Inspection of real and imputed genotypes reveled 76 SNPs associated to rear udder height in Holstein cattle
Objective: This paper presents the obtained result of a study that realizes to associate a set of real and imputed single nucleotide polymorphisms (SNP) genotypes to the rear udder height in Holstein cows. Materials and methods: Forty-six Holstein cows from an arid zone of Mexico were phenotyped an...
| Main Authors: | , , , , , , |
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| Format: | Article |
| Language: | English |
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Network for the Veterinarians of Bangladesh
2020-06-01
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| Series: | Journal of Advanced Veterinary and Animal Research |
| Subjects: | |
| Online Access: | http://www.ejmanager.com/fulltextpdf.php?mno=79539 |
| _version_ | 1818302166075441152 |
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| author | Mirvana Gonzalez Rafael Villa Carlos Villa Victor Gonzalez Martin Montano Gerardo Medina Pad Mahadevan |
| author_facet | Mirvana Gonzalez Rafael Villa Carlos Villa Victor Gonzalez Martin Montano Gerardo Medina Pad Mahadevan |
| author_sort | Mirvana Gonzalez |
| collection | DOAJ |
| description | Objective: This paper presents the obtained result of a study that realizes to associate a set of real and imputed single nucleotide polymorphisms (SNP) genotypes to the rear udder height in Holstein cows.
Materials and methods: Forty-six Holstein cows from an arid zone of Mexico were phenotyped and genotyped for this study. Blood samples were used for DNA extraction, genotyping was per¬formed with the Illumina BovineLD Bead chip which interrogates 6,912 SNPs genome-wide, and imputation was performed using the Findhap software. After QC filters, a total of 22,251 high quality and informative SNPs were inspected.
Results: The results showed the detection of 76 significant SNPs throughout the complete genome. Significant SNPs fall inside 111 Quantitative Loci Traits related to protein percentage, milk yield, and fat, among others, in chromosomes 1, 2, 3, 5, 6, 9, 10, 11, 12, 13, 19, 20, 21, 23, 26, 27, and 29. Similarly, results confirm that a genotype imputation is a convenient option for genome-wide covering when selecting economic traits with low-density real SNP panels.
Conclusion: This study contributes to establishing a low-cost and profitable strategy for applying genomic selection in developing countries. [J Adv Vet Anim Res 2020; 7(2.000): 234-241] |
| first_indexed | 2024-12-13T05:34:35Z |
| format | Article |
| id | doaj.art-6f7fdeb92b764b1ea463e6853abce519 |
| institution | Directory Open Access Journal |
| issn | 2311-7710 |
| language | English |
| last_indexed | 2024-12-13T05:34:35Z |
| publishDate | 2020-06-01 |
| publisher | Network for the Veterinarians of Bangladesh |
| record_format | Article |
| series | Journal of Advanced Veterinary and Animal Research |
| spelling | doaj.art-6f7fdeb92b764b1ea463e6853abce5192022-12-21T23:57:58ZengNetwork for the Veterinarians of BangladeshJournal of Advanced Veterinary and Animal Research2311-77102020-06-017223424110.5455/javar.2020.g41579539Inspection of real and imputed genotypes reveled 76 SNPs associated to rear udder height in Holstein cattleMirvana Gonzalez0Rafael Villa1Carlos Villa2Victor Gonzalez3Martin Montano4Gerardo Medina5Pad Mahadevan6Laboratory of Bioinformatics and Biofotonics, Engineering Institute, Autonomous University of Baja California, Mexicali, B.C, Mexico Laboratory of Bioinformatics and Biofotonics, Engineering Institute, Autonomous University of Baja California, Mexicali, B.C, Mexico Laboratory of Bioinformatics and Biofotonics, Engineering Institute, Autonomous University of Baja California, Mexicali, B.C, Mexico Institute for Research in Veterinary Science, Autonomous University of Baja California, Mexicali, B.C, Mexico Institute for Research in Veterinary Science, Autonomous University of Baja California, Mexicali, B.C, Mexico Institute for Research in Veterinary Science, Autonomous University of Baja California, Mexicali, B.C, Mexico Department of Biology, University of Tampa, Tampa, FL, USA.Objective: This paper presents the obtained result of a study that realizes to associate a set of real and imputed single nucleotide polymorphisms (SNP) genotypes to the rear udder height in Holstein cows. Materials and methods: Forty-six Holstein cows from an arid zone of Mexico were phenotyped and genotyped for this study. Blood samples were used for DNA extraction, genotyping was per¬formed with the Illumina BovineLD Bead chip which interrogates 6,912 SNPs genome-wide, and imputation was performed using the Findhap software. After QC filters, a total of 22,251 high quality and informative SNPs were inspected. Results: The results showed the detection of 76 significant SNPs throughout the complete genome. Significant SNPs fall inside 111 Quantitative Loci Traits related to protein percentage, milk yield, and fat, among others, in chromosomes 1, 2, 3, 5, 6, 9, 10, 11, 12, 13, 19, 20, 21, 23, 26, 27, and 29. Similarly, results confirm that a genotype imputation is a convenient option for genome-wide covering when selecting economic traits with low-density real SNP panels. Conclusion: This study contributes to establishing a low-cost and profitable strategy for applying genomic selection in developing countries. [J Adv Vet Anim Res 2020; 7(2.000): 234-241]http://www.ejmanager.com/fulltextpdf.php?mno=79539genotypes; qtls; association; snps |
| spellingShingle | Mirvana Gonzalez Rafael Villa Carlos Villa Victor Gonzalez Martin Montano Gerardo Medina Pad Mahadevan Inspection of real and imputed genotypes reveled 76 SNPs associated to rear udder height in Holstein cattle Journal of Advanced Veterinary and Animal Research genotypes; qtls; association; snps |
| title | Inspection of real and imputed genotypes reveled 76 SNPs associated to rear udder height in Holstein cattle |
| title_full | Inspection of real and imputed genotypes reveled 76 SNPs associated to rear udder height in Holstein cattle |
| title_fullStr | Inspection of real and imputed genotypes reveled 76 SNPs associated to rear udder height in Holstein cattle |
| title_full_unstemmed | Inspection of real and imputed genotypes reveled 76 SNPs associated to rear udder height in Holstein cattle |
| title_short | Inspection of real and imputed genotypes reveled 76 SNPs associated to rear udder height in Holstein cattle |
| title_sort | inspection of real and imputed genotypes reveled 76 snps associated to rear udder height in holstein cattle |
| topic | genotypes; qtls; association; snps |
| url | http://www.ejmanager.com/fulltextpdf.php?mno=79539 |
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