Show simple item record Betancourt, Andrea J. Blanco-Martin, Bernardo Charlesworth, Brian 2012-02-21T17:59:04Z 2012-02-21T17:59:04Z 2012-03-21
dc.identifier doi:10.5061/dryad.8bp5pp44
dc.identifier.citation Betancourt AJ, Blanco-Martin B, Charlesworth B (2012) The relation between the neutrality index for mitochondrial genes and the distribution of mutational effects on fitness. Evolution 66(8): 2427-2438.
dc.description We explore factors affecting patterns of polymorphism and divergence (as captured by the neutrality index) at mammalian mitochondrial loci. To do this, we develop a population genetic model that incorporates a fraction of neutral amino acid sites, mutational bias, and a probability distribution of selection coefficients against new nonsynonymous mutations. We confirm, by reanalyzing publicly available data sets, that the mitochondrial cyt-b gene shows a broad range of neutrality indices across mammalian taxa, and explore the biological factors that can explain this observation. We find that observed patterns of differences in the neutrality index, polymorphism and divergence are not caused by differences in mutational bias. They can, however, be explained by a combination of a small fraction of neutral amino acid sites, weak selection acting on most amino acid mutations, and differences in effective population size among taxa.
dc.relation.haspart doi:10.5061/dryad.8bp5pp44/1
dc.relation.isreferencedby doi:10.1111/j.1558-5646.2012.01628.x
dc.relation.isreferencedby PMID:22834742
dc.subject Genetic Variation
dc.subject Models/Simulations
dc.subject Population Genetics
dc.subject Selection - Natural
dc.title Data from: The relation between the neutrality index for mitochondrial genes and the distribution of mutational effects on fitness
dc.type Article *
dc.contributor.correspondingAuthor Betancourt, Andrea J.
prism.publicationName Evolution

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Title Bernardo_data_plusnewKs2
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Description FS = synonymous substitutions | FN = nonsynonymous substitutions | PS = synonymous polymorphisms | PN = nonsynonymous polymorphisms | Pa = pairwise nucleotide diversity (pi) at amino acid sites | Ps = pairwise nucleotide diversity (pi) at synonymous sites | JC = Jukes-Cantor corrected values | GY.HKY = Goldman-Yang corrected values using the HKY85 model for DNA substitution | Pa.over.Ps = Pa.JC/Ps.JC | p.val = p-value of Fisher's Exact test on FS, FN, PS, and PN values | NI = Pa.over.Ps/ka_ks_JC | newNI = Pa.over.Ps/Ka_Ks_GY.HKY | gccontent1, etc. = fraction of sites that are GC at 1st position in the codon | DOS = direction of selection statistic of Stoletzki and Eyre-Walker 2011
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