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Identification of Candidate Variants Associated With Bone Weight Using Whole Genome Sequence in Beef Cattle

Bone weight is critical to affect body conformation and stature in cattle. In this study, we conducted a genome-wide association study for bone weight in Chinese Simmental beef cattle based on the imputed sequence variants. We identified 364 variants associated with bone weight, while 350 of them we...

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Autores principales: Niu, Qunhao, Zhang, Tianliu, Xu, Ling, Wang, Tianzhen, Wang, Zezhao, Zhu, Bo, Gao, Xue, Chen, Yan, Zhang, Lupei, Gao, Huijiang, Li, Junya, Xu, Lingyang
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8667311/
https://www.ncbi.nlm.nih.gov/pubmed/34912371
http://dx.doi.org/10.3389/fgene.2021.750746
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author Niu, Qunhao
Zhang, Tianliu
Xu, Ling
Wang, Tianzhen
Wang, Zezhao
Zhu, Bo
Gao, Xue
Chen, Yan
Zhang, Lupei
Gao, Huijiang
Li, Junya
Xu, Lingyang
author_facet Niu, Qunhao
Zhang, Tianliu
Xu, Ling
Wang, Tianzhen
Wang, Zezhao
Zhu, Bo
Gao, Xue
Chen, Yan
Zhang, Lupei
Gao, Huijiang
Li, Junya
Xu, Lingyang
author_sort Niu, Qunhao
collection PubMed
description Bone weight is critical to affect body conformation and stature in cattle. In this study, we conducted a genome-wide association study for bone weight in Chinese Simmental beef cattle based on the imputed sequence variants. We identified 364 variants associated with bone weight, while 350 of them were not included in the Illumina BovineHD SNP array, and several candidate genes and GO terms were captured to be associated with bone weight. Remarkably, we identified four potential variants in a candidate region on BTA6 using Bayesian fine-mapping. Several important candidate genes were captured, including LAP3, MED28, NCAPG, LCORL, SLIT2, and IBSP, which have been previously reported to be associated with carcass traits, body measurements, and growth traits. Notably, we found that the transcription factors related to MED28 and LCORL showed high conservation across multiple species. Our findings provide some valuable information for understanding the genetic basis of body stature in beef cattle.
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spelling pubmed-86673112021-12-14 Identification of Candidate Variants Associated With Bone Weight Using Whole Genome Sequence in Beef Cattle Niu, Qunhao Zhang, Tianliu Xu, Ling Wang, Tianzhen Wang, Zezhao Zhu, Bo Gao, Xue Chen, Yan Zhang, Lupei Gao, Huijiang Li, Junya Xu, Lingyang Front Genet Genetics Bone weight is critical to affect body conformation and stature in cattle. In this study, we conducted a genome-wide association study for bone weight in Chinese Simmental beef cattle based on the imputed sequence variants. We identified 364 variants associated with bone weight, while 350 of them were not included in the Illumina BovineHD SNP array, and several candidate genes and GO terms were captured to be associated with bone weight. Remarkably, we identified four potential variants in a candidate region on BTA6 using Bayesian fine-mapping. Several important candidate genes were captured, including LAP3, MED28, NCAPG, LCORL, SLIT2, and IBSP, which have been previously reported to be associated with carcass traits, body measurements, and growth traits. Notably, we found that the transcription factors related to MED28 and LCORL showed high conservation across multiple species. Our findings provide some valuable information for understanding the genetic basis of body stature in beef cattle. Frontiers Media S.A. 2021-11-29 /pmc/articles/PMC8667311/ /pubmed/34912371 http://dx.doi.org/10.3389/fgene.2021.750746 Text en Copyright © 2021 Niu, Zhang, Xu, Wang, Wang, Zhu, Gao, Chen, Zhang, Gao, Li and Xu. https://creativecommons.org/licenses/by/4.0/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) and the copyright owner(s) 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
Niu, Qunhao
Zhang, Tianliu
Xu, Ling
Wang, Tianzhen
Wang, Zezhao
Zhu, Bo
Gao, Xue
Chen, Yan
Zhang, Lupei
Gao, Huijiang
Li, Junya
Xu, Lingyang
Identification of Candidate Variants Associated With Bone Weight Using Whole Genome Sequence in Beef Cattle
title Identification of Candidate Variants Associated With Bone Weight Using Whole Genome Sequence in Beef Cattle
title_full Identification of Candidate Variants Associated With Bone Weight Using Whole Genome Sequence in Beef Cattle
title_fullStr Identification of Candidate Variants Associated With Bone Weight Using Whole Genome Sequence in Beef Cattle
title_full_unstemmed Identification of Candidate Variants Associated With Bone Weight Using Whole Genome Sequence in Beef Cattle
title_short Identification of Candidate Variants Associated With Bone Weight Using Whole Genome Sequence in Beef Cattle
title_sort identification of candidate variants associated with bone weight using whole genome sequence in beef cattle
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8667311/
https://www.ncbi.nlm.nih.gov/pubmed/34912371
http://dx.doi.org/10.3389/fgene.2021.750746
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