A model for linkage analysis with apomixis |
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| Authors: | Wei Hou Shen Lin Yao Li Xiaoming Pang Yanru Zeng Rongling Wu |
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| Institution: | (1) Department of Biostatistics, University of Florida, Gainesville, FL 32611, USA;(2) The Nurturing Station for the State Key Laboratory of Subtropical Silviculture, Zhejiang Agricultural and Forestry University, Lin’an, 311300, Zhejiang, China;(3) Department of Statistics, West Virginia University, Morgantown, WV 26506, USA;(4) Center for Computational Biology, Beijing Forestry University, Beijing, 100083, China;(5) National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing, 100083, China;(6) Key Laboratory of Genetics and Breeding in Forest Trees and Ornamental Plants, Beijing Forestry University, Beijing, 100083, China; |
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| Abstract: | Apomixis, or asexual reproduction through seeds, occurs in over 400 species of angiosperms. Although apomixis can favorably
perpetuate desired genotypes through successive seed generation, it may also bring about some difficulty for linkage analysis
and quantitative trait locus mapping. In this article, we explore the issue of how apomixis affects the precision and power
of linkage analysis with molecular markers. We derive a statistical model for estimating the linkage between different markers
when some progeny are derived from apomixis. The model was constructed within the maximum likelihood framework and implemented
with the EM algorithm. A series of procedures are formulated to test the linkage of markers, the rate of apomixis, and the
degree of genetic interference during meiosis. The model was examined and validated through simulation studies. The model
will provide a tool for linkage mapping and evolutionary studies for plant species that undergo apomixis. |
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