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

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Title Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing
 
Creator Vasoya, D.
Law, A.
Motta, P.
Mingyan Yu
Muwonge, A.
Cook, Elizabeth A.J.
Xiaoying Li
Bryson, K.
MacCallam, A.
Sitt, Tatjana
Toye, Philip G.
Bronsvoort, B.M. de C.
Watson, Mick
Morrison, W. Ivan
Connelley, T.
 
Subject cattle
identification
major histocompatibility complex
animal diseases
 
Description The major histocompatibility complex (MHC) region contains many genes that are key regulators of both innate and adaptive immunity including the polymorphic MHCI 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 bovine MHCI 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.
 
Date 2016-11
2016-12-21T13:06:42Z
2016-12-21T13:06:42Z
 
Type Journal Article
 
Identifier Vasoya, D., Law, A., Motta, P., Mingyan Yu, Muwonge, A., Cook, E., Xiaoying Li, Bryson, K., MacCallam, A., Sitt, T., Toye, P., Bronsvoort, B., Watson, M., Morrison, W.I. and Connelley, T. 2016. Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing. Immunogenetics 68 (10):765–781.
0093-7711
https://hdl.handle.net/10568/78440
https://doi.org/10.1007/s00251-016-0945-7
 
Language en
 
Rights CC-BY-4.0
Open Access
 
Format p. 765-781
 
Publisher Springer Science and Business Media LLC
 
Source Immunogenetics