Sequence-Based Genotyping of Expressed Swine Leukocyte Antigen Class I Alleles by Next-Generation Sequencing Reveal Novel Swine Leukocyte Antigen Class I Haplotypes and Alleles in Belgian, Danish, and Kenyan Fattening Pigs and Göttingen Minipigs

Maria Rathmann Sørensen, Mette Ilsøe, Mikael Lenz Strube, Richard Bishop, Gitte Erbs, Sofie Bruun Hartmann, Gregers Jungersen

    Research output: Contribution to journalJournal articleResearchpeer-review

    330 Downloads (Pure)

    Abstract

    The need for typing of the swine leukocyte antigen (SLA) is increasing with the expanded use of pigs as models for human diseases and organ-transplantation experiments, their use in infection studies, and for design of veterinary vaccines. Knowledge of SLA sequences is furthermore a prerequisite for the prediction of epitope binding in pigs. The low number of known SLA class I alleles and the limited knowledge of their prevalence in different pig breeds emphasizes the need for efficient SLA typing methods. This study utilizes an SLA class I-typing method based on next-generation sequencing of barcoded PCR amplicons. The amplicons were generated with universal primers and predicted to resolve 68-88% of all known SLA class I alleles dependent on amplicon size. We analyzed the SLA profiles of 72 pigs from four different pig populations; Göttingen minipigs and Belgian, Kenyan, and Danish fattening pigs. We identified 67 alleles, nine previously described haplotypes and 15 novel haplotypes. The highest variation in SLA class I profiles was observed in the Danish pigs and the lowest among the Göttingen minipig population, which also have the highest percentage of homozygote individuals. Highlighting the fact that there are still numerous unknown SLA class I alleles to be discovered, a total of 12 novel SLA class I alleles were identified. Overall, we present new information about known and novel alleles and haplotypes and their prevalence in the tested pig populations.
    Original languageEnglish
    Article number701
    JournalFrontiers in Immunology
    Volume8
    ISSN1664-3224
    DOIs
    Publication statusPublished - 2017

    Bibliographical note

    This is an open-access article distributed under the terms of the Creative Commons Attribution License.

    Keywords

    • MHC typing
    • Immunology
    • Next-generation sequencing
    • Pigs
    • Swine leukocyte antigen

    Fingerprint Dive into the research topics of 'Sequence-Based Genotyping of Expressed Swine Leukocyte Antigen Class I Alleles by Next-Generation Sequencing Reveal Novel Swine Leukocyte Antigen Class I Haplotypes and Alleles in Belgian, Danish, and Kenyan Fattening Pigs and Göttingen Minipigs'. Together they form a unique fingerprint.

    Cite this