Data from: Inferring responses to climate dynamics from historical demography in neotropical forest lizards

Prates I, Xue AT, Brown JL, Alvarado-Serrano DF, Rodrigues MT, Hickerson MJ, Carnaval AC

Date Published: July 18, 2016

DOI: http://dx.doi.org/10.5061/dryad.2v1p6

 

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Title datafiles_SFS_aSFS_geno
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Description Unlinked SNP data used in population-level (SFS) and multi-population (aSFS) demographic analyses, in .geno format.
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Title datafiles_SFS_aSFS_phylip
Downloaded 4 times
Description Unlinked SNP data used in population-level (SFS) and multi-population (aSFS) demographic analyses, in .phy format.
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Title datafiles_SVDQ_sNMF_geno
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Description Unlinked SNP data used in phylogenetic (SVD Quartets) and genetic clustering (sNMF) analyses, in .geno format.
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Title datafiles_SVDQ_sNMF_phylip
Downloaded 4 times
Description Unlinked SNP data used in phylogenetic (SVD Quartets) and genetic clustering (sNMF) analyses, in .phy format.
Download datafiles_SVDQ_sNMF_phylip.zip (306.5 Kb)
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Title Dataset S1
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Description Phylogenetic tree of A. punctatus, including outgroups and support values.
Download Dataset_S1_Apunctatus.tre (3.519 Kb)
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Title Dataset S2
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Description Phylogenetic tree of A. ortonii, including outgroups and support values.
Download Dataset_S2_Aortonii.tre (1.921 Kb)
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Title Dataset S3
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Description Phylogenetic tree of P. marmoratus, including outgroups and support values
Download Dataset_S3_Pmarmoratus.tre (1.051 Kb)
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Title Dataset S4
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Description Sampling schemes used in population-level and aSFS analyses (columns A–E) and posterior estimates of the populationlevel analyses (columns F–AL).
Download Dataset_S4.xlsx (16.01 Kb)
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Title Dataset S5
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Description Posterior estimates of ζ, DI, time of population size change among populations responding synchronously, and corresponding cross-validation results based on hABC analyses and the aSFS.
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Title Dataset S6
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Description Voucher numbers, locality information, and genetic cluster assignment of sampled specimens.
Download Dataset_S6.xlsx (20.60 Kb)
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Title Dataset S7
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Description Distribution records used in species distribution models of A. punctatus and A. ortonii.
Download Dataset_S7.xlsx (27.89 Kb)
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Title Dataset S8
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Description Atlantic Forest specimens used in spatial demographic models.
Download Dataset_S8.xlsx (10.70 Kb)
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Title Table S1
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Description Posterior distributions of parameters estimated in spatial demographic models.
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Title Fig S1
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Description Plots of the posterior distributions of parameters and PCA from population-level demographic analyses (Atlantic Forest I).
Download Fig_S1.pdf (432.7 Kb)
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Title Fig S2
Downloaded 12 times
Description Plots of the posterior distributions of parameters and PCA from population-level demographic analyses (Atlantic Forest II).
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Title Fig S3
Downloaded 27 times
Description Plots of the posterior distributions of parameters and PCA from population-level demographic analyses (eastern Amazonia).
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Title Fig S4
Downloaded 19 times
Description Plots of the posterior distributions of parameters and PCA from population-level demographic analyses (western Amazonia).
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Title Fig S5
Downloaded 10 times
Description Plots of the posterior distributions of parameters and PCA from multi-population demographic analyses based on the aSFS.
Download Fig_S5.pdf (482.8 Kb)
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Title Fig S6
Downloaded 14 times
Description Plots of the posterior distributions of parameters estimated in spatial demographic models.
Download Fig_S6.tif (12.34 Mb)
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When using this data, please cite the original publication:

Prates I, Xue AT, Brown JL, Alvarado-Serrano DF, Rodrigues MT, Hickerson MJ, Carnaval AC (2016) Inferring responses to climate dynamics from historical demography in neotropical forest lizards. Proceedings of the National Academy of Sciences of the United States of America 113(129): 7978–7985. http://dx.doi.org/10.1073/pnas.1601063113

Additionally, please cite the Dryad data package:

Prates I, Xue AT, Brown JL, Alvarado-Serrano DF, Rodrigues MT, Hickerson MJ, Carnaval AC (2016) Data from: Inferring responses to climate dynamics from historical demography in neotropical forest lizards. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.2v1p6
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