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Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing
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 determi...
Autores principales: | , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Springer Berlin Heidelberg
2016
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5056950/ https://www.ncbi.nlm.nih.gov/pubmed/27516207 http://dx.doi.org/10.1007/s00251-016-0945-7 |
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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 |
author_facet | 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 |
author_sort | Vasoya, Deepali |
collection | PubMed |
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. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s00251-016-0945-7) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-5056950 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2016 |
publisher | Springer Berlin Heidelberg |
record_format | MEDLINE/PubMed |
spelling | pubmed-50569502016-10-26 Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing 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 Immunogenetics Original Article 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. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1007/s00251-016-0945-7) contains supplementary material, which is available to authorized users. Springer Berlin Heidelberg 2016-08-11 2016 /pmc/articles/PMC5056950/ /pubmed/27516207 http://dx.doi.org/10.1007/s00251-016-0945-7 Text en © The Author(s) 2016 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. |
spellingShingle | Original Article 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 Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing |
title | Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing |
title_full | Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing |
title_fullStr | Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing |
title_full_unstemmed | Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing |
title_short | Rapid identification of bovine MHCI haplotypes in genetically divergent cattle populations using next-generation sequencing |
title_sort | rapid identification of bovine mhci haplotypes in genetically divergent cattle populations using next-generation sequencing |
topic | Original Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5056950/ https://www.ncbi.nlm.nih.gov/pubmed/27516207 http://dx.doi.org/10.1007/s00251-016-0945-7 |
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