Fig. 1

Phylogeography of wild progenitors of the O. sativa groups. Geographic locations of the 40 wild accessions with the highest proportions of ancestral variants specific to (a) japonica, (b) indica, and (c) aus. The heat maps take account of both the geographic density of accessions and the proportion of aus-, japonica- and indica-specific variants. Those accessions assigned only to country, without geographical coordinates, are placed at the mean positions for that country’s accessions: this applies to five, 14 and six accessions in (a), (b) and (c), respectively. (d) A majority-rule consensus of 200 ML trees constructed from 358,218 variable sites selected only in respect to the proportions of missing data (see Methods). The accessions are colour-coded as follows: light blue, tropical japonica; dark blue, temperate japonica; red, indica; orange, aus; green, O. rufipogon accessions shown on 1a–c. Bootstrap support (%) is indicated near the nodes