Table 3 Stable and major QTL identified for spike fertility related traits in both populations
Traita | QTL | Popb | Envc | Closest marker | Distance (cM) | IWGSC Ref Seq v1.0 (Mb) | LOD | Addd | R2 |
|---|---|---|---|---|---|---|---|---|---|
SL | QSL.perg-2B | BP11xB2002 | BLUE | wsnp_Ex_rep_c70228_69172301 | 77.6 | 389.5 | 4.80 | -3.2 | 16.4% |
E1 | RAC875_c27297_2153 | 78.6 | 385.2 | 3.62 | -3.8 | 11.9% | |||
E2 | RAC875_c27297_2153 | 78.6 | 385.2 | 5.12 | -3.1 | 16.6% | |||
QSL.perg-5A | B19xB2002 | E5 | BS00022003_51 | 41.2 | 444.8 | 2.84 | -2.0 | 8.4% | |
E2 | wsnp_Ex_c19647_28632894 | 44.2 | 470.0 | 3.68 | -2.4 | 11.6% | |||
E3 | Kukri_rep_c72046_78 | 48.8 | 512.2 | 7.99 | -4.0 | 24.0% | |||
BLUE | Kukri_rep_c72046_78 | 48.8 | 512.2 | 9.56 | -3.4 | 27.8% | |||
E1 | BS00022818_51 | 49.3 | 524.2 | 4.50 | -3.9 | 14.9% | |||
QSL.perg-7A | BP11xB2002 | E3 | Tdurum_contig16244_105 | 36.1 | 68.9 | 6.57 | -3.7 | 17.0% | |
BLUE | wsnp_Ku_c57198_60433631 | 42.2 | 78.4 | 3.99 | -2.7 | 12.4% | |||
E2 | wsnp_Ra_rep_c69620_67130107 | 45.1 | 85.6 | 2.92 | -2.2 | 8.5% | |||
E1 | wsnp_Ra_rep_c69620_67130107 | 46.1 | 85.6 | 3.41 | -4.3 | 14.5% | |||
TS | QTS.perg-2D | BP11xB2002 | E3 | Tdurum_contig17626_210 | 60.5 | 571.5 | 5.02 | -0.9 | 24.1% |
E2 | Tdurum_contig17626_210 | 65.5 | 571.5 | 4.43 | -0.8 | 17.0% | |||
BLUE | Tdurum_contig17626_210 | 68.1 | 571.5 | 8.32 | -0.8 | 21.0% | |||
E1 | RAC875_c11093_174 | 82.4 | 590.1 | 10.12 | -1.0 | 24.8% | |||
QTS.perg-3A | B19xB2002 | E5 | RAC875_c77648_367 | 3.4 | 12.2 | 5.99 | -1.0 | 15.7% | |
BLUE | Excalibur_c62042_175 | 5.4 | 13.9 | 5.79 | -0.7 | 17.2% | |||
E1 | Kukri_rep_c75764_60 | 8.1 | 20.1 | 5.02 | -0.8 | 20.6% | |||
QTS.perg-7A | BP11xB2002 | BLUE | Ku_c68368_1724 | 138.1 | 701.6 | 3.82 | -0.5 | 8.2% | |
E1 | wsnp_Ku_c16022_24798741 | 143.2 | 725.9 | 3.02 | -0.5 | 5.7% | |||
B19xB2002 | E3 | IAAV6957 | 90.5 | 675.2 | 5.96 | -0.6 | 19.8% | ||
CN | QCN.perg-2A | BP11xB2002 | E3 | BS00091763_51 | 83.0 | 773.2 | 3.82 | -0.13 | 14.0% |
B19xB2002 | E1 | BobWhite_c17113_240 | 81.1 | 751.6 | 3.06 | -0.13 | 10.8% | ||
BLUE | Excalibur_c35919_107 | 83.7 | 754.5 | 5.07 | -0.15 | 16.9% | |||
E5 | wsnp_Ex_c2137_4014287 | 86.6 | 755.9 | 4.88 | -0.20 | 15.1% | |||
QCN.perg-5A | BP11xB2002 | E2 | wsnp_Ex_c24215_33462239 | 57.1 | 526.6 | 9.44 | -0.16 | 31.2% | |
BLUE | wsnp_Ex_c24215_33462239 | 57.1 | 526.6 | 9.46 | -0.16 | 26.5% | |||
B19xB2002 | E3 | Kukri_rep_c72046_78 | 48.8 | 512.2 | 5.48 | -0.13 | 19.6% | ||
