Table 2.
Genetic diversity in MHCI and MHCII-DRB in the Lynx genus. Diversity at the nucleotide, amino acid and supertype levels are estimated as the number of observed alleles (allelic richness, AR), number (S) and proportion of segregating sites [S(%)], mean number (± standard error) of differences among alleles (K). The latter is calculated for all sites, ABS and non-ABS
| Indice | Total | L. pardinus | L. lynx | L. canadensis | L. rufus |
|---|---|---|---|---|---|
| MHC Class | |||||
| Diversity level | |||||
| MHC Class I | |||||
| DNA (299) | |||||
| AR | 30 | 10 | 17 | 13 | 10 |
| Private | 0 | 3 | 4 | 9 | |
| S | 86 | 72 | 73 | 76 | 76 |
| S (%) | 37.55 | 31.44 | 31.88 | 33.19 | 33.19 |
| K | 19.77 ± 0.52 | 24.11 ± 1.74 | 20.07 ± 1 | 21.51 ± 1.42 | 25.8 ± 1.64 |
| Gen. dist. All | 0.094 ± 0.003 | 0.116 ± 0.009 | 0.096 ± 0.005 | 0.103 ± 0.007 | 0.125 ± 0.009 |
| Gen. dist. ABS | 0.23 ± 0.01 | 0.27 ± 0.02 | 0.23 ± 0.01 | 0.24 ± 0.02 | 0.29 ± 0.02 |
| Gen. dist. Non-ABS | 0.06 ± 0 | 0.08 ± 0.01 | 0.06 ± 0 | 0.07 ± 0.01 | 0.08 ± 0.01 |
| Protein (76) | |||||
| AR | 26 | 10 | 15 | 10 | 10 |
| Private | 0 | 3 | 3 | 8 | |
| S | 45 | 38 | 39 | 39 | 40 |
| S (%) | 59.21 | 50 | 51.32 | 51.32 | 52.63 |
| K | 16.68 ± 0.4 | 19.97 ± 1.36 | 16.78 ± 0.79 | 17.27 ± 1.16 | 21.93 ± 1.28 |
| Gen. dist. All | 0.189 ± 0.005 | 0.231 ± 0.018 | 0.191 ± 0.01 | 0.199 ± 0.015 | 0.256 ± 0.017 |
| Gen. dist. ABS | 0.53 ± 0.01 | 0.58 ± 0.04 | 0.5 ± 0.02 | 0.54 ± 0.04 | 0.68 ± 0.04 |
| Gen. dist. Non-ABS | 0.11 ± 0 | 0.15 ± 0.01 | 0.12 ± 0.01 | 0.13 ± 0.01 | 0.17 ± 0.01 |
| Supertypes | |||||
| Number | 11 | 7 | 8 | 7 | 8 |
| Private | 0 | 1 | 0 | 3 | |
| MHC Class II-DRB | |||||
| DNA (247) | |||||
| AR | 13 | 7 | 8 | 3 | 5 |
| Private | 2 | 2 | 0 | 3 | |
| S | 61 | 47 | 49 | 41 | 56 |
| S (%) | 24.7 | 19.03 | 19.84 | 16.6 | 22.67 |
| K | 23.71 ± 1.01 | 22.33 ± 1.81 | 23.39 ± 1.76 | 27.67 ± 4.37 | 29.1 ± 2.13 |
| Gen. dist. All | 0.104 ± 0.005 | 0.097 ± 0.008 | 0.103 ± 0.008 | 0.122 ± 0.021 | 0.129 ± 0.01 |
| Gen. dist. ABS | 0.19 ± 0.01 | 0.15 ± 0.01 | 0.16 ± 0.01 | 0.2 ± 0.04 | 0.26 ± 0.03 |
| Gen. dist. Non-ABS | 0.07 ± 0 | 0.07 ± 0.01 | 0.08 ± 0.01 | 0.09 ± 0.01 | 0.08 ± 0.01 |
| Protein (82) | |||||
| AR | 12 | 7 | 7 | 3 | 5 |
| Private | 2 | 1 | 0 | 3 | |
| S | 28 | 23 | 23 | 23 | 27 |
| S (%) | 34.15 | 28.05 | 28.05 | 28.05 | 32.93 |
| K | 16.17 ± 0.7 | 14.63 ± 1.23 | 15.72 ± 1.25 | 19.51 ± 3.73 | 20 ± 1.51 |
| Gen. dist. All | 0.18 ± 0.008 | 0.161 ± 0.014 | 0.175 ± 0.015 | 0.221 ± 0.046 | 0.226 ± 0.018 |
| Gen. dist. ABS | 0.38 ± 0.02 | 0.31 ± 0.03 | 0.36 ± 0.04 | 0.46 ± 0.15 | 0.5 ± 0.06 |
| Gen. dist. Non-ABS | 0.11 ± 0.01 | 0.11 ± 0.01 | 0.11 ± 0.01 | 0.14 ± 0.02 | 0.14 ± 0.01 |
| Supertypes | |||||
| Number | 7 | 5 | 5 | 3 | 4 |
| Private | 1 | 0 | 0 | 1 | |