From: Immune genes undergo more adaptive evolution than non-immune system genes in Daphnia pulex
Gene | Classa | No. individuals(D. pulex,outgroup) | Outgroup | Basepairs sequenced | No. of alleles found | πsb | πac | Ksd | Kae | Ka/Ks | Tajima's D | ||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
 |  |  |  |  | D. pulex | D. parvula |  |  |  |  |  | D. pulex | p | D. parvula | p |
Actin | NI | 11, 2 | D. parvula | 421 | 4 | 1 | 0.0082 | 0.0000 | 0.0882 | 0.0000 | 0.0000 | -0.265 | 0.54 | - | - |
Caspase 1 | NI | 11, 4 | D. parvula | 707 | 9 | 1 | 0.0213 | 0.0000 | 0.0806 | 0.0009 | 0.0114 | 0.003 | 0.48 | - | - |
Caspase 2 | NI | 7, 1 | D. parvula | 655 | 13 | 2 | 0.0375 | 0.0202 | 0.0533 | 0.0236 | 0.4438 | 0.564 | 0.25 | - | - |
Caspase 3 | NI | 5, 1 | D. parvula | 529 | 8 | 2 | 0.0456 | 0.0109 | 0.1375 | 0.0693 | 0.5041 | 1.0170 | 0.14 | - | - |
Caspase 4 | NI | 11, 3 | D. parvula | 513 | 17 | 6 | 0.0342 | 0.0227 | 0.0923 | 0.0470 | 0.5096 | 0.857 | 0.16 | 1.267 | 0.06 |
Caspase 5 | NI | 9, 2 | D. parvula | 587 | 13 | 2 | 0.0354 | 0.0112 | 0.1882 | 0.0249 | 0.1323 | 0.201 | 0.36 | - | - |
Caspase 6 | NI | 8, 3 | D. parvula | 547 | 13 | 2 | 0.0259 | 0.0161 | 0.0804 | 0.0475 | 0.5904 | 0.889 | 0.17 | 0.851 | 0.11 |
Chitinase 15 | NI | 11, 3 | D. parvula | 877 | 19 | 5 | 0.0338 | 0.0049 | 0.1050 | 0.0215 | 0.2049 | 0.563 | 0.24 | -0.826 | 0.67 |
Chitinase 16 | NI | 11, 4 | D. parvula | 931 | 14 | 6 | 0.0190 | 0.0013 | 0.1164 | 0.0174 | 0.1490 | 0.814 | 0.18 | 0.585 | 0.24 |
Chitinase 17 | NI | 10, 3 | D. parvula | 909 | 16 | 2 | 0.1514 | 0.0291 | 0.2285 | 0.0516 | 0.2260 | 1.808 | 0.02 | -0.933 | 0.46 |
Eukaryotic translation initiation factor 2γ | NI | 10, 3 | D. parvula | 1237 | 9 | 3 | 0.0102 | 0.0000 | 0.0350 | 0.0000 | 0.0000 | 0.592 | 0.26 | -1.132 | 0.65 |
Enolase | NI | 10, 4 | D. parvula | 336 | 3 | 1 | 0.0079 | 0.0000 | 0.1845 | 0.0000 | 0.0000 | 0.282 | 0.32 | - | - |
Fumerate | NI | 10, 1 | D. parvula | 1103 | 10 | 2 | 0.0149 | 0.0006 | 0.1459 | 0.0039 | 0.0266 | 0.270 | 0.33 | - | - |
Glutamine-oxaloacetic transaminase | NI | 10, 4 | D. parvula | 777 | 9 | 2 | 0.0321 | 0.0000 | 0.1368 | 0.0057 | 0.0414 | 1.211 | 0.09 | 1.167 | 0.09 |
Glyceraldehyde 3-phosphate dehydrogenase | NI | 11, 4 | D. parvula | 701 | 8 | 1 | 0.0104 | 0.0000 | 0.0656 | 0.0038 | 0.0579 | -0.125 | 0.49 | - | - |
Lactose dehydrogenase | NI | 11, 2 | D. parvula | 840 | 10 | 1 | 0.0263 | 0.0016 | 0.1092 | 0.0024 | 0.0223 | 0.201 | 0.37 | - | - |
Mannose phosphase isomerase | NI | 9, 3 | D. parvula | 751 | 8 | 2 | 0.0058 | 0.0010 | 0.0870 | 0.0010 | 0.0120 | -0.437 | 0.63 | - | - |