FF | QFF.perg-2B | BP11xB2002 | E3 | JD_c10643_840 | 89.6 | 683.2 | 4.85 | -3.75 | 14.8% |
B19xB2002 | E3 | Tdurum_contig12879_1200 | 64.2 | 712.6 | 7.85 | -3.81 | 30.7% | ||
E2 | Kukri_rep_c68903_301 | 65.1 | 730.2 | 7.15 | -3.32 | 32.7% | |||
BLUE | Kukri_rep_c68903_301 | 65.7 | 730.2 | 8.67 | -2.66 | 32.7% | |||
QFF.perg-7B | B19xB2002 | BLUE | Kukri_c51101_351 | 61.2 | 630.1 | 5.12 | 1.73 | 15.7% | |
E3 | Tdurum_contig47633_304 | 65.2 | 659.7 | 3.00 | 2.07 | 10.0% | |||
E1 | Tdurum_contig4658_106 | 71.7 | 680.2 | 4.56 | 3.61 | 17.2% | |||
FS | QFS.perg-2B | BP11xB2002 | E3 | BS00064318_51 | 86.8 | 686.0 | 8.01 | -0.78 | 20.2% |
B19xB2002 | E3 | Tdurum_contig12879_1200 | 64.2 | 712.6 | 3.28 | -0.43 | 11.0% | ||
E2 | RAC875_c81984_707 | 64.6 | 719.8 | 4.57 | -0.52 | 16.8% | |||
BLUE | RAC875_c81984_707 | 64.6 | 719.8 | 4.64 | -0.44 | 15.5% | |||
QFS.perg-3A | B19xB2002 | E3 | Excalibur_c62042_175 | 5.4 | 13.9 | 3.28 | -0.41 | 11.6% | |
E2 | Kukri_rep_c75764_60 | 8.1 | 20.1 | 2.83 | -0.36 | 9.8% | |||
E1 | BS00049032_51 | 10.6 | 25.9 | 5.37 | -0.78 | 23.1% | |||
QFS.perg-5B | BP11xB2002 | E2 | RFL_Contig5461_683 | 48.7 | 580.4 | 8.67 | -0.88 | 32.1% | |
BLUE | RFL_Contig5461_683 | 48.7 | 580.4 | 4.36 | -0.46 | 10.9% | |||
B19xB2002 | E2 | Vrn-B1: Excalibur_c5329_1335 | 65.3 | 580.7 | 4.17 | -0.47 | 14.3% | ||
FFTS | QFFTS.perg-5A | BP11xB2002 | E3 | wsnp_Ex_c24215_33462239 | 57.1 | 526.6 | 3.25 | 0.11 | 10.1% |
B19xB2002 | E3 | wsnp_CAP11_c1740_947838 | 51.3 | 536.7 | 4.17 | 0.10 | 17.4% | ||
E1 | RAC875_rep_c107228_92 | 70.5 | 567.7 | 3.12 | 0.13 | 14.3% | |||
BLUE | RAC875_rep_c107228_92 | 70.5 | 567.7 | 3.24 | 0.09 | 13.1% | |||
QFFTS.perg-5B | BP11xB2002 | E2 | wsnp_Ku_c35090_44349517 | 9.3 | 34.3 | 5.68 | 0.09 | 18.0% | |
E1 | Kukri_rep_c71114_838 | 12.9 | 70.3 | 3.93 | 0.14 | 12.6% | |||
BLUE | Kukri_rep_c71114_838 | 12.9 | 70.3 | 8.53 | 0.15 | 30.2% | |||
E3 | Ex_c68034_498 | 15.0 | 21.5 | 6.06 | 0.16 | 20.8% | |||
FFFS | QFFFS.perg-7B | B19xB2002 | BLUE | BS00063208_51 | 61.7 | 637.6 | 5.69 | 0.09 | 19.2% |
E3 | Kukri_c100592_82 | 62.7 | 648.1 | 4.41 | 0.10 | 16.3% | |||
E1 | RAC875_c60191_114 | 71.7 | 697.1 | 5.06 | 0.15 | 21.8% | |||
R | QR.perg-2A | BP11xB2002 | E1 | wsnp_CAP8_c1580_908907 | 19.6 | 33.3 | 8.51 | 8.0 | 27.1% |
BLUE | wsnp_CAP8_c1580_908907 | 19.6 | 33.3 | 5.91 | 4.2 | 14.5% | |||
B19xB2002 | E5 | Kukri_c17467_2711 | 0.0 | 4.7 | 2.54 | 3.3 | 5.3% | ||
QR.perg-3B | BP11xB2002 | E2 | Jagger_c522_55 | 66.2 | 730.2 | 5.21 | 4.4 | 16.4% | |
E3 | Kukri_rep_c94476_152 | 77.7 | 745.7 | 3.12 | 9.5 | 22.6% | |||
