Table 3.
Analysis of trait-associated markers, allele substitution (α) effects, and the total phenotypic variance (R2) of the joint linkage association mapping in multiple segregating F3 populations based on three different biometrical models
| MLN_early | QTL namea | chr | Position (Mbp) | Model A | Model B | Model C | ||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| α-Effect | P value | PVE (%) | α-Effect | P value | PVE (%) | α-Effect | P value | PVE (%) | ||||
| S1_35581569 | qMLN_01-36 | 1 | 35.58 | – | – | – | 0.21 | 1.18E−13 | 7.50 | – | – | – |
| S1_293055726 | qMLN_01-293 | 1 | 293.06 | 0.12 | 1.85E−10 | 5.90 | – | – | – | – | – | – |
| S3_56468658 | qMLN_03-56 | 3 | 56.46 | 0.21 | 1.08E−20 | 21.70 | 0.27 | 1.38E−38 | 21.70 | – | – | – |
| S3_138773656 | qMLN_03-139 | 3 | 138.77 | − 0.15 | 5.64E−22 | 8.50 | – | – | – | − 0.17 | 5.64E−22 | 19.90 |
| S4_5150195 | qMLN_04-05 | 4 | 5.15 | 0.11 | 8.72E−09 | 2.50 | – | – | – | – | – | – |
| S6_21886770 | qMLN_06-21 | 6 | 21.88 | 0.20 | 2.30E−18 | 10.10 | – | – | – | – | – | – |
| S6_39371783 | qMLN_06-39 | 6 | 39.37 | – | – | – | – | – | – | − 0.06 | 1.57E−07 | 3.50 |
| S6_82022555 | qMLN_06-82 | 6 | 82.02 | – | – | – | 0.12 | 7.88E−07 | 2.70 | – | – | – |
| S6_99946471 | qMLN_06-100 | 6 | 99.94 | – | – | – | − 0.08 | 2.00E−07 | 3.00 | – | – | – |
| S6_120159068 | qMLN_06-120 | 6 | 120.16 | – | – | – | 0.11 | 7.36E−07 | 2.70 | – | – | – |
| S6_158478115 | qMLN_06-158 | 6 | 158.48 | – | – | – | 0.10 | 1.48E−07 | 1.60 | – | – | – |
| S7_3671560 | qMLN_07-037 | 7 | 3.67 | 0.08 | 1.57E−07 | 3.20 | – | – | – | – | – | – |
| S8_147097693 | qMLN_08-147 | 8 | 147.09 | – | – | – | 0.14 | 1.13E−10 | 4.70 | – | – | – |
| S9_94515942 | qMLN_09-95 | 9 | 94.51 | – | – | – | – | – | – | 0.07 | 8.45E−07 | 2.70 |
| S9_137154420 | qMLN_09-137 | 9 | 137.15 | – | – | – | 0.08 | 8.45E−07 | 3.10 | – | – | – |
| S10_145280961 | qMLN_10-145 | 10 | 145.28 | – | – | – | 0.11 | 1.47E−11 | 6.00 | – | – | – |
| Total PVE (%) | 38.27 | 30.81 | 25.5 | |||||||||
| MLN-late | ||||||||||||
| S1_7162859 | qMLN_01-071 | 1 | 7.16 | − 0.13 | 1.34E−06 | 2.80 | – | – | – | – | – | – |
| S2_30361545 | qMLN_02-30 | 2 | 30.36 | 0.16 | 8.08E−09 | 2.90 | 0.16 | 6.14E−08 | 4.20 | – | – | – |
| S3_119323182 | qMLN_03-119 | 3 | 119.32 | − 0.13 | 9.58E−08 | 3.60 | – | – | – | – | – | – |
| S3_133187288 | qMLN_03-133 | 3 | 133.19 | – | – | – | – | – | – | − 0.11 | 2.30E−18 | 15.00 |
| S3_188926823 | qMLN_03-189 | 3 | 188.93 | 0.11 | 1.29E−09 | 4.80 | – | – | – | – | – | – |
| S5_205155852 | qMLN_05-205 | 5 | 205.16 | – | – | – | – | – | – | 0.01 | 9.58E−08 | 3.60 |
| S6_5441847 | qMLN_06-05 | 6 | 5.44 | – | – | – | – | – | – | − 0.02 | 1.29E−09 | 4.80 |
| S6_38273901 | qMLN_06-39 | 6 | 38.27 | 0.09 | 3.52E−07 | 4.30 | – | – | – | – | – | – |
| S7_19623847 | qMLN_07-19 | 7 | 19.62 | 0.15 | 1.23E−10 | 5.60 | – | – | – | – | – | – |
| S7_123880597 | qMLN_07-123 | 7 | 123.88 | – | – | – | – | – | – | 0.09 | 3.52E−07 | 4.10 |
| Total PVE (%) | 16.44 | 4.19 | 7.91 | |||||||||
MLN-early indicates MLN score 21 days after first post inoculation; MLN-late indicates MLN score 42 days after first post inoculation; R2 indicates proportion of phenotypic variance explained
Chr chromosome, MLM mixed linear model, MAF minor allele frequency
aQTL name composed by the trait code followed by the chromosome number in which the QTL was mapped and a physical position of the QTL