Detection of Copy Number Variations from <i>HIF1A</i> and <i>HIF2A</i> Gene as Genetic Determinants of Bovine Carcass Traits
The beef cattle industry has seen rapid expansion, necessitating the optimization of slaughter traits for enhanced economic benefits. Copy number variation (CNV) has emerged as a pivotal molecular marker in marker-assisted selection (MAS) for genetic improvement in livestock. In this study, we focus...
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MDPI AG
2025-06-01
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| author | Enhui Jiang Yingjie Zhou Yunan He Zhuoyuan He Hongyang Wang Leijing Zhu Chuanying Pan Chuzhao Lei Fugui Jiang Xianyong Lan |
| author_facet | Enhui Jiang Yingjie Zhou Yunan He Zhuoyuan He Hongyang Wang Leijing Zhu Chuanying Pan Chuzhao Lei Fugui Jiang Xianyong Lan |
| author_sort | Enhui Jiang |
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| description | The beef cattle industry has seen rapid expansion, necessitating the optimization of slaughter traits for enhanced economic benefits. Copy number variation (CNV) has emerged as a pivotal molecular marker in marker-assisted selection (MAS) for genetic improvement in livestock. In this study, we focused on CNVs within the <i>HIF1A</i> and <i>HIF2A</i> genes, which play crucial roles in hypoxic signaling and energy metabolism. Four CNVs were identified in the bovine <i>HIF1A</i> gene and three in <i>HIF2A</i> using the AAOD database. In Gaoqing Black cattle (GQB), the distribution of CNVs for both genes was investigated, revealing predominantly median copy numbers. Association analysis showed a significant relation between CNVs in <i>HIF1A</i> and carcass traits such as cervical vertebrae (CNV1), initial weight and beef diaphragm (CNV2), slaughter weight and chuck (CNV3), and femur and chuck (CNV4) (<i>p</i> < 0.05 or <i>p</i> < 0.01). Similarly, CNVs in <i>HIF2A</i> are associated with traits like beef diaphragm, beef knuckle bone, and beef tendon (CNV1), longissimus dorsi width and beef diaphragm (CNV2), and slaughter weight and limb weights (CNV3) (<i>p</i> < 0.05 or <i>p</i> < 0.01). These findings provide insights into the potential influence of CNVs in <i>HIF1A</i> and <i>HIF2A</i> on carcass traits in Gaoqing Black cattle, offering a theoretical basis for genetic improvement in beef cattle breeding. |
| format | Article |
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| issn | 2077-0472 |
| language | English |
| publishDate | 2025-06-01 |
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| series | Agriculture |
| spelling | doaj-art-ece6e78bc04a4d8090beca9ae55bd65a2025-08-20T02:24:03ZengMDPI AGAgriculture2077-04722025-06-011512124010.3390/agriculture15121240Detection of Copy Number Variations from <i>HIF1A</i> and <i>HIF2A</i> Gene as Genetic Determinants of Bovine Carcass TraitsEnhui Jiang0Yingjie Zhou1Yunan He2Zhuoyuan He3Hongyang Wang4Leijing Zhu5Chuanying Pan6Chuzhao Lei7Fugui Jiang8Xianyong Lan9College of Animal Science and Technology, Northwest A&F University, Yangling 712100, ChinaCollege of Animal Science and Technology, Northwest A&F University, Yangling 712100, ChinaCollege of Animal Science and Technology, Northwest A&F University, Yangling 712100, ChinaCollege of Animal Science and Technology, Northwest A&F University, Yangling 712100, ChinaCollege of Animal Science and Technology, Northwest A&F University, Yangling 712100, ChinaCollege of Animal Science and Technology, Northwest A&F University, Yangling 712100, ChinaCollege of Animal Science and Technology, Northwest A&F University, Yangling 712100, ChinaCollege of Animal Science and Technology, Northwest A&F University, Yangling 712100, ChinaKey Laboratory of Livestock and Poultry Multi-Omics of MARA, Institute of Animal Science and Veterinary Medicine, Shandong Academy of Agricultural Sciences, Jinan 250100, ChinaCollege of Animal Science and Technology, Northwest A&F University, Yangling 712100, ChinaThe beef cattle industry has seen rapid expansion, necessitating the optimization of slaughter traits for enhanced economic benefits. Copy number variation (CNV) has emerged as a pivotal molecular marker in marker-assisted selection (MAS) for genetic improvement in livestock. In this study, we focused on CNVs within the <i>HIF1A</i> and <i>HIF2A</i> genes, which play crucial roles in hypoxic signaling and energy metabolism. Four CNVs were identified in the bovine <i>HIF1A</i> gene and three in <i>HIF2A</i> using the AAOD database. In Gaoqing Black cattle (GQB), the distribution of CNVs for both genes was investigated, revealing predominantly median copy numbers. Association analysis showed a significant relation between CNVs in <i>HIF1A</i> and carcass traits such as cervical vertebrae (CNV1), initial weight and beef diaphragm (CNV2), slaughter weight and chuck (CNV3), and femur and chuck (CNV4) (<i>p</i> < 0.05 or <i>p</i> < 0.01). Similarly, CNVs in <i>HIF2A</i> are associated with traits like beef diaphragm, beef knuckle bone, and beef tendon (CNV1), longissimus dorsi width and beef diaphragm (CNV2), and slaughter weight and limb weights (CNV3) (<i>p</i> < 0.05 or <i>p</i> < 0.01). These findings provide insights into the potential influence of CNVs in <i>HIF1A</i> and <i>HIF2A</i> on carcass traits in Gaoqing Black cattle, offering a theoretical basis for genetic improvement in beef cattle breeding.https://www.mdpi.com/2077-0472/15/12/1240beef cattle<i>HIF1A</i><i>HIF2A</i>CNVcarcass traits |
| spellingShingle | Enhui Jiang Yingjie Zhou Yunan He Zhuoyuan He Hongyang Wang Leijing Zhu Chuanying Pan Chuzhao Lei Fugui Jiang Xianyong Lan Detection of Copy Number Variations from <i>HIF1A</i> and <i>HIF2A</i> Gene as Genetic Determinants of Bovine Carcass Traits Agriculture beef cattle <i>HIF1A</i> <i>HIF2A</i> CNV carcass traits |
| title | Detection of Copy Number Variations from <i>HIF1A</i> and <i>HIF2A</i> Gene as Genetic Determinants of Bovine Carcass Traits |
| title_full | Detection of Copy Number Variations from <i>HIF1A</i> and <i>HIF2A</i> Gene as Genetic Determinants of Bovine Carcass Traits |
| title_fullStr | Detection of Copy Number Variations from <i>HIF1A</i> and <i>HIF2A</i> Gene as Genetic Determinants of Bovine Carcass Traits |
| title_full_unstemmed | Detection of Copy Number Variations from <i>HIF1A</i> and <i>HIF2A</i> Gene as Genetic Determinants of Bovine Carcass Traits |
| title_short | Detection of Copy Number Variations from <i>HIF1A</i> and <i>HIF2A</i> Gene as Genetic Determinants of Bovine Carcass Traits |
| title_sort | detection of copy number variations from i hif1a i and i hif2a i gene as genetic determinants of bovine carcass traits |
| topic | beef cattle <i>HIF1A</i> <i>HIF2A</i> CNV carcass traits |
| url | https://www.mdpi.com/2077-0472/15/12/1240 |
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