Table 3.
Genetic Diversity indices of Japanese indigenous chickens and indigenous chickens overseas.
| D-Loop | Microsatellite DNA Marker | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Category | Breeds | n | h | Theta-w | Pi | Tajima’s D | Breeds | n | AR | Na | Ne | Ho | He | F |
| Japanese indigenous chicken | AJI | 3 | 1 | 0.000 | 0.000 | 0.000 | AJI | 3 | 1.543 | 2.185 | 1.897 | 0.549 | 0.427 | −0.289 |
| CHB | 64 | 11 | 4.441 | 0.012 | 1.021 | CHB | 25 | 1.623 | 4.444 | 2.893 | 0.433 | 0.604 | 0.327 | |
| CHN | 21 | 3 | 2.224 | 0.004 | −0.149 | CHN | 24 | 1.503 | 3.815 | 2.183 | 0.458 | 0.460 | 0.004 | |
| ENK | 1 | 1 | N.A. | N.A. | N.A. | ENK | 1 | 1.481 | 1.333 | 1.333 | 0.481 | 0.241 | −1.000 | |
| GJI | 9 | 2 | 2.943 | 0.008 | 1.629 | GJI | 13 | 1.511 | 3.111 | 2.269 | 0.332 | 0.468 | 0.305 | |
| HNI | 30 | 7 | 4.291 | 0.008 | −0.173 | HNI | 39 | 1.509 | 4.148 | 2.242 | 0.379 | 0.478 | 0.197 | |
| IJI | 4 | 1 | 0.000 | 0.000 | 0.000 | IJI | 5 | 1.506 | 2.407 | 1.856 | 0.363 | 0.369 | 0.059 | |
| JTK | 15 | 4 | 5.228 | 0.012 | 0.758 | JTK | 37 | 1.577 | 4.741 | 2.788 | 0.496 | 0.555 | 0.100 | |
| KWC | 16 | 2 | 1.507 | 0.003 | 0.258 | KWC | 11 | 1.525 | 3.000 | 2.041 | 0.392 | 0.445 | 0.169 | |
| KNP | 4 | 1 | 0.000 | 0.000 | N.A. | KNP | 4 | 1.463 | 1.815 | 1.522 | 0.380 | 0.331 | −0.159 | |
| KYS | 15 | 4 | 0.923 | 0.002 | 0.649 | KYS | 11 | 1.505 | 3.148 | 2.081 | 0.386 | 0.441 | 0.118 | |
| KSM | 19 | 3 | 3.147 | 0.011 | 2.484 | KSM | 20 | 1.424 | 3.185 | 1.983 | 0.380 | 0.414 | 0.151 | |
| KMM | 13 | 1 | 0.000 | 0.000 | N.A. | KMM | 20 | 1.517 | 3.000 | 2.235 | 0.565 | 0.504 | −0.118 | |
| KRK | 22 | 5 | 4.663 | 0.011 | 0.848 | KRK | 19 | 1.479 | 3.259 | 2.043 | 0.416 | 0.450 | 0.101 | |
| KKS | 14 | 5 | 5.346 | 0.014 | 1.192 | KKS | 25 | 1.478 | 3.630 | 1.979 | 0.338 | 0.435 | 0.279 | |
| MJI | 6 | 3 | 5.693 | 0.013 | 0.830 | MJI | 10 | 1.284 | 2.222 | 1.529 | 0.254 | 0.268 | 0.007 | |
| MNH | 29 | 3 | 2.801 | 0.004 | −0.642 | MNH | 26 | 1.459 | 2.889 | 1.931 | 0.413 | 0.431 | 0.063 | |
| NGY | 20 | 5 | 5.074 | 0.005 | −1.90 * | NGY | 20 | 1.419 | 2.778 | 1.963 | 0.457 | 0.408 | −0.109 | |
| OHK | 26 | 4 | 3.669 | 0.007 | −0.122 | OHK | 31 | 1.552 | 3.741 | 2.504 | 0.516 | 0.516 | 0.013 | |
| OSM | 59 | 11 | 5.165 | 0.013 | 0.867 | OSM | 53 | 1.633 | 6.222 | 3.054 | 0.537 | 0.593 | 0.091 | |
| ONG | 29 | 4 | 2.037 | 0.001 | −2.048 * | ONG | 11 | 1.512 | 2.630 | 1.799 | 0.421 | 0.406 | −0.030 | |
