Demenou-et-al.accepted_Dryad

Column A: Individual ID; Column B: Country of origin; Column C: Location of origin; Column D: Code of Country of origin; Columns E and F: Spatial coordinates of the individuals (degree decimals); Column G: Individuals used for Spatial Genetic Structure, Pswc and Psec (with * individuals not used for STRUCTURE analysis) Columns H to AI: Genotypes of the individuals at the 14 nuclear SSR (P37, P8, P30, P25, P17, P28, P5, P42, P12, P32, P22, P44, P34, P24

Haplotype maps of four Afrotropical tree species (dataset 2).

<p>Sizes of circles are proportional to the sample sizes of each population, haplotypes are colour-coded. Statistical parsimony networks of haplotypes are included for each species: each link represents a single mutation; white circles indicate unobserved putative haplotypes. Red lines correspond to the three strongest genetic barriers (BARRIER program) identified in each species.</p

Symphonia_globulifera_nSSR_data

Symphonia_globulifera_nSSR_dat

Two physioclimatic features of the Lower Guinea region that led to the formulation of alternative evolutionary scenarios for Afrotropical tree taxa.

<p>A) The W-E environmental gradient, B) the N-S seasonal inversion, illustrated by the difference of January and July precipitation (mm).</p

Graphical representation of two evolutionary scenarios tested using coalescent simulations.

<p>A) population divergence scenario, B) constant population size scenario.</p

Tests of population expansion and patterns of isolation by distance in 14 Afrotropical tree taxa.

<p><i>blog</i>(<i>F</i>_ij) and <i>P</i>(IBD_<i>F</i>_ij), slope and test of isolation by distance; <i>blog</i>(<i>N</i>_ij) and <i>P</i>(IBD_<i>N</i>_ij) slope and test of isolation by distance using ordered alleles; <i>P</i>(blog(<i>N</i>_ij)N_ijperm.)), test for phylogeographic structure. For details, see materials and methods. +, <i>P</i><0.1; *, <i>P</i><0.05; **, <i>P</i><0.01; ***, <i>P</i><0.00; ns, not significant; nc, not calculated.</p

Diversity estimates in 14 Afrotropical tree taxa under two evolutionary scenarios.

<p><i>N</i>, sample size; <i>h(SE)</i>, gene diversity and its standard error; <i>Nhap</i>, number of haplotypes; <i>Ar</i>, rarefied haplotype richness in a random sample of 3 sequences in dataset 1 or 18 sequences in dataset 2; <i>Npriv</i>, number of private haplotypes; <i>Arpriv</i>, rarefied private haplotypic richness; nc, not calculated.</p

Simulation results showing summary statistics and the expected proportion of significant differentiation tests under divergence or constant population size scenarios for simulated deme sizes, <i>N</i>, and mutation rates, <i>µ</i>, and their comparison to observed data from dataset 1.

<p>Averages over 100 independent simulations are shown, see <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0084307#pone-0084307-g004" target="_blank">Figure 4</a> and <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0084307#pone.0084307.s004" target="_blank">Table S4</a>.</p><p>^a The fraction of samples with significant <i>F</i>_ST considers the proportion of 1-sided tests with <i>P</i><0.05.</p

Haplotype maps of 14 Afrotropical tree taxa (dataset 1).

<p>Sizes of circles are proportional to the sample sizes of each population, haplotypes are colour-coded. Statistical parsimony networks of haplotypes are included for each taxon: each link represents a single mutation, white circles indicate unobserved putative haplotypes and the black box on the <i>Strombosiopsis tetrandra</i> network represents 26 mutations. The scale bar on the maps corresponds to 200 km.</p

Graphical representation of co-location of the three strongest genetic barriers (barrier density) observed across four Afrotropical tree species (dataset 2).

<p>Barriers (in blue) are based on the pair-wise differentiation (<i>G</i>_ST) among sampling locations. More intense coloration indicates higher barrier density.</p