The McDonald-Kreitman Test and Slightly Deleterious Mutations
نویسندگان
چکیده
منابع مشابه
Frequent adaptation and the McDonald-Kreitman test.
Population genomic studies have shown that genetic draft and background selection can profoundly affect the genome-wide patterns of molecular variation. We performed forward simulations under realistic gene-structure and selection scenarios to investigate whether such linkage effects impinge on the ability of the McDonald-Kreitman (MK) test to infer the rate of positive selection (α) from polym...
متن کاملChanging effective population size and the McDonald-Kreitman test.
Artifactual evidence of adaptive amino acid substitution can be generated within a McDonald-Kreitman test if some amino acid mutations are slightly deleterious and there has been an increase in effective population size. Here I investigate the conditions under which this occurs. I show that fairly small increases in effective population size can generate artifactual evidence of positive selecti...
متن کاملThe McDonald-Kreitman Test and its Extensions under Frequent Adaptation: Problems and Solutions
Population genomic studies have shown that genetic draft and background selection can profoundly affect the genome-wide patterns of molecular variation. We performed forward simulations under realistic genestructure and selection scenarios to investigate whether such linkage effects impinge on the ability of the McDonald-Kreitman (MK) test to infer the rate of positive selection (α) from polymo...
متن کاملasymptoticMK: A Web-Based Tool for the Asymptotic McDonald–Kreitman Test
The McDonald-Kreitman (MK) test is a widely used method for quantifying the role of positive selection in molecular evolution. One key shortcoming of this test lies in its sensitivity to the presence of slightly deleterious mutations, which can severely bias its estimates. An asymptotic version of the MK test was recently introduced that addresses this problem by evaluating polymorphism levels ...
متن کاملInferring Selection and Mutation from DNA Sequences: The McDonald-Kreitman Test Revisited
Aligned DNA sequences from the same species, and from two species that share a sufficiently recent common ancestor, are analyzed for evidence of unidirectional selection. We develop a technique for estimating the direction and magnitude of unidirectional selection that can be used at synonymous sites as well as at replacement codon positions. The model is applied to sample configurations at the...
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ژورنال
عنوان ژورنال: Molecular Biology and Evolution
سال: 2008
ISSN: 0737-4038,1537-1719
DOI: 10.1093/molbev/msn005