Data from: The impact of selection, gene flow and demographic history on heterogeneous genomic divergence: threespine sticklebacks in divergent environments

Ferchaud A, Hansen MM

Date Published: September 24, 2015

DOI: http://dx.doi.org/10.5061/dryad.kp11q

 

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Title Danish_sticklebacks
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Title sticklebacks_DK
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Description sticklebacks_DK.bed, Plink input file for running Faststructure on the nine threespine stickleback populations
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Title sticklebacks_DK
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Description sticklebacks_DK.bim, Plink input file for running Faststructure on the nine threespine stickleback populations
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Title sticklebacks_DK
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Description sticklebacks_DK.fam, Plink input file for running Faststructure on the nine threespine stickleback populations
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Title sticklebacks_DK
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Description sticklebacks_DK.log, Plink input file for running Faststructure on the nine threespine stickleback populations
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Title sticklebacks_DK
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Description sticklebacks_DK.nosex, Plink input file for running Faststructure on the nine threespine stickleback populations
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Title Danish_sticklebacks_genepop
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Description input file for running Genepop on the nine danish threespine stickleback populations
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Title sticklebacks_Danish
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Description vcf from Stacks version 1.13 for the nine danish threespine stickleback populations
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Title amova_Fst_outlier_test_sorted_by_chromosome_used_for_Fig_5
Downloaded 9 times
Description Results of the FST-based outlier test by Beaumont & Nichols (1996) as implemented in Arlequin 3.5 (Excoffier & Lischer 2010) sorted by chromosome. The analysis encompasses all samples and p-values are plotted for each SNP across all 21 chromosomes.This file was used to make the figure 5 in the manuscript. SNPs that show significantly high FST (p ≤ 0.001) are candidates for marking genomic regions under diversifying selection, whereas SNPs showing significantly low FST (p ≤ 0.001), potentially reflecte balancing selection.
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Title phenotypic_data_new
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Description Description of the lateral plate morphology in danish threespine populations. The morph is determined by the number of lateral plates : low plated (10 or fewer plates), partially plated (between 10 and 21 plates) and full plated (more than 21 plates) (Le Rouzic et al. 2011). See the manuscript for more details. Note: For HAL population, the HAL phenotypes are from individuals from the locality HAL reported in the manuscript but not those that were sequenced (due to technical issues)
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When using this data, please cite the original publication:

Ferchaud A, Hansen MM (2016) The impact of selection, gene flow and demographic history on heterogeneous genomic divergence: threespine sticklebacks in divergent environments. Molecular Ecology 25(1): 238–259. http://dx.doi.org/10.1111/mec.13399

Additionally, please cite the Dryad data package:

Ferchaud A, Hansen MM (2015) Data from: The impact of selection, gene flow and demographic history on heterogeneous genomic divergence: threespine sticklebacks in divergent environments. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.kp11q
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