R Alan Harris
Tanzania
Research Article
MHC Genotyping from Rhesus Macaque Exome Sequences
Author(s): John R Caskey, Roger W Wiseman, Julie A Karl, David A Baker, Taylor Lee, Robert J Maddox, Muthuswamy Raveendran, R Alan Harris, Jianhong Hu, Donna M Muzny, Jeffrey Rogers and David H O’ConnorJohn R Caskey, Roger W Wiseman, Julie A Karl, David A Baker, Taylor Lee, Robert J Maddox, Muthuswamy Raveendran, R Alan Harris, Jianhong Hu, Donna M Muzny, Jeffrey Rogers and David H O’Connor
Indian rhesus macaque major histocompatibility complex (MHC)-variation can influence the outcomes of transplantation and infectious disease studies. Frequently, rhesus macaques are MHC genotyped to identify variants that could account for unexpected results. Since the MHC is only one region in the genome where variation could impact experimental outcomes, strategies for simultaneously profiling variation in the macaque MHC and the remainder of the protein coding genome would be useful. Here we determine MHC class I and class II genotypes using target-capture probes enriched for MHC sequences, a method we term macaque exome sequence (MES) genotyping. For a cohort of 27 Indian rhesus macaques, we describe two methods for obtaining MHC genotypes from MES data and demonstrate that the MHC class I and class II genotyping results obtained with these methods are 98.1% and 98.7% concordant, r.. View More»