Research Article: Recombination and Its Impact on the Genome of the Haplodiploid Parasitoid Wasp Nasonia

Date Published: January 19, 2010

Publisher: Public Library of Science

Author(s): Oliver Niehuis, Joshua D. Gibson, Michael S. Rosenberg, Bart A. Pannebakker, Tosca Koevoets, Andrea K. Judson, Christopher A. Desjardins, Kathleen Kennedy, David Duggan, Leo W. Beukeboom, Louis van de Zande, David M. Shuker, John H. Werren, Jürgen Gadau, Thomas Buckley. http://doi.org/10.1371/journal.pone.0008597

Abstract: Homologous meiotic recombination occurs in most sexually reproducing organisms, yet its evolutionary advantages are elusive. Previous research explored recombination in the honeybee, a eusocial hymenopteran with an exceptionally high genome-wide recombination rate. A comparable study in a non-social member of the Hymenoptera that would disentangle the impact of sociality from Hymenoptera-specific features such as haplodiploidy on the evolution of the high genome-wide recombination rate in social Hymenoptera is missing. Utilizing single-nucleotide polymorphisms (SNPs) between two Nasonia parasitoid wasp genomes, we developed a SNP genotyping microarray to infer a high-density linkage map for Nasonia. The map comprises 1,255 markers with an average distance of 0.3 cM. The mapped markers enabled us to arrange 265 scaffolds of the Nasonia genome assembly 1.0 on the linkage map, representing 63.6% of the assembled N. vitripennis genome. We estimated a genome-wide recombination rate of 1.4–1.5 cM/Mb for Nasonia, which is less than one tenth of the rate reported for the honeybee. The local recombination rate in Nasonia is positively correlated with the distance to the center of the linkage groups, GC content, and the proportion of simple repeats. In contrast to the honeybee genome, gene density in the parasitoid wasp genome is positively associated with the recombination rate; regions of low recombination are characterized by fewer genes with larger introns and by a greater distance between genes. Finally, we found that genes in regions of the genome with a low recombination frequency tend to have a higher ratio of non-synonymous to synonymous substitutions, likely due to the accumulation of slightly deleterious non-synonymous substitutions. These findings are consistent with the hypothesis that recombination reduces interference between linked sites and thereby facilitates adaptive evolution and the purging of deleterious mutations. Our results imply that the genomes of haplodiploid and of diploid higher eukaryotes do not differ systematically in their recombination rates and associated parameters.

Partial Text: Homologous meiotic recombination in eukaryotes is a process by which genetic material is exchanged between homologous chromosomes [1]–[3]. It occurs in almost all sexually reproducing organisms and results in the reshuffling of the genetic material of corresponding pairs of parental chromosomes [4]. As a consequence, the offspring of sexually reproducing organisms carry genotype combinations that are not found in either of their parents [1]–[3]. The evolutionary advantages of homologous meiotic recombination and recombination in general are not immediately apparent. In fact, recombination seemingly contradicts the expectations of Darwinian natural selection, since genotype combinations that have been proven successful in the current environment by natural selection are actively broken up [5]. This is one of the aspects of the “paradox of sex”.

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http://doi.org/10.1371/journal.pone.0008597

 

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