Phosphoglucose isomerase | NI | 11, 2 | D. parvula | 1387 | 17 | 3 | 0.0552 | 0.0025 | 0.1105 | 0.0052 | 0.0471 | 1.065 | 0.11 | -0.780 | 0.53 |
Phosphoglycerate mutase | NI | 8, 1 | D. parvula | 1184 | 15 | 2 | 0.0883 | 0.0011 | 0.1492 | 0.0056 | 0.0377 | 1.148 | 0.08 | - | - |
Scavenger 5 | NI | 9, 3 | D. parvula | 1440 | 16 | 5 | 0.0325 | 0.0001 | 0.1319 | 0.0069 | 0.0519 | 1.091 | 0.10 | 1.150 | 0.09 |
Scavenger 6 | NI | 7, 3 | D. parvula | 1119 | 6 | 5 | 0.0300 | 0.0026 | 0.1027 | 0.0113 | 0.1095 | 0.816 | 0.18 | -0.496 | 0.58 |
Ultraspiracle | NI | 10, 4 | D. parvula | 336 | 3 | 1 | 0.0079 | 0.0000 | 0.1845 | 0.0000 | 0.0000 | 0.282 | 0.31 | - | - |
Average | Â | Â | Â | 813.0 | 11 | 3 | 0.0331 | 0.0057 | 0.1188 | 0.0159 | 0.1443 | Â | Â | Â | Â |
Caspase 8 | I | 2, 2 | D. parvula | 672 | 4 | 2 | 0.1456 | 0.0906 | 0.1994 | 0.1465 | 0.7347 | 2.291 | 0.01 | - | - |
Dicer2 | I | 3, 1 | D. parvula | 265 | 6 | 1 | 0.0731 | 0.0098 | 0.1889 | 0.0597 | 0.3162 | 0.029 | 0.37 | - | - |
Dorsal | I | 11, 4 | D. parvula | 624 | 8 | 1 | 0.0242 | 0.0000 | 0.1105 | 0.0000 | 0.0000 | 0.003 | 0.43 | - | - |
Galectin 1 | I | 11, 2 | D. parvula | 715 | 14 | 4 | 0.0235 | 0.0014 | 0.1004 | 0.0142 | 0.1419 | 0.604 | 0.23 | -0.065 | 0.29 |
Galectin 2 | I | 10, 4 | D. parvula | 864 | 8 | 1 | 0.0162 | 0.0005 | 0.2106 | 0.0118 | 0.0559 | 1.065 | 0.12 | - | - |
Gemini | I | 11, 2 | D. parvula | 1083 | 15 | 2 | 0.0342 | 0.0002 | 0.0962 | 0.0028 | 0.0295 | 0.774 | 0.17 | -0.755 | 0.45 |
Gram-negative binding protein 1 | I | 11, 3 | D. parvula | 825 | 13 | 2 | 0.0182 | 0.0027 | 0.1266 | 0.0314 | 0.2478 | 1.203 | 0.11 | 0.851 | 0.14 |
Gram-negative binding protein 10 | I | 11, 4 | D. parvula | 638 | 7 | 5 | 0.0119 | 0.0000 | 0.1150 | 0.0043 | 0.0375 | 0.649 | 0.25 | -0.163 | 0.55 |
Gram-negative binding protein 11 | I | 11, 3 | D. parvula | 787 | 14 | 5 | 0.0241 | 0.0037 | 0.1419 | 0.0232 | 0.1633 | 0.167 | 0.36 | 0.338 | 0.30 |
Gram-negative binding protein 2 | I | 10, 2 | D. parvula | 748 | 10 | 3 | 0.0398 | 0.0044 | 0.0420 | 0.0099 | 0.2351 | 1.483 | 0.04 | 0.168 | 0.23 |
Gram-negative binding protein 6 | I | 10, 2 | D. parvula | 836 | 10 | 2 | 0.0229 | 0.0019 | 0.0775 | 0.0116 | 0.1495 | 1.366 | 0.07 | 1.633 | 0.27 |
IMD | I | 10, 3 | D. parvula | 489 | 12 | 4 | 0.0333 | 0.0056 | 0.1504 | 0.0200 | 0.1326 | -0.007 | 0.43 | -0.933 | 0.43 |
MyD88 | I | 11, 3 | D. parvula | 834 | 8 | 3 | 0.0139 | 0.0016 | 0.1498 | 0.0229 | 0.1527 | -0.243 | 0.52 | -0.826 | 0.68 |
Nitric oxide synthase 1 | I | 11, 3 | D. parvula | 662 | 14 | 2 | 0.0229 | 0.0011 | 0.0665 | 0.0062 | 0.0926 | 0.056 | 0.44 | 0.851 | 0.14 |
