ArticleGenetics2014
Characterization of genetic diversity in the nematode Pristionchus pacificus from population-scale resequencing data.
Article in Genetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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Who cites it
54 citing papers in PubMed.
- Lessons learned from manual curation of thousands of gene models in the nematode Pristionchus pacificus.PloS one · 2026Article
- Dynamics of dN/dS within recombining bacterial populations.bioRxiv : the preprint server for biology · 2025Article
- Genomic parallelism defines repeated evolution of an inducible offense.Science advances · 2025Article
- Developmental transcriptomics inGenome research · 2025Article
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- Nematode genome announcement: A chromosome-scale genome assembly for theJournal of nematology · 2024Article
- A histone demethylase links the loss of plasticity to nongenetic inheritance and morphological change.Nature communications · 2023Article
- Chromosome fusions repatterned recombination rate and facilitated reproductive isolation during Pristionchus nematode speciation.Nature ecology & evolution · 2023Article
- Influence of environmental temperature on mouth-form plasticity in Pristionchus pacificus acts through daf-11-dependent cGMP signaling.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2023Article
- Interpreting the pervasive observation of U-shaped Site Frequency Spectra.PLoS genetics · 2023Article
- Experimental and theoretical support for costs of plasticity and phenotype in a nematode cannibalistic trait.Evolution letters · 2023Article
- Single worm transcriptomics identifies a developmental core network of oscillating genes with deep conservation across nematodes.Genome research · 2021Article
- Genealogical structure changes as range expansions transition from pushed to pulled.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- The community-curated Pristionchus pacificus genome facilitates automated gene annotation improvement in related nematodes.BMC genomics · 2021Article
- Polyphenism of a Novel Trait Integrated Rapidly Evolving Genes into Ancestrally Plastic Networks.Molecular biology and evolution · 2021Article
- Genomic studies on Strongyloides stercoralis in northern and western Thailand.Parasites & vectors · 2020Article
- FourJournal of nematology · 2020Article
- Crowdsourcing and the feasibility of manual gene annotation: A pilot study in the nematode Pristionchus pacificus.Scientific reports · 2019Article
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Corrections and comments
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
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.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.