Cargando…
Genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle
The slick hair coat (SLICK) is a dominantly inherited trait typically associated with tropically adapted cattle that are from Criollo descent through Spanish colonization of cattle into the New World. The trait is of interest relative to climate change, due to its association with improved thermo-to...
Autores principales: | , , , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2014
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4010767/ https://www.ncbi.nlm.nih.gov/pubmed/24808908 http://dx.doi.org/10.3389/fgene.2014.00101 |
_version_ | 1782479903079268352 |
---|---|
author | Huson, Heather J. Kim, Eui-Soo Godfrey, Robert W. Olson, Timothy A. McClure, Matthew C. Chase, Chad C. Rizzi, Rita O'Brien, Ana M. P. Van Tassell, Curt P. Garcia, José F. Sonstegard, Tad S. |
author_facet | Huson, Heather J. Kim, Eui-Soo Godfrey, Robert W. Olson, Timothy A. McClure, Matthew C. Chase, Chad C. Rizzi, Rita O'Brien, Ana M. P. Van Tassell, Curt P. Garcia, José F. Sonstegard, Tad S. |
author_sort | Huson, Heather J. |
collection | PubMed |
description | The slick hair coat (SLICK) is a dominantly inherited trait typically associated with tropically adapted cattle that are from Criollo descent through Spanish colonization of cattle into the New World. The trait is of interest relative to climate change, due to its association with improved thermo-tolerance and subsequent increased productivity. Previous studies localized the SLICK locus to a 4 cM region on chromosome (BTA) 20 and identified signatures of selection in this region derived from Senepol cattle. The current study compares three slick-haired Criollo-derived breeds including Senepol, Carora, and Romosinuano and three additional slick-haired cross-bred lineages to non-slick ancestral breeds. Genome-wide association (GWA), haplotype analysis, signatures of selection, runs of homozygosity (ROH), and identity by state (IBS) calculations were used to identify a 0.8 Mb (37.7–38.5 Mb) consensus region for the SLICK locus on BTA20 in which contains SKP2 and SPEF2 as possible candidate genes. Three specific haplotype patterns are identified in slick individuals, all with zero frequency in non-slick individuals. Admixture analysis identified common genetic patterns between the three slick breeds at the SLICK locus. Principal component analysis (PCA) and admixture results show Senepol and Romosinuano sharing a higher degree of genetic similarity to one another with a much lesser degree of similarity to Carora. Variation in GWA, haplotype analysis, and IBS calculations with accompanying population structure information supports potentially two mutations, one common to Senepol and Romosinuano and another in Carora, effecting genes contained within our refined location for the SLICK locus. |
format | Online Article Text |
id | pubmed-4010767 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2014 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-40107672014-05-07 Genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle Huson, Heather J. Kim, Eui-Soo Godfrey, Robert W. Olson, Timothy A. McClure, Matthew C. Chase, Chad C. Rizzi, Rita O'Brien, Ana M. P. Van Tassell, Curt P. Garcia, José F. Sonstegard, Tad S. Front Genet Genetics The slick hair coat (SLICK) is a dominantly inherited trait typically associated with tropically adapted cattle that are from Criollo descent through Spanish colonization of cattle into the New World. The trait is of interest relative to climate change, due to its association with improved thermo-tolerance and subsequent increased productivity. Previous studies localized the SLICK locus to a 4 cM region on chromosome (BTA) 20 and identified signatures of selection in this region derived from Senepol cattle. The current study compares three slick-haired Criollo-derived breeds including Senepol, Carora, and Romosinuano and three additional slick-haired cross-bred lineages to non-slick ancestral breeds. Genome-wide association (GWA), haplotype analysis, signatures of selection, runs of homozygosity (ROH), and identity by state (IBS) calculations were used to identify a 0.8 Mb (37.7–38.5 Mb) consensus region for the SLICK locus on BTA20 in which contains SKP2 and SPEF2 as possible candidate genes. Three specific haplotype patterns are identified in slick individuals, all with zero frequency in non-slick individuals. Admixture analysis identified common genetic patterns between the three slick breeds at the SLICK locus. Principal component analysis (PCA) and admixture results show Senepol and Romosinuano sharing a higher degree of genetic similarity to one another with a much lesser degree of similarity to Carora. Variation in GWA, haplotype analysis, and IBS calculations with accompanying population structure information supports potentially two mutations, one common to Senepol and Romosinuano and another in Carora, effecting genes contained within our refined location for the SLICK locus. Frontiers Media S.A. 2014-04-29 /pmc/articles/PMC4010767/ /pubmed/24808908 http://dx.doi.org/10.3389/fgene.2014.00101 Text en Copyright © 2014 Huson, Kim, Godfrey, Olson, McClure, Chase, Rizzi, O'Brien, Van Tassell, Garcia and Sonstegard. http://creativecommons.org/licenses/by/3.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Genetics Huson, Heather J. Kim, Eui-Soo Godfrey, Robert W. Olson, Timothy A. McClure, Matthew C. Chase, Chad C. Rizzi, Rita O'Brien, Ana M. P. Van Tassell, Curt P. Garcia, José F. Sonstegard, Tad S. Genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle |
title | Genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle |
title_full | Genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle |
title_fullStr | Genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle |
title_full_unstemmed | Genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle |
title_short | Genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle |
title_sort | genome-wide association study and ancestral origins of the slick-hair coat in tropically adapted cattle |
topic | Genetics |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4010767/ https://www.ncbi.nlm.nih.gov/pubmed/24808908 http://dx.doi.org/10.3389/fgene.2014.00101 |
work_keys_str_mv | AT husonheatherj genomewideassociationstudyandancestraloriginsoftheslickhaircoatintropicallyadaptedcattle AT kimeuisoo genomewideassociationstudyandancestraloriginsoftheslickhaircoatintropicallyadaptedcattle AT godfreyrobertw genomewideassociationstudyandancestraloriginsoftheslickhaircoatintropicallyadaptedcattle AT olsontimothya genomewideassociationstudyandancestraloriginsoftheslickhaircoatintropicallyadaptedcattle AT mcclurematthewc genomewideassociationstudyandancestraloriginsoftheslickhaircoatintropicallyadaptedcattle AT chasechadc genomewideassociationstudyandancestraloriginsoftheslickhaircoatintropicallyadaptedcattle AT rizzirita genomewideassociationstudyandancestraloriginsoftheslickhaircoatintropicallyadaptedcattle AT obrienanamp genomewideassociationstudyandancestraloriginsoftheslickhaircoatintropicallyadaptedcattle AT vantassellcurtp genomewideassociationstudyandancestraloriginsoftheslickhaircoatintropicallyadaptedcattle AT garciajosef genomewideassociationstudyandancestraloriginsoftheslickhaircoatintropicallyadaptedcattle AT sonstegardtads genomewideassociationstudyandancestraloriginsoftheslickhaircoatintropicallyadaptedcattle |