Nitric oxide synthase 2 | I | 9, 2 | D. parvula | 549 | 13 | 3 | 0.0203 | 0.0047 | 0.1689 | 0.0212 | 0.1253 | 0.333 | 0.33 | -0.612 | 0.26 |
Pelle | I | 12, 2 | D. parvula | 797 | 7 | 4 | 0.0087 | 0.0000 | 0.0636 | 0.0054 | 0.0846 | -0.523 | 0.66 | 0.592 | 0.38 |
Prophenol Oxidase | I | 5, 2 | D. parvula | 1224 | 8 | 4 | 0.0224 | 0.0040 | 0.0235 | 0.0029 | 0.1222 | -0.284 | 0.57 | 1.198 | 0.11 |
Scavenger 2 | I | 10, 2 | D. parvula | 1463 | 15 | 4 | 0.0218 | 0.0087 | 0.1355 | 0.0410 | 0.3027 | -0.537 | 0.68 | 0.592 | 0.39 |
Scavenger 4 | I | 6, 3 | D. parvula | 841 | 11 | 2 | 0.0840 | 0.0036 | 0.1327 | 0.0108 | 0.0816 | 0.842 | 0.15 | - | - |
Stat | I | 11, 3 | D. parvula | 844 | 8 | 3 | 0.0174 | 0.0000 | 0.5590 | 0.0000 | 0.0000 | 1.197 | 0.10 | -0.144 | 0.54 |
TEP 1 | I | 6, 2 | D. parvula | 1067 | 7 | 3 | 0.0098 | 0.0004 | 0.0565 | 0.0102 | 0.1798 | 0.307 | 0.36 | -0.710 | 0.39 |
TEP 2 | I | 4, 2 | D. parvula | 865 | 8 | 3 | 0.0369 | 0.0018 | 0.1556 | 0.0078 | 0.0504 | 0.389 | 0.29 | - | - |
TEP 3 | I | 9, 3 | D. parvula | 1013 | 14 | 6 | 0.0319 | 0.0009 | 0.1398 | 0.0056 | 0.0399 | 0.314 | 0.31 | 0.878 | 0.15 |
Tequila | I | 3, 1 | D. parvula | 834 | 6 | 2 | 0.0591 | 0.0011 | 0.0581 | 0.0005 | 0.0091 | 0.670 | 0.22 | - | - |
Toll 1 | I | 9, 4 | D. parvula | 468 | 10 | 2 | 0.0214 | 0.0006 | 0.0938 | 0.0541 | 0.5768 | 1.025 | 0.13 | - | - |
Toll 2 | I | 10, 4 | D. parvula | 836 | 10 | 1 | 0.0169 | 0.0026 | 0.1106 | 0.0161 | 0.1456 | 0.512 | 0.25 | - | - |
Toll 3 | I | 9, 4 | D. parvula | 523 | 12 | 5 | 0.0282 | 0.0004 | 0.0887 | 0.0031 | 0.0354 | -0.015 | 0.45 | -0.431 | 1.39 |
Average | Â | Â | Â | 791.3 | 11 | 3 | 0.0335 | 0.0056 | 0.1292 | 0.0188 | 0.1512 | Â | Â | Â | Â |
Average over NI and I classes | Â | Â | Â | 801.1 | 10 | 3 | 0.0329 | 0.0057 | 0.1260 | 0.0182 | 0.1514 | Â | Â | Â | Â |
Scavenger 3 | I | 5, 1 | D. arenata | 552 | 8 | 1 | 0.0715 | 0.0057 | 0.0741 | 0.0163 | 0.2192 | 0.065 | 0.47 | - | - |
Gram-negative binding protein 7 | I | 9, 1 | D. arenata | 788 | 12 | 1 | 0.0474 | 0.0016 | 0.1150 | 0.0117 | 0.1014 | -0.160 | 0.51 | - | - |
Galectin 3 | I | 8, 1 | D. arenata | 974 | 10 | 1 | 0.0232 | 0.0026 | 0.0518 | 0.0035 | 0.0678 | 0.326 | 0.31 | - | - |
Chitinase 1 | NI | 8, 1 | D. arenata | 885 | 13 | 1 | 0.0364 | 0.0072 | 0.0721 | 0.0153 | 0.2127 | 0.718 | 0.18 | - | - |
Chitinase 9 | NI | 6, 1 | D. arenata | 908 | 10 | 2 | 0.0793 | 0.0089 | 0.0748 | 0.0101 | 0.1350 | 0.484 | 1.00 | - | - |
Average | Â | Â | Â | 821.4 | 10.6 | 1.2 | 0.0516 | 0.0052 | 0.0775 | 0.0114 | 0.1472 | Â | Â | Â | Â |