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...

Descripción completa

Guardado en:

Detalles Bibliográficos
Autores principales:	Qunhao Niu, Tianliu Zhang, Ling Xu, Tianzhen Wang, Zezhao Wang, Bo Zhu, Xue Gao, Yan Chen, Lupei Zhang, Huijiang Gao, Junya Li, Lingyang Xu
Formato:	article
Lenguaje:	EN
Publicado:	Frontiers Media S.A. 2021
Materias:	genetic architecture imputed sequence variants bone weight Bayesian fine-mapping beef cattle Genetics QH426-470
Acceso en línea:	https://doaj.org/article/90d34f04fddf43dbab7cbea04871e0e4
Etiquetas:	Agregar Etiqueta Sin Etiquetas, Sea el primero en etiquetar este registro!

id	oai:doaj.org-article:90d34f04fddf43dbab7cbea04871e0e4
record_format	dspace
spelling	oai:doaj.org-article:90d34f04fddf43dbab7cbea04871e0e42021-12-01T13:35:22ZIdentification of Candidate Variants Associated With Bone Weight Using Whole Genome Sequence in Beef Cattle1664-802110.3389/fgene.2021.750746https://doaj.org/article/90d34f04fddf43dbab7cbea04871e0e42021-11-01T00:00:00Zhttps://www.frontiersin.org/articles/10.3389/fgene.2021.750746/fullhttps://doaj.org/toc/1664-8021Bone 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.Qunhao NiuTianliu ZhangLing XuTianzhen WangZezhao WangBo ZhuXue GaoYan ChenLupei ZhangHuijiang GaoJunya LiLingyang XuFrontiers Media S.A.articlegenetic architectureimputed sequence variantsbone weightBayesian fine-mappingbeef cattleGeneticsQH426-470ENFrontiers in Genetics, Vol 12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	genetic architecture imputed sequence variants bone weight Bayesian fine-mapping beef cattle Genetics QH426-470
spellingShingle	genetic architecture imputed sequence variants bone weight Bayesian fine-mapping beef cattle Genetics QH426-470 Qunhao Niu Tianliu Zhang Ling Xu Tianzhen Wang Zezhao Wang Bo Zhu Xue Gao Yan Chen Lupei Zhang Huijiang Gao Junya Li Lingyang Xu Identification of Candidate Variants Associated With Bone Weight Using Whole Genome Sequence in Beef Cattle
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.
format	article
author	Qunhao Niu Tianliu Zhang Ling Xu Tianzhen Wang Zezhao Wang Bo Zhu Xue Gao Yan Chen Lupei Zhang Huijiang Gao Junya Li Lingyang Xu
author_facet	Qunhao Niu Tianliu Zhang Ling Xu Tianzhen Wang Zezhao Wang Bo Zhu Xue Gao Yan Chen Lupei Zhang Huijiang Gao Junya Li Lingyang Xu
author_sort	Qunhao Niu
title	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_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_sort	identification of candidate variants associated with bone weight using whole genome sequence in beef cattle
publisher	Frontiers Media S.A.
publishDate	2021
url	https://doaj.org/article/90d34f04fddf43dbab7cbea04871e0e4
work_keys_str_mv	AT qunhaoniu identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle AT tianliuzhang identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle AT lingxu identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle AT tianzhenwang identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle AT zezhaowang identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle AT bozhu identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle AT xuegao identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle AT yanchen identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle AT lupeizhang identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle AT huijianggao identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle AT junyali identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle AT lingyangxu identificationofcandidatevariantsassociatedwithboneweightusingwholegenomesequenceinbeefcattle
_version_	1718405128797552640

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

Ejemplares similares