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    Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing

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    Date
    2016
    Author
    Vasoya, Deepali
    Law, Andy
    Motta, Paolo
    Yu, Mingyan
    Muwonge, Adrian
    Cook, Elizabeth
    Li, Xiaoying
    Bryson, Karen
    MacCallam, Amanda
    Sitt, Tatjana
    Toye, Philip
    Bronsvoort, Barend
    Watson, Mick
    Morrison, W. Ivan
    Connelley, Timothy
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    Abstract
    The major histocompatibility complex (MHC) region contains many genes that are key regulators of both innate and adaptive immunity including the polymorphicMHCI and MHCII genes. Consequently, the characterisation of the repertoire of MHC genes is critical to understanding the variation that determines the nature of immune responses. Our current knowledge of the bovine MHCI repertoire is limited with only the Holstein-Friesian breed having been studied in any depth. Traditional methods of MHCI genotyping are of low resolution and laborious and this has been a major impediment to a more comprehensive analysis of the MHCI repertoire of other cattle breeds. Next-generation sequencing (NGS) technologies have been used to enable high throughput and much higher resolution MHCI typing in a number of species. In this study we have developed a MiSeq platform approach and requisite bioinformatics pipeline to facilitate typing of bovineMHCI repertoires. The method was validated initially on a cohort of Holstein-Friesian animals and then demonstrated to enable characterisation of MHCI repertoires in African cattle breeds, for which there was limited or no available data. During the course of these studies we identified >140 novel classical MHCI genes and defined 62 novel MHCI haplotypes, dramatically expanding the known bovine MHCI repertoire.
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    https://nru.uncst.go.ug/handle/123456789/7651
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    • Agricultural and Veterinary Sciences [1281]

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