Data from: Population genomics of divergence within an obligate pollination mutualism: selection maintains differences between Joshua tree species

Royer AM, Streisfeld MA, Smith CI

Date Published: September 29, 2016

DOI: http://dx.doi.org/10.5061/dryad.7pj4t

 

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Title CompleteSNPdata
Downloaded 6 times
Description Complete SNP data from Joshua trees (Yucca brevifolia and Y. jaegeriana), generated by RADseq. Data is in STRUCTURE format. This data set includes SNPs and individuals with large amounts of missing data, excluded from downstream analyses. Text file saved as comma-separated values.
Download AllGentoypes347Trees.csv (14.95 Mb)
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Title TrimmedSNPData
Downloaded 10 times
Description RAD-seq data from Joshua trees (Yucca brevifolia and Y. jaegeriana). Data is in STRUCTURE format. This data set has been trimmed to remove SNPs more than 20% missing data and individuals with 30% or more missing data. This dataset was used for all analyses described in Royer et al. Text file saved as comma-separated values.
Download GoodLoci319Trees.csv (12.22 Mb)
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Title ArlequinInput
Downloaded 7 times
Description Trimmed SNP data from Joshua trees (Yucca brevifolia and Y. jaegeriana) formatted for analysis in Arlequin. Text file saved as tab-separated values.
Download ArlequinInput.m2n2.r0.73.m5.a0.01.txt (12.49 Mb)
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Title StructureInput
Downloaded 4 times
Description Randomly selected SNPs from Joshua trees (Yucca brevifolia and Y. jaegeriana) used to classify individuals in STRUCTURE. Text file saved as tab-separated values.
Download batch_1.structure.tsv (666.5 Kb)
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Title TasselAllGenotypes
Downloaded 3 times
Description SNP data from Joshua trees (Yucca brevifolia and Y. jaegeriana) in TASSEL format used for Genome-Wide Association Study. Text file saved as tab-separated values.
Download TasselAllGenotypes.txt (7.354 Mb)
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Title Phenotypes
Downloaded 3 times
Description Phenotypic data from Joshua trees (Yucca brevifolia and Y. jaegeriana), formatted for analysis in TASSEL. Individual names are in the first column. Trait names (header row) include units in parenthesis. Text file saved as tab-separated values.
Download TasselAllMeasurementsJan8.txt (20.92 Kb)
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Title BayesianGenomicClinesBrevifoliaData
Downloaded 4 times
Description Allele counts data from Joshua trees (Yucca brevifolia) for analysis using Bayesian Genomic Clines. Parental population file 1. Saved as plain text.
Download BGC_Brev9430Loci (209.8 Kb)
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Title BayesianGenomicClinesJaegerianaData
Downloaded 3 times
Description Allele counts data from Joshua trees (Yucca jaegeriana) for analysis using Bayesian Genomic Clines. Parental population file 2. Saved as plain text.
Download BGC_Jaeg9430Loci (214.5 Kb)
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Title BayesianGenomicClinesHybridZoneData
Downloaded 5 times
Description Genotype data from Joshua trees (Yucca brevifolia and Y. jaegeriana) for analysis using Bayesian Genomic Clines. Hybrid population data. Saved as plain text.
Download BGC_Tika9430Loci (7.469 Mb)
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Title TreeGPSCoordinates
Downloaded 5 times
Description GPS coordinates for sampled trees in decimal minutes. Text file saved as comma-separated values.
Download TreeCoordinates.csv (9.709 Kb)
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When using this data, please cite the original publication:

Royer AM, Streisfeld MA, Smith CI (2016) Population genomics of divergence within an obligate pollination mutualism: Selection maintains differences between Joshua tree species. American Journal of Botany 103(10): 1730-1741. http://dx.doi.org/10.3732/ajb.1600069

Additionally, please cite the Dryad data package:

Royer AM, Streisfeld MA, Smith CI (2016) Data from: Population genomics of divergence within an obligate pollination mutualism: selection maintains differences between Joshua tree species. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.7pj4t
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