mec12517-sup-0001-TableS1-S7-FigS1-S3.docxWord document644KTable S1 Detailed information on SSR markers of Oryza rufipogon and the full results of the outlier tests. Table S2 The prior parameters distribution for ABC analysis of Oryza rufipogon and the posterior parameters estimation for Scenario 1. Table S3 Likelihood estimates of (a) migrate of long-term and (b) bayesass of recent gene flow based on 79 SSR markers among populations of Oryza rufipogon in China. Table S4 (a) Genetic and geographical distances (GGDs) between 11 Oryza rufipogon populations. Genetic distance is represented by pairwise FST/(1−FST) (below, for all 79 SSR loci) and Euclidean GGD in kilometer (above). (b) Difference matrix describing the temperature differences among populations. (c) Categorical binary difference matrix describing the soil type differences (different = 1, same = 0). Table S5 Hierachical analysis of molecular variance (amova) grouped by annual mean temperature and soil type and genetic clusters for neutral loci and selected loci. Table S6 The mean values of phenotypic traits for eight populations of Oryza rufipogon. Table S7 Summary of an anova on morphological traits of Oryza rufipogon with temperature, soil type and latitude as factors. Fig. S1 The six competing scenarios for ABC simulations. Fig. S2 (a) Principal-Coordinate-Analysis representation of population differentiation for 11 populations of Oryza rufipogon and a cultivated rice group based on 79 SSR loci. (b) Principal-Coordinate-Analysis of nine populations from the southern group (excluding the two northern populations DX and CL from O. rufipogon populations). Fig. S3 Scatter plots between geographical distance, temperature, soil type and genetic distance [FST/(1−FST)] of all loci, neutral loci and loci under selection.

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