Development of a Nasonia vitripennis outbred laboratory population for genetic analysis.
Bottom Line: As a characterization of its genetic composition, we provide data on the standing genetic variation and estimate the effective population size (N(e)) by microsatellite analysis.A genome-wide description of polymorphism is provided through pooled resequencing, which yielded 417,331 high-quality SNPs spanning all five Nasonia chromosomes.The HVRx population and its characterization are freely available as a community resource for investigators seeking to elucidate the genetic basis of complex trait variation using the Nasonia model system.
Affiliation: Evolutionary Genetics, Centre for Ecological and Evolutionary Studies, University of Groningen, 9700 CC, Groningen, the Netherlands.Show MeSH
Mentions: The mean nucleotide diversity per 100 kb window over all chromosomes was 0.13%, showing significant differentiation by chromosome (one-way aov; F4,155 = 9.97, P = 5.76e-08, Table3), with chromosome 1 showing the lowest nucleotide diversity compared with other chromosomes. The distribution of genomic variation over the chromosomes showed similar patterns for both SNP density as for nucleotide diversity. Both measures were higher towards the tips of the chromosomes than the centres (Figs3 and 4). Estimates of nucleotide diversity were lacking in areas where the read depths were low, such as the near the centre of the chromosomes (Fig. 4).
Affiliation: Evolutionary Genetics, Centre for Ecological and Evolutionary Studies, University of Groningen, 9700 CC, Groningen, the Netherlands.