E4 | CAP12_c2348_133 | 86.1 | 732.4 | 4.62 | 4.4 | 16.1% | |||
BLUE | Excalibur_c18410_136 | 89.3 | 752.1 | 7.65 | 5.2 | 21.1% | |||
QR.perg-6A | BP11xB2002 | E3 | Tdurum_contig100733_89 | 33.7 | 22.0 | 4.91 | -8.4 | 19.1% | |
BLUE | RFL_Contig2954_548 | 69.5 | 23.9 | 4.19 | -3.0 | 7.4% | |||
B19xB2002 | E1 | BobWhite_c3714_659 | 1.8 | 8.0 | 2.66 | -5.6 | 11.0% | ||
BLUE | BS00083630_51 | 0.0 | 5.6 | 7.02 | -5.5 | 26.9% | |||
GLPA | QGLPA.perg-1A | B19xB2002 | BLUE | wsnp_Ex_c4310_7770452 | 144.4 | 464.3 | 10.85 | -27 | 32.7% |
E1 | RAC875_c53185_802 | 148.4 | 480.5 | 5.84 | -30 | 21.3% | |||
E4 | RAC875_c53185_802 | 148.4 | 480.5 | 5.70 | -33 | 21.9% | |||
QGLPA.perg-3A | B19xB2002 | BLUE | Excalibur_c46600_919 | 44.9 | 648.0 | 2.54 | -11 | 5.9% | |
E1 | Kukri_c18420_705 | 51.2 | 663.2 | 3.13 | -19 | 9.1% | |||
E5 | Tdurum_contig15928_135 | 75.0 | 709.1 | 3.98 | -24 | 11.0% | |||
QGLPA.perg-5B | BP11xB2002 | BLUE | RAC875_c60758_623 | 64.3 | 597.2 | 5.11 | 18 | 13.2% | |
E3 | BS00037023_51 | 72.3 | 654.5 | 3.15 | 41 | 14.6% | |||
B19xB2002 | E5 | Tdurum_contig13773_321 | 69.4 | 595.7 | 6.51 | 36 | 24.4% | ||
QGLPA.perg-7A | BP11xB2002 | BLUE | Kukri_c64330_58 | 33.3 | 62.9 | 3.02 | -13 | 7.3% | |
E3 | Tdurum_contig82510_556 | 37.5 | 76.9 | 2.95 | -33 | 10.0% | |||
B19xB2002 | E1 | IACX17522 | 34.8 | 57.9 | 3.73 | -25 | 11.2% | ||
CH | QCH.perg-1A | B19xB2002 | BLUE | wsnp_Ex_c4310_7770452 | 144.2 | 464.3 | 9.55 | -29 | 29.40% |
E4 | RAC875_c53185_802 | 148.4 | 480.5 | 5.21 | -37 | 20.9% | |||
E1 | BS00023126_51 | 157.4 | 480.6 | 5.15 | -36 | 22.0% | |||
QCH.perg-2B | BP11xB2002 | E1 | wsnp_Ra_c4126_7552133 | 84.0 | 409.3 | 5.98 | -35 | 25.0% | |
E3 | Kukri_rep_c91092_553 | 84.8 | 442.3 | 3.83 | -48 | 13.7% | |||
B19xB2002 | E3 | wsnp_Ex_rep_c104478_89183627 | 57.1 | 447.8 | 2.82 | -35 | 10.0% | ||
GN | QGN.perg-5A | B19xB2002 | E2 | BS00083507_51 | 42.2 | 461.5 | 4.56 | 1.8 | 14.6% |
E5 | BS00083507_51 | 42.2 | 461.5 | 3.89 | 2.3 | 14.5% | |||
BLUE | Ex_c19057_965 | 44.7 | 473.6 | 5.00 | 1.8 | 17.5% | |||
GW | QGW.perg-5A | BP11xB2002 | E3 | Tdurum_contig67291_367 | 78.1 | 573.8 | 5.59 | 3.0 | 20.1% |
BLUE | Tdurum_contig67291_367 | 78.1 | 573.8 | 3.12 | 1.2 | 8.1% | |||
B19xB2002 | E3 | BS00032146_51 | 79.8 | 615.2 | 3.36 | 1.5 | 12.8% | ||
QGW.perg-6B | B19xB2002 | E4 | Kukri_rep_c117390_70 | 43.4 | 127.6 | 7.13 | -1.7 | 21.6% | |
E2 | Kukri_c38398_164 | 45.5 | 135.1 | 5.15 | -1.6 | 14.0% | |||
BLUE | Kukri_c38398_164 | 45.5 | 135.1 | 5.73 | -1.8 | 18.2% |