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Marker-based estimates reveal significant non-additive effects in clonally propagated cassava (Manihot esculenta): implications for the prediction of total genetic value and the selection of varieties

Marnin D. Wolfe, Peter Kulakow, Ismail Y. Rabbi, Jean-Luc Jannink
doi: https://doi.org/10.1101/031864
Marnin D. Wolfe
*Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY, USA
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Peter Kulakow
†International Institute for Tropical Agriculture (IITA), Ibadan, Oyo, Nigeria
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Ismail Y. Rabbi
†International Institute for Tropical Agriculture (IITA), Ibadan, Oyo, Nigeria
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Jean-Luc Jannink
*Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY, USA
‡USDA-ARS, R.W. Holley Center for Agriculture and Health, Ithaca, NY, USA
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ABSTRACT

In clonally propagated crops, non-additive 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 non-additive genetic variation for key traits in a breeding population of cassava from sub-Saharan Africa using additive and non-additive genome-wide marker-based relationship matrices. We then assessed the accuracy of genomic prediction of additive compared to total (additive plus non-additive) genetic value. We confirmed previous findings based on diallel populations, that non-additive genetic variation is significant, especially for yield traits. Further, we show that we total genetic value correlated more strongly to observed phenotypes than did additive value, although this is constrained by low broad-sense heritability and is not beneficial for traits with already high 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.

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The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY-NC-ND 4.0 International license.
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Posted November 16, 2015.
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Marker-based estimates reveal significant non-additive effects in clonally propagated cassava (Manihot esculenta): implications for the prediction of total genetic value and the selection of varieties
Marnin D. Wolfe, Peter Kulakow, Ismail Y. Rabbi, Jean-Luc Jannink
bioRxiv 031864; doi: https://doi.org/10.1101/031864
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Marker-based estimates reveal significant non-additive effects in clonally propagated cassava (Manihot esculenta): implications for the prediction of total genetic value and the selection of varieties
Marnin D. Wolfe, Peter Kulakow, Ismail Y. Rabbi, Jean-Luc Jannink
bioRxiv 031864; doi: https://doi.org/10.1101/031864

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