microsatellite and chloroplast sequence data for 8 tree species from the Guiana shield

Data represent two subsets of individuals sequenced at two chloroplast loci and genotyped for a variable number of microsatellite loci (depending on species). FIle names correspond to species name codes as follows: Carapa surinamensis (Cs), Dicorynia guianensis (Dg), Jacaranda copaia (Jc), Simarouba amara (Sa), Symphonia globulifera (Sg), Symphonia sp1 (Ssp1), Virola michelii (Vm), eastern Vouacapoua americana (Va(E)) and western Vouacapoua Americana (Va(W)). FIle format: input file for DIYABC 2.0

Eperua_falcata_AFLPs_MarkerBins

The file describes the AFLPs binset: the restriction enzyme used, the dye color for genotyping, and the location of the AFLPs bins

Geographic and topographic situation of the study sites.

<p>Colored dots: trees sampled for genotyping (triangles: hilltop; squares: bottomland).</p

Environmental conditions in the study sites and local habitats: soil humidity (%), soil temperature (°C) and canopy opening (%).

<p>Complete data are provided in <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0121394#pone.0121394.s009" target="_blank">S1 Table</a>.</p

Band presence frequency (allele ‘1’) in each local habitats (‘B’: bottomland, ‘H’: hilltop) and each study site (circles: Laussat, squares: Régina).

<p>The tables below show the result of X² tests on AFLP band frequency ('*': significant; ‘-’: non-significant or missing).</p

Results of the landscape-scale Bayesian model (values are provided in Table 3).

<p>Points show the inferred parameters with their 95% posterior probability: μ is the global mean, θ ₁ represents the effect of site, θ₂ is the slope of the relation between the geographical and genetic distance within sites in a two-dimensional x,y-plane, θ₃ is the slope of the relation between the geographical and genetic distance within sites according to an elevation gradient, θ₄ describes the effect of drought severity, θ₅ describes the effect of waterlogging frequency and θ₆ describes the effect of soil type.</p

Results of the Bayesian outlier search under a 10% expected FRD.

<p>Results of the Bayesian outlier search under a 10% expected FRD.</p

Results of the coalescent outlier search under the hierarchical island model.

<p>Blue dashed line: 95% neutral envelop; red dashed line: 99% neutral envelop. Only loci above the neutral envelop and retained after multiple corrections (FDR = 10%) are shown.</p

Parameters inferred by the landscape Bayesian model with their respective posterior probabilities (mean, standard deviation, median, and 95% credible interval): μ (global mean), θ₁ (site effect), θ₂ (slope of the relation between geographical and genetic distance within sites according to a 2D x,y-plane), θ₃ (slope of the relation between the geographical and genetic distance within sites according to an elevation gradient), θ₄ (drought severity effect), θ₅ (waterlogging frequency effect), and θ₆ (soil type effect).

<p>Parameters inferred by the landscape Bayesian model with their respective posterior probabilities (mean, standard deviation, median, and 95% credible interval): μ (global mean), θ₁ (site effect), θ₂ (slope of the relation between geographical and genetic distance within sites according to a 2D x,y-plane), θ₃ (slope of the relation between the geographical and genetic distance within sites according to an elevation gradient), θ₄ (drought severity effect), θ₅ (waterlogging frequency effect), and θ₆ (soil type effect).</p

Top: Number of tree pairs in each distance class.

<p>Bottom: Intra-site spatial genetic structure (SGS) analysis based on all AFLP markers.</p