MHC haplotype for rhesus macaques.

Summary of comprehensive MHC class I genotypes of Chinese-origin rhesus macaques as determined by Sanger-based and Roche/454 pyrosequence-based typing. MHC class I sequences from each animal were compared to an in-house database of all known Mamu sequences using BLASTN. Total numbers of sequences evaluated and unique MHC-I alleles detected for each animal are listed. Pyrosequencing provided significantly greater depth of coverage, but the method used was still being established at the time the genotyping was performed and as such, most animals were typed using Sanger-based methods. Animals observed with MHC-I alleles or haplotypes associated with control of SIV replication (Mamu-B*003 and Mamu-B*017) are indicated by shading. The percentage of sequence reads corresponding to a given protective allele lineage in each animal are shown in burgundy. Other alleles associated with control, such as the Indian-origin rhesus macaque alleles Mamu-A1*001, Mamu-B*008 or Mamu-B*047, were not observed in this cohort. Only alleles with known positive association to SIV control are displayed here; there is always the potential that positive associations to control will be identified for other alleles observed in this cohort in the future, since most alleles expressed by Chinese-origin rhesus macaques have not been studied for correlations to SIV disease outcome.