ArticleMolecular biology and evolution2014
Keeping it local: evidence for positive selection in Swedish Arabidopsis thaliana.
Article in Molecular biology and evolution, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed.
- Allelic gene conversion softens selective sweeps.Genetics · 2026Article
- Life-history trade-offs explain local adaptation inbioRxiv : the preprint server for biology · 2025Article
- Scattered differentiation of unlinked loci across the genome underlines ecological divergence of the selfing grassProceedings of the National Academy of Sciences of the United States of America · 2023Article
- Natural Selection Signatures in the Hondo and Ryukyu Japanese Subpopulations.Molecular biology and evolution · 2023Article
- Genetic variation of Cerastium alpinum L. from Babia Góra, a critically endangered species in Poland.Journal of applied genetics · 2023Article
- Admixture has obscured signals of historical hard sweeps in humans.Nature ecology & evolution · 2022Article
- Maintenance of Adaptive Dynamics and No Detectable Load in a Range-Edge Outcrossing Plant Population.Molecular biology and evolution · 2021Article
- A New Catalog of Structural Variants in 1,301 A. thaliana Lines from Africa, Eurasia, and North America Reveals a Signature of Balancing Selection at Defense Response Genes.Molecular biology and evolution · 2021Article
- The inflated significance of neutral genetic diversity in conservation genetics.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Naturally occurring circadian rhythm variation associated with clock gene loci in Swedish Arabidopsis accessions.Plant, cell & environment · 2021Article
- Selective Sweeps Under Dominance and Inbreeding.G3 (Bethesda, Md.) · 2020Article
- In the presence of population structure: From genomics to candidate genes underlying local adaptation.Ecology and evolution · 2020Article
- The evolution of metabolism: How to test evolutionary hypotheses at the genomic level.Computational and structural biotechnology journal · 2020Review
- Population Genomics of Transitions to Selfing in Brassicaceae Model Systems.Methods in molecular biology (Clifton, N.J.) · 2020Article
- Network-based hierarchical population structure analysis for large genomic data sets.Genome research · 2019Article
- Paternally Expressed Imprinted Genes under Positive Darwinian Selection in Arabidopsis thaliana.Molecular biology and evolution · 2019Article
- Natural variation in genes potentially involved in plant architecture and adaptation in switchgrass (Panicum virgatum L.).BMC evolutionary biology · 2018Article
- Combining population genomics and fitness QTLs to identify the genetics of local adaptation inProceedings of the National Academy of Sciences of the United States of America · 2018Article
- Can secondary contact following range expansion be distinguished from barriers to gene flow?PeerJ · 2018Article
- Chromosome arm-specific patterns of polymorphism associated with chromosomal inversions in the major African malaria vector, Anopheles funestus.Molecular ecology · 2017Article
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4 authors.
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Abstract
Detecting positive selection in species with heterogeneous habitats and complex demography is notoriously difficult and prone to statistical biases. The model plant Arabidopsis thaliana exemplifies this problem: In spite of the large amounts of data, little evidence for classic selective sweeps has been found. Moreover, many aspects of the demography are unclear, which makes it hard to judge whether the few signals are indeed signs of selection, or false positives caused by demographic events. Here, we focus on Swedish A. thaliana and we find that the demography can be approximated as a two-population model. Careful analysis of the data shows that such a two island model is characterized by a very old split time that significantly predates the last glacial maximum followed by secondary contact with strong migration. We evaluate selection based on this demography and find that this secondary contact model strongly affects the power to detect sweeps. Moreover, it affects the power differently for northern Sweden (more false positives) as compared with southern Sweden (more false negatives). However, even when the demographic history is accounted for, sweep signals in northern Sweden are stronger than in southern Sweden, with little or no positional overlap. Further simulations including the complex demography and selection confirm that this is not compatible with global selection acting on both populations, and thus can be taken as evidence for local selection within subpopulations of Swedish A. thaliana. This study demonstrates the necessity of combining demographic analyses and sweep scans for the detection of selection, particularly when selection acts predominantly local.
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