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nph4304-sup-0001_FigS1-S2.docxWord document62K

Fig. S1 Expression divergence of the miR164 family in cultivated and wild rice.

Fig. S2 Number of miRNA loci with < 4× of coverage by Illumina reads from wild rice as found in this study and Xu et al. (2012).

nph4304-sup-0002_TableS1-S2_S7-S9.docxWord document50K

Table S1 Accession number and geographic origin of the cultivated and wild rice used for microarrays in this study

Table S2 Global statistics of the O. rufipogon genome

Table S7 Selected microRNAs loci with significant signals in more than four chips and the signal value in each chip

Table S9 Sequence diversity and neutrality test of miR164 in rice

nph4304-sup-0003_TableS3-S6_S8.xlsWord document478K

Table S3 List of miRNAs identified in the wild rice in this study

Table S4 miRNA targets predicted by bioinformatic approaches

Table S5 miRNA targets predicted by degradome sequencing

Table S6 Genomic variations of 534 known rice miRNAs in the wild rice

Table S8 Expression of known miRNA families in developing grain and seedlings in O. sativa (Nipponbare) and O. rufipogon small RNA populations through Illumina sequencing