| Autor: |
Xuli Zhu, Leiming Dong, Libo Jiang, Huan Li, Lidan Sun, Hui Zhang, Weiwu Yu, Haokai Liu, Wensheng Dai, Yanru Zeng, Rongling Wu |
| Zdroj: |
DNA Research; Feb2016, Vol. 23 Issue 1, p1-10, 10p |
| Abstrakt: |
The relationship between linkage disequilibrium (LD) and recombination fraction can be used to infer the pattern of genetic variation and evolutionary process in humans and other systems. We described a computational framework to construct a linkage-LD map from commonly used biallelic, singlenucleotide polymorphism (SNP)markers for outcrossing plants by which the decline of LD is visualized with genetic distance. The framework was derived from an open-pollinated (OP) design composed of plants randomly sampled from a natural population and seeds from each sampled plant, enabling simultaneous estimation of the LD in the natural population and recombination fraction due to allelic co-segregation duringmeiosis.Wemodified the framework to infer evolutionary pasts of natural populations using thosemarker types that are segregating in a dominantmanner, given their role in creating andmaintaining population genetic diversity. A sophisticated two-level EM algorithmwas implemented to estimate and retrieve the missing information of segregation characterized by dominant-segregating markers such as single methylation polymorphisms. The model was applied to study the relationship between linkage and LD for a non-model outcrossing species, a gymnosperm species, Torreya grandis, naturally distributed in mountains of the southeastern China. The linkage-LD map constructed from various types of molecularmarkers opens a powerful gateway for studying the history of plant evolution. [ABSTRACT FROM AUTHOR] |
| Databáze: |
Complementary Index |
| Externí odkaz: |
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