Marker-Based Estimates Reveal Significant Nonadditive Effects in Clonally Propagated Cassava (Manihot esculenta): Implications for the Prediction of Total Genetic Value and the Selection of Varieties
In clonally propagated crops, nonadditive genetic effects can be effectively exploited by the identification of superior genetic individuals as varieties. Cassava (Manihot esculenta Crantz) is a clonally propagated staple food crop that feeds hundreds of millions. We quantified the amount and nature...
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| Format: | Article |
| Language: | English |
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Oxford University Press
2016-11-01
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| Series: | G3: Genes, Genomes, Genetics |
| Subjects: | |
| Online Access: | http://g3journal.org/lookup/doi/10.1534/g3.116.033332 |
| _version_ | 1818652498180702208 |
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| author | Marnin D. Wolfe Peter Kulakow Ismail Y. Rabbi Jean-Luc Jannink |
| author_facet | Marnin D. Wolfe Peter Kulakow Ismail Y. Rabbi Jean-Luc Jannink |
| author_sort | Marnin D. Wolfe |
| collection | DOAJ |
| description | In clonally propagated crops, nonadditive genetic effects can be effectively exploited by the identification of superior genetic individuals as varieties. Cassava (Manihot esculenta Crantz) is a clonally propagated staple food crop that feeds hundreds of millions. We quantified the amount and nature of nonadditive genetic variation for three key traits in a breeding population of cassava from sub-Saharan Africa using additive and nonadditive genome-wide marker-based relationship matrices. We then assessed the accuracy of genomic prediction for total (additive plus nonadditive) genetic value. We confirmed previous findings based on diallel crosses that nonadditive genetic variation is significant for key cassava traits. Specifically, we found that dominance is particularly important for root yield and epistasis contributes strongly to variation in cassava mosaic disease (CMD) resistance. Further, we showed that total genetic value predicted observed phenotypes more accurately than additive only models for root yield but not for dry matter content, which is mostly additive or for CMD resistance, which has high narrow-sense heritability. We address the implication of these results for cassava breeding and put our work in the context of previous results in cassava, and other plant and animal species. |
| first_indexed | 2024-12-17T02:22:57Z |
| format | Article |
| id | doaj.art-d06527f45e834ddabe56c75e3b73c616 |
| institution | Directory Open Access Journal |
| issn | 2160-1836 |
| language | English |
| last_indexed | 2024-12-17T02:22:57Z |
| publishDate | 2016-11-01 |
| publisher | Oxford University Press |
| record_format | Article |
| series | G3: Genes, Genomes, Genetics |
| spelling | doaj.art-d06527f45e834ddabe56c75e3b73c6162022-12-21T22:07:13ZengOxford University PressG3: Genes, Genomes, Genetics2160-18362016-11-016113497350610.1534/g3.116.0333326Marker-Based Estimates Reveal Significant Nonadditive Effects in Clonally Propagated Cassava (Manihot esculenta): Implications for the Prediction of Total Genetic Value and the Selection of VarietiesMarnin D. WolfePeter KulakowIsmail Y. RabbiJean-Luc JanninkIn clonally propagated crops, nonadditive genetic effects can be effectively exploited by the identification of superior genetic individuals as varieties. Cassava (Manihot esculenta Crantz) is a clonally propagated staple food crop that feeds hundreds of millions. We quantified the amount and nature of nonadditive genetic variation for three key traits in a breeding population of cassava from sub-Saharan Africa using additive and nonadditive genome-wide marker-based relationship matrices. We then assessed the accuracy of genomic prediction for total (additive plus nonadditive) genetic value. We confirmed previous findings based on diallel crosses that nonadditive genetic variation is significant for key cassava traits. Specifically, we found that dominance is particularly important for root yield and epistasis contributes strongly to variation in cassava mosaic disease (CMD) resistance. Further, we showed that total genetic value predicted observed phenotypes more accurately than additive only models for root yield but not for dry matter content, which is mostly additive or for CMD resistance, which has high narrow-sense heritability. We address the implication of these results for cassava breeding and put our work in the context of previous results in cassava, and other plant and animal species.http://g3journal.org/lookup/doi/10.1534/g3.116.033332Genomic selectionNonadditive effectsCassavaGenPredShared Data Resources |
| spellingShingle | Marnin D. Wolfe Peter Kulakow Ismail Y. Rabbi Jean-Luc Jannink Marker-Based Estimates Reveal Significant Nonadditive Effects in Clonally Propagated Cassava (Manihot esculenta): Implications for the Prediction of Total Genetic Value and the Selection of Varieties G3: Genes, Genomes, Genetics Genomic selection Nonadditive effects Cassava GenPred Shared Data Resources |
| title | Marker-Based Estimates Reveal Significant Nonadditive Effects in Clonally Propagated Cassava (Manihot esculenta): Implications for the Prediction of Total Genetic Value and the Selection of Varieties |
| title_full | Marker-Based Estimates Reveal Significant Nonadditive Effects in Clonally Propagated Cassava (Manihot esculenta): Implications for the Prediction of Total Genetic Value and the Selection of Varieties |
| title_fullStr | Marker-Based Estimates Reveal Significant Nonadditive Effects in Clonally Propagated Cassava (Manihot esculenta): Implications for the Prediction of Total Genetic Value and the Selection of Varieties |
| title_full_unstemmed | Marker-Based Estimates Reveal Significant Nonadditive Effects in Clonally Propagated Cassava (Manihot esculenta): Implications for the Prediction of Total Genetic Value and the Selection of Varieties |
| title_short | Marker-Based Estimates Reveal Significant Nonadditive Effects in Clonally Propagated Cassava (Manihot esculenta): Implications for the Prediction of Total Genetic Value and the Selection of Varieties |
| title_sort | marker based estimates reveal significant nonadditive effects in clonally propagated cassava manihot esculenta implications for the prediction of total genetic value and the selection of varieties |
| topic | Genomic selection Nonadditive effects Cassava GenPred Shared Data Resources |
| url | http://g3journal.org/lookup/doi/10.1534/g3.116.033332 |
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