171.3 | 169.6–173.4 | 106.8 | 100.8–113.0 | 6.70E–13 | −0.49 | −0.40 | −0.38 | −0.04b | −0.15b | −0.25 | |
KW | KW1.2 | 1 | 234.3 | 222.8–252.5 | 110.3 | 106.5–116.4 | 6.01E–10 | −0.01 | −0.01 | −0.01 | −0.00b | −0.01 | −0.01 | |
KW | KW2.1 | 2 | 53.3 | 36.9–57.5 | 74.3 | 64.3–76.1 | 1.32E–11 | −0.01 | −0.00b | −0.01 | −0.01 | −0.00b | −0.01 | |
KW | KW4.2 | 4 | 170.1 | 156.8–174.8 | 82.8 | 73.6–84.2 | 1.69E–08 | −0.01 | −0.01 | −0.01 | −0.00b | −0.00b | −0.01 | |
KW | KW8.1 | 8 | 137.7 | 132.5–145.9 | 72.7 | 70.4–75.4 | 1.31E–12 | −0.00b | −0.01 | −0.01 | −0.01 | −0.01 | −0.01 | |
REPE | REPE1.1 | 1 | 47.0 | 46.5–51.8 | 64.9 | 64.4–68.3 | 2.71E–11 | −0.10 | −0.10 | −0.06 | −0.10 | −0.10 | −0.10 | P1 |
SHN | SHN1.1 | 1 | 265.1 | 264.1–265.1 | 127.6 | 127.2–127.6 | 3.21E–16 | 0.08 | 0.09 | 0.18 | 0.17 | 0.11 | 0.07 | ZmSh1-1 |
SHN | SHN6.1 | 6 | 162.5 | 162.2–163.6 | 98.2 | 97.4–101.1 | 3.49E–11 | 0.06 | 0.04b | 0.17 | 0.03b | 0.10 | 0.06 | |
STAM | STAM1.2 | 1 | 270.5 | 269.8–270.5 | 130.2 | 129.5–130.2 | 1.23E–27 | 0.28 | 0.02b | 0.12 | 0.07 | 0.09 | 0.11 | tb1 |
TILN | TILN3.2 | 3 | 138.3 | 137.6–158.6 | 80.5 | 80.2–86.2 | 5.22E–24 | 0.00b | 0.42 | 0.33 | 0.08b | 0.20 | 0.14 | ZAG2 |
TILN | TILN5.1 | 5 | 69.0 | 36.0–140.7 | 75.4 | 69.9–82.7 | 6.66E–10 | 0.18 | 0.24 | 0.14 | 0.14 | 0.16 | 0.10 | |
TILN | TILN10.1 | 10 | 62.5 | 25.3–82.1 | 47.7 | 45.0–51.1 | 4.10E–13 | 0.15 | 0.24 | 0.06b | 0.08b | 0.28 | 0.12 |
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.
The allele effect of 8759 relative to maize was estimated in BC2S3 by Shannon (2012).
Indicates that the additive allele effect of teosinte relative to maize estimated from JLM in TeoNAM is not significant.