| RJI | 9 | 1 | 0.000 | 0.000 | N.A. | RJI | 9 | 1.263 | 1.593 | 1.386 | 0.184 | 0.195 | 0.087 | |
| SJI | 7 | 2 | 3.673 | 0.005 | −1.594 | SJI | 10 | 1.317 | 2.481 | 1.793 | 0.278 | 0.289 | 0.154 | |
| SHK | 25 | 5 | 4.502 | 0.012 | 1.272 | SHK | 23 | 1.440 | 3.037 | 2.094 | 0.399 | 0.428 | 0.060 | |
| STM | 18 | 4 | 4.070 | 0.012 | 2.001 * | STM | 21 | 1.580 | 4.074 | 2.540 | 0.457 | 0.546 | 0.195 | |
| TKJ | 6 | 2 | 4.380 | 0.007 | −1.435 | TKJ | 6 | 1.473 | 2.444 | 1.840 | 0.373 | 0.389 | 0.086 | |
| TMR | 14 | 5 | 3.459 | 0.009 | 1.443 | TMR | 8 | 1.513 | 2.889 | 2.048 | 0.352 | 0.428 | 0.200 | |
| TSJ | 16 | 4 | 4.520 | 0.010 | 0.567 | TSJ | 35 | 1.479 | 3.963 | 2.353 | 0.358 | 0.464 | 0.233 | |
| TSK | 1 | 1 | N.A. | N.A. | N.A. | TSK | 1 | 1.333 | 1.074 | 1.074 | 0.333 | 0.167 | −1.000 | |
| TTK | 36 | 6 | 3.376 | 0.009 | 0.937 | TTK | 51 | 1.511 | 4.074 | 2.287 | 0.439 | 0.476 | 0.085 | |
| UKK | 29 | 9 | 4.583 | 0.012 | 1.053 | UKK | 25 | 1.646 | 5.296 | 3.081 | 0.552 | 0.619 | 0.113 | |
| UZR | 16 | 4 | 4.219 | 0.008 | −0.018 | UZR | 11 | 1.536 | 3.185 | 2.216 | 0.462 | 0.470 | 0.034 | |
| YKD | 3 | 2 | 6.000 | 0.012 | N.A. | YKD | 1 | 1.296 | 1.037 | 1.037 | 0.296 | 0.148 | −1.000 | |
| YMG | 2 | 2 | 2.000 | 0.004 | N.A. | YMG | 0 | − | − | − | − | − | − | |
| CCN | 18 | 2 | 2.617 | 0.004 | −0.994 | CCN | 20 | 1.422 | 3.296 | 1.977 | 0.463 | 0.411 | −0.097 | |
| ING | 19 | 1 | 0.000 | 0.000 | N.A. | ING | 20 | 1.351 | 2.296 | 1.730 | 0.291 | 0.342 | 0.142 | |
| RIR | 16 | 3 | 2.712 | 0.008 | 1.732 | RIR | 20 | 1.481 | 2.926 | 2.192 | 0.456 | 0.469 | 0.045 | |
| BPR | 15 | 4 | 3.075 | 0.007 | 0.106 | BPR | 20 | 1.464 | 3.074 | 2.312 | 0.463 | 0.452 | 0.004 | |
| Indigenous chicken overseas | ARC | 20 | 4 | 3.382 | 0.002 | −0.423 | ARC | 20 | 1.326 | 2.000 | 1.691 | 0.348 | 0.318 | −0.100 |
| BMN | 5 | 1 | 0.000 | 0.000 | 0.000 | BMN | 20 | 1.297 | 2.148 | 1.585 | 0.148 | 0.289 | 0.543 | |
| BRM | 18 | 2 | 0.291 | 0.000 | −1.165 | BRM | 20 | 1.260 | 2.407 | 1.736 | 0.391 | 0.376 | −0.039 | |
| LSX | 14 | 3 | 3.145 | 0.005 | −0.737 | LSX | 20 | 1.385 | 1.667 | 1.465 | 0.324 | 0.254 | −0.256 | |
| MIL | 2 | 1.352 | 1.630 | 1.519 | 0.370 | 0.241 | −0.538 | |||||||
| WLL | 20 | 1.417 | 2.778 | 1.931 | 0.402 | 0.406 | 0.047 | |||||||
| WLM | 20 | 1.410 | 2.593 | 1.870 | 0.396 | 0.400 | 0.013 | |||||||
| Wild ancestor | RJF | 20 | 1.484 | 2.704 | 2.017 | 0.513 | 0.472 | −0.075 | ||||||
* p < 0.05.