Persistence of accuracy of genomic estimated breeding values over generations in layer chickens
<p>Abstract</p> <p>Background</p> <p>The predictive ability of genomic estimated breeding values (GEBV) originates both from associations between high-density markers and QTL (Quantitative Trait Loci) and from pedigree information. Thus, GEBV are expected to provide mor...
| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | deu |
| Published: |
BMC
2011-06-01
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| Series: | Genetics Selection Evolution |
| Online Access: | http://www.gsejournal.org/content/43/1/23 |
| _version_ | 1819140397708869632 |
|---|---|
| author | Fernando Rohan Habier David Preisinger Rudolf Fulton Janet E O'Sullivan Neil P Settar Petek Arango Jesus Wolc Anna Garrick Dorian J Dekkers Jack CM |
| author_facet | Fernando Rohan Habier David Preisinger Rudolf Fulton Janet E O'Sullivan Neil P Settar Petek Arango Jesus Wolc Anna Garrick Dorian J Dekkers Jack CM |
| author_sort | Fernando Rohan |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>The predictive ability of genomic estimated breeding values (GEBV) originates both from associations between high-density markers and QTL (Quantitative Trait Loci) and from pedigree information. Thus, GEBV are expected to provide more persistent accuracy over successive generations than breeding values estimated using pedigree-based methods. The objective of this study was to evaluate the accuracy of GEBV in a closed population of layer chickens and to quantify their persistence over five successive generations using marker or pedigree information.</p> <p>Methods</p> <p>The training data consisted of 16 traits and 777 genotyped animals from two generations of a brown-egg layer breeding line, 295 of which had individual phenotype records, while others had phenotypes on 2,738 non-genotyped relatives, or similar data accumulated over up to five generations. Validation data included phenotyped and genotyped birds from five subsequent generations (on average 306 birds/generation). Birds were genotyped for 23,356 segregating SNP. Animal models using genomic or pedigree relationship matrices and Bayesian model averaging methods were used for training analyses. Accuracy was evaluated as the correlation between EBV and phenotype in validation divided by the square root of trait heritability.</p> <p>Results</p> <p>Pedigree relationships in outbred populations are reduced by 50% at each meiosis, therefore accuracy is expected to decrease by the square root of 0.5 every generation, as observed for pedigree-based EBV (Estimated Breeding Values). In contrast the GEBV accuracy was more persistent, although the drop in accuracy was substantial in the first generation. Traits that were considered to be influenced by fewer QTL and to have a higher heritability maintained a higher GEBV accuracy over generations. In conclusion, GEBV capture information beyond pedigree relationships, but retraining every generation is recommended for genomic selection in closed breeding populations.</p> |
| first_indexed | 2024-12-22T11:37:55Z |
| format | Article |
| id | doaj.art-352040620fd14409b105075f0a3ba71f |
| institution | Directory Open Access Journal |
| issn | 0999-193X 1297-9686 |
| language | deu |
| last_indexed | 2024-12-22T11:37:55Z |
| publishDate | 2011-06-01 |
| publisher | BMC |
| record_format | Article |
| series | Genetics Selection Evolution |
| spelling | doaj.art-352040620fd14409b105075f0a3ba71f2022-12-21T18:27:22ZdeuBMCGenetics Selection Evolution0999-193X1297-96862011-06-014312310.1186/1297-9686-43-23Persistence of accuracy of genomic estimated breeding values over generations in layer chickensFernando RohanHabier DavidPreisinger RudolfFulton Janet EO'Sullivan Neil PSettar PetekArango JesusWolc AnnaGarrick Dorian JDekkers Jack CM<p>Abstract</p> <p>Background</p> <p>The predictive ability of genomic estimated breeding values (GEBV) originates both from associations between high-density markers and QTL (Quantitative Trait Loci) and from pedigree information. Thus, GEBV are expected to provide more persistent accuracy over successive generations than breeding values estimated using pedigree-based methods. The objective of this study was to evaluate the accuracy of GEBV in a closed population of layer chickens and to quantify their persistence over five successive generations using marker or pedigree information.</p> <p>Methods</p> <p>The training data consisted of 16 traits and 777 genotyped animals from two generations of a brown-egg layer breeding line, 295 of which had individual phenotype records, while others had phenotypes on 2,738 non-genotyped relatives, or similar data accumulated over up to five generations. Validation data included phenotyped and genotyped birds from five subsequent generations (on average 306 birds/generation). Birds were genotyped for 23,356 segregating SNP. Animal models using genomic or pedigree relationship matrices and Bayesian model averaging methods were used for training analyses. Accuracy was evaluated as the correlation between EBV and phenotype in validation divided by the square root of trait heritability.</p> <p>Results</p> <p>Pedigree relationships in outbred populations are reduced by 50% at each meiosis, therefore accuracy is expected to decrease by the square root of 0.5 every generation, as observed for pedigree-based EBV (Estimated Breeding Values). In contrast the GEBV accuracy was more persistent, although the drop in accuracy was substantial in the first generation. Traits that were considered to be influenced by fewer QTL and to have a higher heritability maintained a higher GEBV accuracy over generations. In conclusion, GEBV capture information beyond pedigree relationships, but retraining every generation is recommended for genomic selection in closed breeding populations.</p>http://www.gsejournal.org/content/43/1/23 |
| spellingShingle | Fernando Rohan Habier David Preisinger Rudolf Fulton Janet E O'Sullivan Neil P Settar Petek Arango Jesus Wolc Anna Garrick Dorian J Dekkers Jack CM Persistence of accuracy of genomic estimated breeding values over generations in layer chickens Genetics Selection Evolution |
| title | Persistence of accuracy of genomic estimated breeding values over generations in layer chickens |
| title_full | Persistence of accuracy of genomic estimated breeding values over generations in layer chickens |
| title_fullStr | Persistence of accuracy of genomic estimated breeding values over generations in layer chickens |
| title_full_unstemmed | Persistence of accuracy of genomic estimated breeding values over generations in layer chickens |
| title_short | Persistence of accuracy of genomic estimated breeding values over generations in layer chickens |
| title_sort | persistence of accuracy of genomic estimated breeding values over generations in layer chickens |
| url | http://www.gsejournal.org/content/43/1/23 |
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