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Table 1 SNPs associated with dorsal colour morphs for each pairwise comparison and obtained through Single-SNP association tests using Bayesian regression approach

From: Assessing genotype-phenotype associations in three dorsal colour morphs in the meadow spittlebug Philaenus spumarius (L.) (Hemiptera: Aphrophoridae) using genomic and transcriptomic resources

SNP_ID Minor Allele Major Allele BF0.99 β maf_TRI maf_MAR maf_TYP
MAR-TRI
 3950:1 G A 0.432 −0.1198 0.1667 0.7727 0.3750
  3950:10 T A 0.337 −0.1099 0.1667 0.7273 0.3125
  22795:88 G A 0.457 −0.1246 0.0500 0.5000 0.4286
 40633:18 A G 0.365 0.1159 0.4500 0.0000 0.0714
 41239:75 G T 0.373 0.1170 0.3333 0.0000 0.1000
  43069:10 C G 0.492 −0.1305 0.0000 0.4167 0.5714
  43069:34 A T 0.492 −0.1305 0.0000 0.4167 0.5000
 50515:83 A T 0.349 0.1165 0.2857 0.0000 0.0000
 54226:66 A T 0.418 −0.1245 0.0000 0.3500 0.0000
  55187:79 G T 0.490 0.1303 0.3889 0.0000 0.5000
 63439:28 C A 0.403 −0.1203 0.1818 0.6000 0.3889
 63439:8 A C 0.430 −0.1224 0.1364 0.5500 0.3500
 75897:50 A G 0.339 0.1158 0.2500 0.0000 0.0000
  75897:7 C T 0.785 0.1581 0.5833 0.0000 0.0000
 83460:19 C T 0.376 −0.1173 0.0000 0.3889 0.0000
  87932:85 C T 0.410 −0.1238 0.0000 0.5000 0.5556
 106126:52 C T 0.337 0.1161 0.2500 0.0000 0.0000
 124817:20 A G 0.338 0.1159 0.3500 0.0000 0.0625
 126355:29 T C 0.579 0.1369 0.5500 0.0455 0.1667
Mean BF0.99 SNPs     0.1235    
Mean all SNPs     0.0001    
MAR-TYP
  3950:10 T A 0.264 −0.1010 0.1667 0.7273 0.3125
 7095:50 C T 0.319 0.1123 0.0556 0.0417 0.2000
 11381:9 A G 0.329 0.1131 0.1667 0.0000 0.2857
 16628:65 C A 0.502 −0.1287 0.0000 0.5000 0.0000
 20734:39 T C 0.463 0.1275 0.4286 0.3000 0.7778
 24668:63 C G 0.369 0.1173 0.3333 0.3182 0.7500
 35205:6 G C 0.444 0.1255 0.0625 0.2273 0.0000
  45009:87 T G 0.365 0.1096 0.1500 0.1818 0.6500
 54049:70 G A 0.424 0.1231 0.5000 0.2727 0.7500
 55187:46 A G 0.719 0.1555 0.2778 0.0000 0.5000
  55187:79 G T 0.784 0.1603 0.3889 0.0000 0.5000
 56842:83 A G 0.265 0.1053 0.2000 0.0455 0.2500
 64204:16 T G 0.303 −0.1080 0.1250 0.5000 0.1111
 64204:46 G T 0.296 −0.1072 0.2778 0.5000 0.1111
 64258:61 G A 0.376 0.1207 0.1500 0.0455 0.4286
 82682:38 T G 0.258 0.1019 0.4000 0.1111 0.5833
 92187:65 A C 0.265 −0.1028 0.5000 0.6111 0.1875
 102702:13 T A 0.314 0.1120 0.0000 0.0000 0.2143
 104139:11 T A 0.267 −0.1040 0.3500 0.7000 0.3333
Mean BF0.99 SNPs     0.1177    
Mean all SNPs     0.0037    
TRI-TYP
 6535:26 T C 0.270 −0.1035 0.4444 0.2222 0.0000
 6535:35 G A 0.270 0.1023 0.1667 0.5556 0.6250
  22795:88 G A 0.279 0.1075 0.0500 0.5000 0.4286
 24031:66 C T 0.292 0.1099 0.0000 0.1111 0.2000
 24031:81 T G 0.370 0.1202 0.0000 0.0556 0.2000
 27816:86 G A 0.352 −0.1155 0.6364 0.4375 0.1875
 37095:26 T G 0.313 −0.1110 0.4444 0.1000 0.0556
 41742:86 C G 0.316 0.113 0.0000 0.4167 0.5714
  43069:10 C G 0.778 0.1577 0.0000 0.4167 0.5714
  43069:34 A T 0.717 0.1551 0.0000 0.4167 0.5000
 43143:5 T C 0.408 −0.1195 0.7222 0.4000 0.2500
  45009:87 T G 0.429 0.1180 0.1500 0.1818 0.6500
 56752:20 G A 0.431 −0.1223 0.6875 0.4444 0.1250
 59359:24 G A 0.447 0.1285 0.1000 0.2000 0.6000
  75897:7 C T 0.528 −0.1342 0.5833 0.0000 0.0000
  87932:85 C T 0.355 0.1135 0.0000 0.5000 0.5556
 103746:74 T A 0.496 0.1342 0.0909 0.4000 0.5833
 118051:49 G C 0.335 −0.1170 0.1000 0.1500 0.0000
 118835:54 C A 0.322 −0.1122 0.0455 0.3636 0.0000
 123202:88 T A 0.330 0.1130 0.0909 0.1000 0.4286
Mean BF0.99 SNPs     0.1204    
Mean all SNPs     0.0028    
  1. Bayes factor values above 0.99 quantile (BF0.99); Effect size of an individual SNP on the phenotype (β); Minor allele frequency for each locus and morph (maf); Mean effect size of BF0.99 SNPs (Mean BF0.99 SNPs); Mean effect size of all 1,837 SNPs. SNPs common to comparisons are underlined
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BMC Genomic Data

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