Genome-wide association study for numbers of vertebrae in Dezhou donkey population reveals new candidate genes
Numbers of vertebrae is an important economic trait associated with body size and meat productivity in animals. However, the genetic basis of vertebrae number in donkey remains to be well understood. The aim of this study was to identify candidate genes affecting the number of thoracic (TVn) and the...
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KeAi Communications Co., Ltd.
2023-10-01
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| Series: | Journal of Integrative Agriculture |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S2095311923001089 |
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| author | Yan SUN Chang-heng ZHAO Jun TENG Yong-hui WANG Tian-qi WANG Xiao-yuan SHI Zi-wen LIU Hai-jing LI Ji-jing WANG Wen-wen WANG Chao NING Chang-fa WANG Qin ZHANG |
| author_facet | Yan SUN Chang-heng ZHAO Jun TENG Yong-hui WANG Tian-qi WANG Xiao-yuan SHI Zi-wen LIU Hai-jing LI Ji-jing WANG Wen-wen WANG Chao NING Chang-fa WANG Qin ZHANG |
| author_sort | Yan SUN |
| collection | DOAJ |
| description | Numbers of vertebrae is an important economic trait associated with body size and meat productivity in animals. However, the genetic basis of vertebrae number in donkey remains to be well understood. The aim of this study was to identify candidate genes affecting the number of thoracic (TVn) and the number of lumbar vertebrae (LVn) in Dezhou donkey. A genome-wide association study was conducted using whole genome sequence data imputed from low-coverage genome sequencing. For TVn, we identified 38 genome-wide significant and 64 suggestive SNPs, which relate to 7 genes (NLGN1, DCC, SLC26A7, TOX, WNT7A, LOC123286078, and LOC123280142). For LVn, we identified 9 genome-wide significant and 38 suggestive SNPs, which relate to 8 genes (GABBR2, FBXO4, LOC123277146, LOC123277359, BMP7, B3GAT1, EML2, and LRP5). The genes involve in the Wnt and TGF-β signaling pathways and may play an important role in embryonic development or bone formation and could be good candidate genes for TVn and LVn. |
| format | Article |
| id | doaj-art-53070cf4965f40e4af1ea3c3151665c6 |
| institution | Kabale University |
| issn | 2095-3119 |
| language | English |
| publishDate | 2023-10-01 |
| publisher | KeAi Communications Co., Ltd. |
| record_format | Article |
| series | Journal of Integrative Agriculture |
| spelling | doaj-art-53070cf4965f40e4af1ea3c3151665c62025-08-20T03:58:25ZengKeAi Communications Co., Ltd.Journal of Integrative Agriculture2095-31192023-10-0122103159316910.1016/j.jia.2023.04.038Genome-wide association study for numbers of vertebrae in Dezhou donkey population reveals new candidate genesYan SUN0Chang-heng ZHAO1Jun TENG2Yong-hui WANG3Tian-qi WANG4Xiao-yuan SHI5Zi-wen LIU6Hai-jing LI7Ji-jing WANG8Wen-wen WANG9Chao NING10Chang-fa WANG11Qin ZHANG12Shandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Technology, Shandong Agricultural University, Tai'an 271018, P.R.ChinaShandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Technology, Shandong Agricultural University, Tai'an 271018, P.R.ChinaShandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Technology, Shandong Agricultural University, Tai'an 271018, P.R.ChinaLiaocheng Research Institute of Donkey High-Efficiency Breeding and Ecological Feeding, Liaocheng University, Liaocheng 252059, P.R.ChinaLiaocheng Research Institute of Donkey High-Efficiency Breeding and Ecological Feeding, Liaocheng University, Liaocheng 252059, P.R.ChinaLiaocheng Research Institute of Donkey High-Efficiency Breeding and Ecological Feeding, Liaocheng University, Liaocheng 252059, P.R.ChinaLiaocheng Research Institute of Donkey High-Efficiency Breeding and Ecological Feeding, Liaocheng University, Liaocheng 252059, P.R.ChinaNational Engineering Research Center for Gelatin-Based Traditional Chinese Medicine, Dong-E E-Jiao Co. Ltd., Liaocheng 252200, P.R.ChinaShandong Provincial Key Laboratory of Animal Disease Control and Breeding, Institute of Animal Science and Veterinary Medicine, Shandong Academy of Agricultural Sciences, Jinan 250100, P.R.ChinaShandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Technology, Shandong Agricultural University, Tai'an 271018, P.R.ChinaShandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Technology, Shandong Agricultural University, Tai'an 271018, P.R.ChinaLiaocheng Research Institute of Donkey High-Efficiency Breeding and Ecological Feeding, Liaocheng University, Liaocheng 252059, P.R.China; Correspondence WANG Chang-faShandong Provincial Key Laboratory of Animal Biotechnology and Disease Control and Prevention, College of Animal Science and Technology, Shandong Agricultural University, Tai'an 271018, P.R.China; Correspondence ZHANG QinNumbers of vertebrae is an important economic trait associated with body size and meat productivity in animals. However, the genetic basis of vertebrae number in donkey remains to be well understood. The aim of this study was to identify candidate genes affecting the number of thoracic (TVn) and the number of lumbar vertebrae (LVn) in Dezhou donkey. A genome-wide association study was conducted using whole genome sequence data imputed from low-coverage genome sequencing. For TVn, we identified 38 genome-wide significant and 64 suggestive SNPs, which relate to 7 genes (NLGN1, DCC, SLC26A7, TOX, WNT7A, LOC123286078, and LOC123280142). For LVn, we identified 9 genome-wide significant and 38 suggestive SNPs, which relate to 8 genes (GABBR2, FBXO4, LOC123277146, LOC123277359, BMP7, B3GAT1, EML2, and LRP5). The genes involve in the Wnt and TGF-β signaling pathways and may play an important role in embryonic development or bone formation and could be good candidate genes for TVn and LVn.http://www.sciencedirect.com/science/article/pii/S2095311923001089numbers of vertebraeGWASgenotype imputationDezhou donkey |
| spellingShingle | Yan SUN Chang-heng ZHAO Jun TENG Yong-hui WANG Tian-qi WANG Xiao-yuan SHI Zi-wen LIU Hai-jing LI Ji-jing WANG Wen-wen WANG Chao NING Chang-fa WANG Qin ZHANG Genome-wide association study for numbers of vertebrae in Dezhou donkey population reveals new candidate genes Journal of Integrative Agriculture numbers of vertebrae GWAS genotype imputation Dezhou donkey |
| title | Genome-wide association study for numbers of vertebrae in Dezhou donkey population reveals new candidate genes |
| title_full | Genome-wide association study for numbers of vertebrae in Dezhou donkey population reveals new candidate genes |
| title_fullStr | Genome-wide association study for numbers of vertebrae in Dezhou donkey population reveals new candidate genes |
| title_full_unstemmed | Genome-wide association study for numbers of vertebrae in Dezhou donkey population reveals new candidate genes |
| title_short | Genome-wide association study for numbers of vertebrae in Dezhou donkey population reveals new candidate genes |
| title_sort | genome wide association study for numbers of vertebrae in dezhou donkey population reveals new candidate genes |
| topic | numbers of vertebrae GWAS genotype imputation Dezhou donkey |
| url | http://www.sciencedirect.com/science/article/pii/S2095311923001089 |
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