Discover QTLs for the level of blood components in Shaoxing duck using GWAS and haplotype sharing analysis
Blood composition is indicative of health-related traits such as immunity and metabolism. The use of molecular genetics to investigate alterations in these attributes in laying ducks is a novel approach. Our objective was to employ genome − wide association studies (GWAS) and haplotype − sharing ana...
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| Format: | Article |
| Language: | English |
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Taylor & Francis Group
2024-12-01
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| Series: | Animal Biotechnology |
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| Online Access: | https://www.tandfonline.com/doi/10.1080/10495398.2024.2390940 |
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| author | Wenwu Xu Zhenzhen Wang Zeng Tao Kui Li Lizhi Lu |
| author_facet | Wenwu Xu Zhenzhen Wang Zeng Tao Kui Li Lizhi Lu |
| author_sort | Wenwu Xu |
| collection | DOAJ |
| description | Blood composition is indicative of health-related traits such as immunity and metabolism. The use of molecular genetics to investigate alterations in these attributes in laying ducks is a novel approach. Our objective was to employ genome − wide association studies (GWAS) and haplotype − sharing analysis to identify genomic regions and potential genes associated with 11 blood components in Shaoxing ducks. Our findings revealed 35 SNPs and 1 SNP associated with low-density lipoprotein cholesterol (LDL) and globulin (GLB), respectively. We identified 36 putative candidate genes for the LDL trait in close proximity to major QTLs and key loci. Based on their biochemical and physiological properties, TRA2A, NPY, ARHGEF26, DHX36, and AADAC are the strongest putative candidate genes. Through linkage disequilibrium analysis and haplotype sharing analysis, we identified three haplotypes and one haplotype, respectively, that were significantly linked with LDL and GLB. These haplotypes could be selected as potential candidate haplotypes for molecular breeding of Shaoxing ducks. Additionally, we utilized a bootstrap test to verify the reliability of GWAS with small experimental samples. The test can be accessed at https://github.com/xuwenwu24/Bootstrap-test. |
| format | Article |
| id | doaj-art-9de33410fad74cfeb5cddf8d6e0ade87 |
| institution | Kabale University |
| issn | 1049-5398 1532-2378 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | Taylor & Francis Group |
| record_format | Article |
| series | Animal Biotechnology |
| spelling | doaj-art-9de33410fad74cfeb5cddf8d6e0ade872025-08-20T03:25:59ZengTaylor & Francis GroupAnimal Biotechnology1049-53981532-23782024-12-0135110.1080/10495398.2024.2390940Discover QTLs for the level of blood components in Shaoxing duck using GWAS and haplotype sharing analysisWenwu Xu0Zhenzhen Wang1Zeng Tao2Kui Li3Lizhi Lu4State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Animal Science and Veterinary, Zhejiang Academy of Agricultural Science, Hangzhou, ChinaInstitute of Animal Husbandry and Veterinary Medicine, Zhejiang Academy of Agricultural Sciences, Hangzhou, ChinaState Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Animal Science and Veterinary, Zhejiang Academy of Agricultural Science, Hangzhou, ChinaZhejiang Animal Husbandry Technology Extension and Breeding Livestock & Poultry Testing Station, Hangzhou, Zhejiang, ChinaState Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-Products, Institute of Animal Science and Veterinary, Zhejiang Academy of Agricultural Science, Hangzhou, ChinaBlood composition is indicative of health-related traits such as immunity and metabolism. The use of molecular genetics to investigate alterations in these attributes in laying ducks is a novel approach. Our objective was to employ genome − wide association studies (GWAS) and haplotype − sharing analysis to identify genomic regions and potential genes associated with 11 blood components in Shaoxing ducks. Our findings revealed 35 SNPs and 1 SNP associated with low-density lipoprotein cholesterol (LDL) and globulin (GLB), respectively. We identified 36 putative candidate genes for the LDL trait in close proximity to major QTLs and key loci. Based on their biochemical and physiological properties, TRA2A, NPY, ARHGEF26, DHX36, and AADAC are the strongest putative candidate genes. Through linkage disequilibrium analysis and haplotype sharing analysis, we identified three haplotypes and one haplotype, respectively, that were significantly linked with LDL and GLB. These haplotypes could be selected as potential candidate haplotypes for molecular breeding of Shaoxing ducks. Additionally, we utilized a bootstrap test to verify the reliability of GWAS with small experimental samples. The test can be accessed at https://github.com/xuwenwu24/Bootstrap-test.https://www.tandfonline.com/doi/10.1080/10495398.2024.2390940GWAShaplotypeblood componentsShaoxing duck |
| spellingShingle | Wenwu Xu Zhenzhen Wang Zeng Tao Kui Li Lizhi Lu Discover QTLs for the level of blood components in Shaoxing duck using GWAS and haplotype sharing analysis Animal Biotechnology GWAS haplotype blood components Shaoxing duck |
| title | Discover QTLs for the level of blood components in Shaoxing duck using GWAS and haplotype sharing analysis |
| title_full | Discover QTLs for the level of blood components in Shaoxing duck using GWAS and haplotype sharing analysis |
| title_fullStr | Discover QTLs for the level of blood components in Shaoxing duck using GWAS and haplotype sharing analysis |
| title_full_unstemmed | Discover QTLs for the level of blood components in Shaoxing duck using GWAS and haplotype sharing analysis |
| title_short | Discover QTLs for the level of blood components in Shaoxing duck using GWAS and haplotype sharing analysis |
| title_sort | discover qtls for the level of blood components in shaoxing duck using gwas and haplotype sharing analysis |
| topic | GWAS haplotype blood components Shaoxing duck |
| url | https://www.tandfonline.com/doi/10.1080/10495398.2024.2390940 |
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