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          Institute: MPI für Entwicklungsbiologie     Collection: Abteilung 4 - Evolutionary Biology (R. Sommer)     Display Documents

ID: 706586.0, MPI für Entwicklungsbiologie / Abteilung 4 - Evolutionary Biology (R. Sommer)
Characterization of genetic diversity in the nematode Pristionchus pacificus from population-scale resequencing data
Authors:Rodelsperger, C.; Neher, R. A.; Weller, A. M.; Eberhardt, G.; Witte, H.; Mayer, W. E.; Dieterich, C.; Sommer, R. J.
Date of Publication (YYYY-MM-DD):2014-04
Title of Journal:Genetics
Journal Abbrev.:Genetics
Issue / Number:4
Start Page:1153
End Page:1165
Sequence Number of Article:24443445
Review Status:Internal review
Audience:Experts Only
Abstract / Description:The hermaphroditic nematode Pristionchus pacificus is an established model system for comparative studies with Caenorhabditis elegans in developmental biology, ecology, and population genetics. In this study, we present whole-genome sequencing data of 104 P. pacificus strains and the draft assembly of the obligate outcrossing sister species P. exspectatus. We characterize genetic diversity within P. pacificus and investigate the population genetic processes shaping this diversity. P. pacificus is 10 times more diverse than C. elegans and exhibits substantial population structure that allows us to probe its evolution on multiple timescales. Consistent with reduced effective recombination in this self-fertilizing species, we find haplotype blocks that span several megabases. Using the P. exspectatus genome as an outgroup, we polarized variation in P. pacificus and found a site frequency spectrum (SFS) that decays more rapidly than expected in neutral models. The SFS at putatively neutral sites is U shaped, which is a characteristic feature of pervasive linked selection. Based on the additional findings (i) that the majority of nonsynonymous variation is eliminated over timescales on the order of the separation between clades, (ii) that diversity is reduced in gene-rich regions, and (iii) that highly differentiated clades show very similar patterns of diversity, we conclude that purifying selection on many mutations with weak effects is a major force shaping genetic diversity in P. pacificus.
Free Keywords:Animals; Evolution, Molecular; Genetic Variation; *Genome, Helminth; Phylogeography; Rhabditida/*classification/*genetics; Selection, Genetic; Sequence Analysis, DNA
External Publication Status:published
Document Type:Article
Communicated by:MPI für Entwickungsbiologie
Affiliations:MPI für Entwicklungsbiologie/Abteilungsunabhängige Arbeitsgruppen/Arbeitsgruppe Neher
Identifiers:ISSN:1943-2631 (Electronic) 0016-6731 (Linking) %R 10.1... [ID No:1]
URL:http://www.ncbi.nlm.nih.gov/pubmed/24443445 [ID No:2]
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