TABLE 6.
Identification of putative SIV-specific polymorphisms linked to pig-tailed macaque MHC-I haplotypes using a 10-amino-acid sliding window analysis
| Haplotype | Protein | Nucleotide region |
No. of Mane-positive mutation-positive animals/total no. of Mane-positive animals | No. of Mane-negative mutation-positive animals/total no. of Mane-negative animals | P value (two-tailed) | No. of windows positive for amino acid sequence | Amino acid sequence spanning positive sliding windows | |
|---|---|---|---|---|---|---|---|---|
| Start | End | |||||||
| Mane-A*006 | Gag | 2182 | 2226 | 2/3 | 1/41 | 0.0094 | 6 | IPFAAAQQRGPRKPI |
| Pol | 4047 | 4076 | 2/3 | 1/41 | 0.0094 | 1 | QWWTDYWQVT | |
| Env | 7538 | 7588 | 3/3 | 6/41 | 0.0063 | 8 | RPGNKTVLPVTIMSGLV | |
| Mane-A*019 | Pol | 3036 | 3095 | 4/5 | 2/39 | 0.0005 | 11 | AIKKKDKNKWRMLIDFRELN |
| Env | 9023 | 9091 | 4/5 | 2/39 | 0.0005 | 10 | ALQRIREVLRTELTYLSYF | |
| Mane-A*032 | Tat | 6393 | 6425 | 2/2 | 2/42 | 0.0063 | 2 | ESANLGEEILS |
| Mane-A*052 | Env | 6911 | 6958 | 3/5 | 2/39 | 0.0070 | 7 | KLSPLCITMRCNKSET |
| Mane-A*082 | Env | 7256 | 7309 | 4/13 | 0/31 | 0.0053 | 9 | SCDKHYWDTIRFRYCAPP |
| Mane-A1*084 | Gag | 2284 | 2313 | 5/16 | 0/28 | 0.0040 | 1 | RQGCWKCGKM |
| Env | 8795 | 8836 | 13/16 | 7/28 | 0.0005 | 5 | FQQTHIQQDPALPT | |
| Mane-A*114 | Gag | 2446 | 2475 | 2/2 | 1/42 | 0.0032 | 1 | PAVDLLKNYM |
| Pol | 4044 | 4073 | 2/2 | 2/42 | 0.0063 | 1 | EQWWTDYWQV | |
| Vif | 5701 | 5748 | 2/2 | 2/42 | 0.0063 | 7 | EVRRAIRGEQLLSCCK | |
| Mane-B017 | Pol | 3426 | 3455 | 2/2 | 2/42 | 0.0063 | 1 | DRTDLEHDRV |
| Mane-B039 | Tat | 8862 | 8900 | 3/5 | 1/39 | 0.0029 | 4 | EKAVATAPGLGR |
| Mane-B043 | Pol | 5277 | 5306 | 3/5 | 0/36 | 0.0042 | 1 | ILKVGTDIKV |
| Vif | 5533 | 5562 | 4/8 | 1/35 | 0.0023 | 1 | SHLEVQGYWH | |
| Vif | 5548 | 5589 | 4/8 | 2/36 | 0.0065 | 5 | QGYWHLTPERGWLS | |
| Env | 9137 | 9190 | 5/8 | 2/36 | 0.0009 | 8 | AGAWGDLWETLRRGRWI | |
| Mane-B047 | Env | 8837 | 8866 | 6/6 | 14/38 | 0.0055 | 1 | REGKEGDGGE |
| Nef | 9279 | 9314 | 5/6 | 9/38 | 0.0089 | 3 | PWRNPAEEREKL | |
| Mane-B052 | Pol | 2751 | 2780 | 2/2 | 2/42 | 0.0063 | 1 | VLGKRIKGTI |
| Pol | 3351 | 3413 | 2/2 | 1/42 | 0.0032 | 12 | VLEPFRKANPDVTLVQYMDDI | |
| Vif | 5869 | 5904 | 2/2 | 2/42 | 0.0063 | 3 | RGLRMAKQNSRG | |
| Mane-B069 | Gag | 2272 | 2304 | 2/4 | 0/40 | 0.0063 | 2 | RAPRRQGCWKC |
| Pol | 2568 | 2603 | 2/4 | 0/40 | 0.0063 | 3 | LWRRPVVTAHIE | |
| Env | 6815 | 6853 | 2/4 | 0/40 | 0.0063 | 4 | VTESFDAWENTVT | |
| Mane-B104 | Vpx | 6619 | 6657 | 3/3 | 7/41 | 0.0091 | 4 | ESAAYRHLAFKCL |
| Env | 7142 | 7189 | 2/3 | 1/41 | 0.0094 | 7 | KEYNETWYSTDLVCEQ | |
| Env | 8291 | 8341 | 2/3 | 1/41 | 0.0094 | 8 | QQQQLLDVVKRQQELLR | |
| Mane-B119 | Pol | 3822 | 3857 | 2/3 | 1/41 | 0.0094 | 3 | PLEATVIKSQDN |
| Env | 7907 | 7939 | 2/3 | 1/41 | 0.0094 | 2 | QIINTWHKVGK | |