Table 2

Comparison of non-synonymous (dN) and synonymous (dS) substitution rates at the DQB exon 2 region
Species Gene No. of sample No. of variant Length PBRs Non-PBRs Entire exon 2 region
dN/dxS dN dN/dS dN dN/dS dN dS
Ursidae
Japanese black beara DQB 184k 43k 267 bp 3.83 0.11 ± 0.04 0.63 0.02 ± 0.01 1.48 0.04 ± 0.01 0.03 ± 0.01
Giant pandab DQB1 121 6 267 bp 1.33 0.02 ± 0.06 0.47 0.01 ± 0.02 0.71 0.02 ± 0.05 0.01 ± 0.03
Brown bear*c DRB 38 19 267 bp 4.09 0.06 ± 0.29 0.72 0.02 ± 0.05 1.53 0.02 ± 0.07 0.02 ± 0.11
Other carnivores
African wild dogd DRB 320 19 267 bp 5.28 0.06 ± 0.21 0.56 0.01 ± 0.02 1.72 0.02 ± 0.04 0.02 ± 0.07
Namibian cheetah*e DRB 139 4 237 bp 2.01 0.06 ± 0.25 0.37 0.01 ± 0.05 0.76 0.04 ± 0.13 0.02 ± 0.10
European minkf DRB 20 9 228 bp 1.78 0.06 ± 0.16 0.26 0.01 ± 0.02 0.65 0.03 ± 0.09 0.02 ± 0.06
Non-carnivores
Water buffalo*g, h DQB 210 22 243 bp 2.65 0.07 ± 0.37 0.92 0.03 ± 0.13 1.34 0.03 ± 0.14 0.03 ± 0.19
Ma's night monkeyi DQB1 19 14 246 bp 2.71 0.05 ± 0.19 0.95 0.02 ± 0.07 1.39 0.02 ± 0.07 0.02 ± 0.10
Yellow necked mousej DRB 146 27 216 bp 7.75 0.09 ± 0.38 1.13 0.02 ± 0.06 2.46 0.02 ± 0.05 0.02 ± 0.12

The dN and dS are estimated by the modified Nei-Gojobori method.

a: present study; b: Chen et al. [34]; c: Goda et al. [36]; d: Marsden et al. [91];

e: Castro-Prieto et al. [92]; f: Becker et al. [93]; g: Niranjan et al. [94]; h: Sena et al. [95];

i: Diaz et al. [96]; j: Meyer-Lucht and Sommer [97]; k: An individual that has the putative pseudogene, Urth-DQB*3201, is excluded.

*: The number of MHC variants may be derived from multiple loci.

Yasukochi et al.

Yasukochi et al. BMC Evolutionary Biology 2012 12:230   doi:10.1186/1471-2148-12-230

Open Data