| understanding patterns of genetic diversity in the oak gallwasp biorhiza pallida: demographic history or a wolbachia selective sweep? | the endosymbiont wolbachia can be responsible for selective sweeps on mitochondrial dna variability within species. similar signals can also result from demographic processes, although crucially the latter affect nuclear as well as mitochondrial loci. here we present data on wolbachia infection status and phylogeographic patterning for a widely distributed insect host, the oak gallwasp biorhiza pallida (hymenoptera: cynipidae). two hundred and eighteen females from eight european countries were ... | 2001 | 11737276 |
| abc inference of multi-population divergence with admixture from unphased population genomic data. | rapidly developing sequencing technologies and declining costs have made it possible to collect genome-scale data from population-level samples in nonmodel systems. inferential tools for historical demography given these data sets are, at present, underdeveloped. in particular, approximate bayesian computation (abc) has yet to be widely embraced by researchers generating these data. here, we demonstrate the promise of abc for analysis of the large data sets that are now attainable from nonmodel ... | 2014 | 25113024 |
| likelihood-based inference of population history from low-coverage de novo genome assemblies. | short-read sequencing technologies have in principle made it feasible to draw detailed inferences about the recent history of any organism. in practice, however, this remains challenging due to the difficulty of genome assembly in most organisms and the lack of statistical methods powerful enough to discriminate between recent, nonequilibrium histories. we address both the assembly and inference challenges. we develop a bioinformatic pipeline for generating outgroup-rooted alignments of ortholog ... | 2014 | 24188568 |