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Figure S1. Schematic diagrams of the nuclear loci and locations of the regions sequenced.

Figure S2. Boxplots of πs (filled box) and Ne (open box, in millions) values for 10 diploid Oryza species.

Figure S3. Summary of the significance of the paired t-test for comparison of πs (a and c) and Ne (b and d) among 10 Oryza species, based on all sequences (a and b) and the filtered datasets in which all sequences from nonneutral loci were removed (c and d).

Figure S4. Tree with node numbers (used in Table S6), and extant and reconstructed genome size values (in parentheses).

Figure S5. Plot of the correlation between mean Ne and genome size (C) without (a) and with (b) phylogenetical corrections, based on the filtered datasets in which all sequences from nonneutral loci were removed.

Table S1. List of plant materials sampled in this study.

Table S2. Summary of the loci surveyed and the primer sequences used in this study.

Table S3. Summary of silent nucleotide polymorphism, neutrality tests, estimates of mutation rate, and effective population size for each locus and each species.

Table S4. Summary of the results of multilocus HKA test.

Table S5. Summary of the paired t-test for comparison of πs (a and c) and Ne (b and d) values based on all sequences (a and b) and the filtered datasets in which all sequences from nonneutral loci were removed (c and d). The numbers of loci (upper triangle) and the significance (lower triangle) are indicated.

Table S6. Columns in files of independent contrasts (FIC) and standardized contrasts.

FilenameFormatSizeDescription
EVO_1674_sm_suppmat.pdf418KSupporting info item
EVO_1674_sm_suppmatS1.doc714KSupporting info item

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