Genome-wide association study for milk production and conformation traits in Canadian Alpine and Saanen dairy goats
ABSTRACT: Increasing the productivity of Canadian dairy goats is critical to the competitiveness of the sector; however, little is known about the underlying genetic architecture of economically important traits in these populations. Consequently, the objectives of this study were as follows: (1) to...
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| Format: | Article |
| Language: | English |
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Elsevier
2023-02-01
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| Series: | Journal of Dairy Science |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S0022030222007214 |
| _version_ | 1797946387176882176 |
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| author | Erin Massender Hinayah R. Oliveira Luiz F. Brito Laurence Maignel Mohsen Jafarikia Christine F. Baes Brian Sullivan Flavio S. Schenkel |
| author_facet | Erin Massender Hinayah R. Oliveira Luiz F. Brito Laurence Maignel Mohsen Jafarikia Christine F. Baes Brian Sullivan Flavio S. Schenkel |
| author_sort | Erin Massender |
| collection | DOAJ |
| description | ABSTRACT: Increasing the productivity of Canadian dairy goats is critical to the competitiveness of the sector; however, little is known about the underlying genetic architecture of economically important traits in these populations. Consequently, the objectives of this study were as follows: (1) to perform a single-step GWAS for milk production traits (milk, protein, and fat yields, and protein and fat percentages in first and later lactations) and conformation traits (body capacity, dairy character, feet and legs, fore udder, general appearance, rear udder, suspensory ligament, and teats) in the Canadian Alpine and Saanen breeds; and (2) to identify positional and functional candidate genes related to these traits. The data available for analysis included 305-d milk production records for 6,409 Alpine and 3,434 Saanen does in first lactation and 5,827 Alpine and 2,632 Saanen does in later lactations; as well as linear type conformation records for 5,158 Alpine and 2,342 Saanen does. Genotypes were available for 833 Alpine and 874 Saanen animals. Both single-breed and multiple-breed GWAS were performed using single-trait animal models. Positional and functional candidate genes were then identified in downstream analyses. The GWAS identified 189 unique SNP that were significant at the chromosomal level, corresponding to 271 unique positional candidate genes within 50 kb up- and downstream, across breeds and traits. This study provides evidence for the economic importance of several candidate genes (e.g., CSN1S1, CSN2, CSN1S2, CSN3, DGAT1, and ZNF16) in the Canadian Alpine and Saanen populations that have been previously reported in other dairy goat populations. Moreover, several novel positional and functional candidate genes (e.g., RPL8, DCK, and MOB1B) were also identified. Overall, the results of this study have provided greater insight into the genetic architecture of milk production and conformation traits in the Canadian Alpine and Saanen populations. Greater understanding of these traits will help to improve dairy goat breeding programs. |
| first_indexed | 2024-04-10T21:10:13Z |
| format | Article |
| id | doaj.art-b6b2b5e1b99546b8ba95c180998cc203 |
| institution | Directory Open Access Journal |
| issn | 0022-0302 |
| language | English |
| last_indexed | 2024-04-10T21:10:13Z |
| publishDate | 2023-02-01 |
| publisher | Elsevier |
| record_format | Article |
| series | Journal of Dairy Science |
| spelling | doaj.art-b6b2b5e1b99546b8ba95c180998cc2032023-01-21T04:19:56ZengElsevierJournal of Dairy Science0022-03022023-02-01106211681189Genome-wide association study for milk production and conformation traits in Canadian Alpine and Saanen dairy goatsErin Massender0Hinayah R. Oliveira1Luiz F. Brito2Laurence Maignel3Mohsen Jafarikia4Christine F. Baes5Brian Sullivan6Flavio S. Schenkel7Centre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, N1G 2W1, Canada; Corresponding authorCentre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, N1G 2W1, Canada; Department of Animal Sciences, Purdue University, West Lafayette, IN 47907Centre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, N1G 2W1, Canada; Department of Animal Sciences, Purdue University, West Lafayette, IN 47907Canadian Centre for Swine Improvement Inc., Ottawa, ON, K1A 0C6, CanadaCentre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, N1G 2W1, Canada; Canadian Centre for Swine Improvement Inc., Ottawa, ON, K1A 0C6, CanadaCentre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, N1G 2W1, Canada; Institute of Genetics, Vetsuisse Faculty, University of Bern, Bern, 3001, SwitzerlandCanadian Centre for Swine Improvement Inc., Ottawa, ON, K1A 0C6, CanadaCentre for Genetic Improvement of Livestock, Department of Animal Biosciences, University of Guelph, Guelph, ON, N1G 2W1, CanadaABSTRACT: Increasing the productivity of Canadian dairy goats is critical to the competitiveness of the sector; however, little is known about the underlying genetic architecture of economically important traits in these populations. Consequently, the objectives of this study were as follows: (1) to perform a single-step GWAS for milk production traits (milk, protein, and fat yields, and protein and fat percentages in first and later lactations) and conformation traits (body capacity, dairy character, feet and legs, fore udder, general appearance, rear udder, suspensory ligament, and teats) in the Canadian Alpine and Saanen breeds; and (2) to identify positional and functional candidate genes related to these traits. The data available for analysis included 305-d milk production records for 6,409 Alpine and 3,434 Saanen does in first lactation and 5,827 Alpine and 2,632 Saanen does in later lactations; as well as linear type conformation records for 5,158 Alpine and 2,342 Saanen does. Genotypes were available for 833 Alpine and 874 Saanen animals. Both single-breed and multiple-breed GWAS were performed using single-trait animal models. Positional and functional candidate genes were then identified in downstream analyses. The GWAS identified 189 unique SNP that were significant at the chromosomal level, corresponding to 271 unique positional candidate genes within 50 kb up- and downstream, across breeds and traits. This study provides evidence for the economic importance of several candidate genes (e.g., CSN1S1, CSN2, CSN1S2, CSN3, DGAT1, and ZNF16) in the Canadian Alpine and Saanen populations that have been previously reported in other dairy goat populations. Moreover, several novel positional and functional candidate genes (e.g., RPL8, DCK, and MOB1B) were also identified. Overall, the results of this study have provided greater insight into the genetic architecture of milk production and conformation traits in the Canadian Alpine and Saanen populations. Greater understanding of these traits will help to improve dairy goat breeding programs.http://www.sciencedirect.com/science/article/pii/S0022030222007214genome-wide association studycandidate genesmilk productionconformationdairy goat |
| spellingShingle | Erin Massender Hinayah R. Oliveira Luiz F. Brito Laurence Maignel Mohsen Jafarikia Christine F. Baes Brian Sullivan Flavio S. Schenkel Genome-wide association study for milk production and conformation traits in Canadian Alpine and Saanen dairy goats Journal of Dairy Science genome-wide association study candidate genes milk production conformation dairy goat |
| title | Genome-wide association study for milk production and conformation traits in Canadian Alpine and Saanen dairy goats |
| title_full | Genome-wide association study for milk production and conformation traits in Canadian Alpine and Saanen dairy goats |
| title_fullStr | Genome-wide association study for milk production and conformation traits in Canadian Alpine and Saanen dairy goats |
| title_full_unstemmed | Genome-wide association study for milk production and conformation traits in Canadian Alpine and Saanen dairy goats |
| title_short | Genome-wide association study for milk production and conformation traits in Canadian Alpine and Saanen dairy goats |
| title_sort | genome wide association study for milk production and conformation traits in canadian alpine and saanen dairy goats |
| topic | genome-wide association study candidate genes milk production conformation dairy goat |
| url | http://www.sciencedirect.com/science/article/pii/S0022030222007214 |
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