Academic Journal
A deterministic equation to predict the accuracy of multi-population genomic prediction with multiple genomic relationship matrices
| العنوان: | A deterministic equation to predict the accuracy of multi-population genomic prediction with multiple genomic relationship matrices |
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| المؤلفون: | Raymond, Biaty, Wientjes, Yvonne C.J., Bouwman, Aniek C., Schrooten, Chris, Veerkamp, Roel F. |
| المصدر: | Genetics, selection, evolution : GSE 52 (2020) 1 ; ISSN: 0999-193X |
| سنة النشر: | 2020 |
| المجموعة: | Wageningen UR (University & Research Centre): Digital Library |
| مصطلحات موضوعية: | Life Science |
| الوصف: | BACKGROUND: A multi-population genomic prediction (GP) model in which important pre-selected single nucleotide polymorphisms (SNPs) are differentially weighted (MPMG) has been shown to result in better prediction accuracy than a multi-population, single genomic relationship matrix ([Formula: see text]) GP model (MPSG) in which all SNPs are weighted equally. Our objective was to underpin theoretically the advantages and limits of the MPMG model over the MPSG model, by deriving and validating a deterministic prediction equation for its accuracy. METHODS: Using selection index theory, we derived an equation to predict the accuracy of estimated total genomic values of selection candidates from population [Formula: see text] ([Formula: see text]), when individuals from two populations, [Formula: see text] and [Formula: see text], are combined in the training population and two [Formula: see text], made respectively from pre-selected and remaining SNPs, are fitted simultaneously in MPMG. We used simulations to validate the prediction equation in scenarios that differed in the level of genetic correlation between populations, heritability, and proportion of genetic variance explained by the pre-selected SNPs. Empirical accuracy of the MPMG model in each scenario was calculated and compared to the predicted accuracy from the equation. RESULTS: In general, the derived prediction equation resulted in accurate predictions of [Formula: see text] for the scenarios evaluated. Using the prediction equation, we showed that an important advantage of the MPMG model over the MPSG model is its ability to benefit from the small number of independent chromosome segments ([Formula: see text]) due to the pre-selected SNPs, both within and across populations, whereas for the MPSG model, there is only a single value for [Formula: see text], calculated based on all SNPs, which is very large. However, this advantage is dependent on the pre-selected SNPs that explain some proportion of the total genetic variance for the trait. CONCLUSIONS: ... |
| نوع الوثيقة: | article in journal/newspaper |
| وصف الملف: | application/pdf |
| اللغة: | English |
| Relation: | https://edepot.wur.nl/522337 |
| DOI: | 10.1186/s12711-020-00540-y |
| الاتاحة: | https://research.wur.nl/en/publications/a-deterministic-equation-to-predict-the-accuracy-of-multi-populat https://doi.org/10.1186/s12711-020-00540-y |
| Rights: | https://creativecommons.org/licenses/by/4.0/ ; Wageningen University & Research |
| رقم الانضمام: | edsbas.EC6B2C28 |
| قاعدة البيانات: | BASE |
| DOI: | 10.1186/s12711-020-00540-y |
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