Table 2.
Summary of inoculated and mock causal hotspots for number and regulation of expression quantitative trait loci (eQTLs) positively correlated to resistance towards Phytophthora sojae.
| eQTL hotspot [associated co-expression module]a | Physical locationb | Hotspot SNPc | Number of eQTLs |
|---|---|---|---|
| GM_1 | 1: 3033126 | ss715578942d | 23,919 |
| GM_1_A | 1: 3237203 | ss715579001 | 110 |
| GM_1_B | 1: 49435179 | Satt198 | 2,136 |
| GM_2 | 2: 113491276 | ss715580997 | 578 |
| GM_2_A | 2: 47857148 | ss715583466 | 34 |
| GM_2_B | 2: 48192942 | ss715583515d | 16,909 |
| GM_5 [Grey] | 5: 1960856 | ss715590397 | 423 |
| GM_5_A | 5: 2357871 | ss715592433 | 24 |
| GM_8 | 8: 3373388 | ss715601478 | 44 |
| GM_8_A | 8: 15062941 | ss715599654 | 367 |
| GM_8_B | 8: 15084953 | ss715599658 | 119 |
| GM_11 | 11: 3866567 | ss715610573d | 14,081 |
| GM_12 | 12: 37942902 | ss715612810 | 108 |
| GM_12_A | 12: 38033264 | ss715612824 | 233 |
| GM_12_B | 12: 38161783 | ss715612847 | 13,736 |
| GM_12_C | 12: 38314956 | ss715612859 | 84 |
| GM_13 | 13: 16051820 | ss715616825d | 6,889 |
| GM_13_A [Honeydew, Darkred] | 13: 14567149 | ss715617113 | 20 |
| GM_15 | 15: 4283809 | ss715621908d | 25,727 |
| GM_15_A | 15: 4334070 | ss715621926 | 164 |
| GM_15_B | 15: 4425676 | ss715621953 | 186 |
| GM_15_C | 15: 4541338 | ss715622010 | 82 |
| GM_17 | 17: 13225475 | ss715626059d | 6,966 |
| GM_17_A | 17: 17603614 | ss715626313 | 59 |
| GM_17_B | 17: 24925330 | ss715626528 | 29 |
| GM_17_C | 17: 28203907 | ss715626623 | 93 |
| GM_17_D [Honeydew, Darkred] | 17: 31742522 | ss715626724d | 303 |
| GM_17_E | 17: 32295875 | ss715626744 | 95 |
| GM_17_F | 17: 33008592 | ss715626767 | 120 |
| GM_18 | 18: 49185950 | ss715631455d | 91 |
| GM_18_A | 18: 49536028 | ss715631507d | 88 |
| GM_19 | 19: 47232949 | ss107929955 | 30 |
| GM_19_A | 19: 47528159 | BARCSOYSSR_19_1452 | 34 |
| GM_19_B | 19: 47633059 | OSU_SNP_Glyma19g41210 | 67 |
| GM_20 | 20: 36332679 | ss715637679 | 41 |
| GM_20_A | 20: 36720824 | ss715637735 | 40 |
| Mock GM_13 | 13: 30875555 | ss715615049d | 31 |
| Mock GM_16 | 16: 34372952 | ss715624691d | 22 |
| Mock GM_18 | 18: 57425465 | ss715632465d | 55 |
aModule listed in brackets indicates a significant association between the posterior probability of association (PPA) value and the respective module eigengene expression value at p-value <0.001.
bChromosome and physical base pair (bp) position derived from version Wm82.a2.v1.
cHotspots identified based on the SNP regulating the expression of >20 genes.
dGenes controlled by this SNP have significant gene ontology (GO) enrichment at a false discovery rate (FDR) of 5%.