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Evolution of genes and genomes on the Drosophila phylogeny
Comparative analysis of multiple genomes in a phylogenetic framework dramatically improves the precision and sensitivity of evolutionary inference, producing more robust results than single-genomeExpand
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The evolutionary dynamics of repetitive DNA in eukaryotes
Repetitive DNA sequences form a large portion of the genomes of eukaryotes. The 'selfish DNA' hypothesis proposes that they are maintained by their ability to replicate within the genome. TheExpand
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Demography and natural selection have shaped genetic variation in Drosophila melanogaster: a multi-locus approach.
Demography and selection have been recognized for their important roles in shaping patterns of nucleotide variability. To investigate the relative effects of these forces in the genome of DrosophilaExpand
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Analysis of a genetic hitchhiking model, and its application to DNA polymorphism data from Drosophila melanogaster.
Begun and Aquadro have demonstrated that levels of nucleotide variation correlate with recombination rate among 20 gene regions from across the genome of Drosophila melanogaster. It has beenExpand
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Searching for Footprints of Positive Selection in Whole-Genome SNP Data From Nonequilibrium Populations
A major goal of population genomics is to reconstruct the history of natural populations and to infer the neutral and selective scenarios that can explain the present-day polymorphism patterns.Expand
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Distinctly Different Sex Ratios in African and European Populations of Drosophila melanogaster Inferred From Chromosomewide Single Nucleotide Polymorphism Data
It has been hypothesized that the ratio of X-linked to autosomal sequence diversity is influenced by unequal sex ratios in Drosophila melanogaster populations. We conducted a genome scan of singleExpand
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Using multilocus sequence data to assess population structure, natural selection, and linkage disequilibrium in wild tomatoes.
We employed a multilocus approach to examine the effects of population subdivision and natural selection on DNA polymorphism in 2 closely related wild tomato species (Solanum peruvianum and SolanumExpand
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The Relationship of Nucleotide Polymorphism, Recombination Rate and Selection in Wild Tomato Species
We analyzed the effects of mating system and recombination rate on single nucleotide polymorphisms using 14 single-copy nuclear loci from single populations of five species of wild tomatoes (SolanumExpand
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Maintenance of pre-mRNA secondary structure by epistatic selection.
Linkage disequilibrium between polymorphisms in a natural population may result from various evolutionary forces, including random genetic drift due to sampling of gametes during reproduction,Expand
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Pervasive adaptive evolution among interactors of the Drosophila hybrid inviability gene, Nup96.
Nup96 is involved in a lethal hybrid incompatibility between 2 fruit fly species, Drosophila melanogaster and Drosophila simulans. Recurrent adaptive evolution drove the rapid functional divergenceExpand
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