Table 1 Genome-wide association analysis results using the multi-locus mixed model (MLMM) method in the pea-Aphanomyces collection
From: Genome-wide association mapping of partial resistance to Aphanomyces euteiches in pea
Variable (a) | Number of markers (b) | Range of p-value (c) | Range of allelic effect (d) | % of phenotypic variance explained by | Unexplained variance (h) | ||
|---|---|---|---|---|---|---|---|
PCA (e) | Kinship (f) | Markers (g) | |||||
Field_RRI_All | 2 | 7.86E-11–8.10E-06 | 0.13–0.17 | 48 % | 20 % | 19 % | 14 % |
Field_RRI_10_RI | 2 | 1.81E-05–2.37E-05 | 0.16–0.19 | 13 % | 28 % | 25 % | 34 % |
Field_RRI_11_RI | 2 | 9.92E-08–6.58E-06 | 0.23–0.26 | 42 % | 9 % | 20 % | 29 % |
Field_RRI_12_RI | 5 | 3.14E-07–1.50E-05 | 0.17–0.29 | 20 % | 18 % | 39 % | 23 % |
Field_RRI_13_RI | 0 | – | – | 26 % | 25 % | 0 % | 48 % |
Field_RRI_10_DI | 1 | 5.78E-06 | 0.17 | 24 % | 28 % | 10 % | 38 % |
Field_RRI_11_DI | 1 | 5.90E-07 | 0.29 | 54 % | 25 % | 9 % | 12 % |
Field_RRI_12_DI | 3 | 4.76E-06–7.46E-06 | 0.15–0.17 | 36 % | 14 % | 23 % | 28 % |
Field_RRI_13_DI | 3 | 6.00E-08–2.17E-05 | 0.16–0.26 | 28 % | 13 % | 23 % | 37 % |
CC_RRI_09_RB84 | 1 | 5.40E-12 | 0.28 | 43 % | 8 % | 19 % | 30 % |
CC_RRI_09_Ae109 | 2 | 8.82E-28–1.60E-06 | 0.27–0.81 | 8 % | 10 % | 68 % | 13 % |
CC_RRI_13_RB84 | 3 | 7.34E-11–3.89E-06 | 0.17–0.26 | 47 % | 6 % | 22 % | 25 % |
Field_ADI1_All | 4 | 7.86E-11–2.43E-06 | 0.20–0.32 | 32 % | 25 % | 27 % | 16 % |
Field_ADI1_10_RI | 4 | 3.12E-08–2.25E-05 | 0.26–0.40 | 10 % | 4 % | 39 % | 48 % |
Field_ADI1_11_RI | 0 | – | – | 5 % | 50 % | 0 % | 45 % |
Field_ADI1_12_RI | 3 | 3.99E-07–8.98E-06 | 0.45–0.54 | 23 % | 50 % | 15 % | 13 % |
Field_ADI1_13_RI | 5 | 3.85E-08–3.32E-05 | 0.13–0.25 | 31 % | 0.001 % | 37 % | 32 % |
Field_ADI1_10_DI | 0 | – | – | 37 % | 45 % | 0 % | 18 % |
Field_ADI1_11_DI | 0 | – | – | 2 % | 17 % | 0 % | 81 % |
Field_ADI1_12_DI | 7 | 1.13E-10–2.53E-05 | 0.21–0.61 | 29 % | 21 % | 39 % | 12 % |
Field_ADI1_13_DI | 2 | 2.53E-10–1.16E-08 | 0.36–0.43 | 35 % | 15 % | 26 % | 23 % |
Field_ADI1_12_KEN | 1 | 2.64E-05 | 0.18 | 32 % | 25 % | 8 % | 34 % |
Field_ADI2_All | 3 | 1.15E-07–8.27E-06 | 0.22–0.38 | 39 % | 47 % | 8 % | 6 % |
Field_ADI2_10_RI | 0 | – | – | 15 % | 0.004 % | 0 % | 85 % |
Field_ADI2_11_RI | 2 | 7.77E-07–3.61E-06 | 0.33–0.43 | 0 % | 43 % | 23 % | 34 % |
Field_ADI2_12_RI | 0 | – | – | 39 % | 47 % | 0 % | 14 % |
Field_ADI2_13_RI | 0 | – | – | 39 % | 45 % | 0 % | 17 % |
Field_ADI2_10_DI | 6 | 7.56E-08–1.27E-05 | 0.26–0.46 | 20 % | 0.002 % | 38 % | 42 % |
Field_ADI2_12_DI | 0 | – | – | 24 % | 50 % | 0 % | 26 % |
Field_ADI2_13_DI | 9 | 3.25E-12–2.34E-5 | 0.26–0.45 | 36 % | 5 % | 45 % | 14 % |
Field_ADI2_12_KEN | 1 | 2.55E-05 | 0.34 | 9 % | 48 % | 11 % | 32 % |
MFA.Dim.1 | 4 | 1.51E-08–1.26E-05 | 0.42–0.56 | 56 % | 15 % | 21 % | 8 % |
MFA.Dim.2 | 2 | 1.01E-05–1.48E-05 | 0.36–0.48 | 9 % | 78 % | 1 % | 13 % |
FLO1_10_REN | 5 | 1.24E-17–1.97E-05 | 1.82–5.86 | 9 % | 17 % | 64 % | 10 % |
FLO1_12_REN | 7 | 6.29E-16–3.31E-06 | 1.55–12.80 | 8 % | 23 % | 63 % | 6 % |
FLO2_10_REN | 8 | 8.50E-12–2.21E-06 | 0.91–2.88 | 5 % | 0.001 % | 71 % | 24 % |
FLO2_12_REN | 3 | 2.68E-15–3.69E-08 | 2.47–5.49 | 5 % | 19 % | 52 % | 24 % |
RIPE_10_REN | 7 | 5.02E-13–7.74E-06 | 0.94–2.88 | 0 % | 3 % | 72 % | 25 % |
RIPE_12_REN | 2 | 2.69E-17–4.63E-06 | 2.15–3.39 | 0 % | 25 % | 49 % | 26 % |
HT_10_REN | 3 | 3.76E-26–5.00E-06 | 6.42–30.65 | 0 % | 37 % | 53 % | 10 % |
HT_12_REN | 2 | 1.62E-23–2.55E-05 | 8.10–34.61 | 0 % | 23 % | 76 % | 1 % |