title: Rapid Identification of Major Histocompatibility Complex Class I Haplotypes Using Deep Sequencing in an Endangered Old World Monkey.
abstract: Immunogenetic data from wild primate populations have been difficult to obtain, due to logistic and methodological constraints. We applied a well-characterized deep sequencing method for MHC I typing, developed for macaques, to a population of wild red colobus to assess the feasibility of identifying MHC I-A/B haplotypes. Ten individuals produced sufficient data from blood and tissue samples to assign haplotypes. Eighty-two sequences were classified as red colobus MHC I alleles distributed across six MHC I loci. Individuals averaged ~13k reads across six MHC I loci, with 83% of all alleles representing either MHC I-A or MHC I-B loci. This study not only represents an important advance in the identification and genotyping of MHC in the endangered red colobus but also shows the potential for using this approach in other endangered wild primates.
authors.affiliation: Department of Anthropology, University of Oregon, Eugene, OR 97405, USA.
authors.forename: Noah D
authors.initials: ND
authors.lastname: Simons
authors.affiliation: Institute of Ecology and Evolution, University of Oregon, Eugene, OR 97405, USA.
authors.forename: Maria Jose
authors.initials: MJ
authors.lastname: Ruiz-Lopez
authors.affiliation: Department of Anthropology and McGill School of Environment, Montreal, Quebec, H3A 2T7, Canada.
authors.forename: Colin A
authors.initials: CA
authors.lastname: Chapman
authors.affiliation: Department of Pathobiological Sciences, University of Wisconsin-Madison, Madison, WI 53725, USA; Wisconsin National Primate Research Center, University of Wisconsin-Madison, Madison, WI 53715, USA.
authors.forename: Tony L
authors.initials: TL
authors.lastname: Goldberg
authors.affiliation: Wisconsin National Primate Research Center, University of Wisconsin-Madison, Madison, WI 53715, USA.
authors.forename: Julie A
authors.initials: JA
authors.lastname: Karl
authors.affiliation: Wisconsin National Primate Research Center, University of Wisconsin-Madison, Madison, WI 53715, USA.
authors.forename: Roger W
authors.initials: RW
authors.lastname: Wiseman
authors.affiliation: Wisconsin National Primate Research Center, University of Wisconsin-Madison, Madison, WI 53715, USA.
authors.forename: Patrick S
authors.initials: PS
authors.lastname: Bohn
authors.affiliation: Department of Pathology and Laboratory Medicine, University of Wisconsin-Madison, Madison, WI 53715, USA; Wisconsin National Primate Research Center, University of Wisconsin-Madison, Madison, WI 53715, USA.
authors.forename: David H
authors.initials: DH
authors.lastname: O'Connor
authors.affiliation: Department of Anthropology, University of Oregon, Eugene, OR 97405, USA; Institute of Ecology and Evolution, University of Oregon, Eugene, OR 97405, USA.
authors.forename: Nelson
authors.initials: N
authors.lastname: Ting
keywords: Major Histocompatibility Complex; immunogenetics; next generation sequencing; primates; red colobus