Supplemental Data

Files in this Data Supplement:

• Supplemental Figure 1 - Alignments of amiRNAs to target genes. Energies were calculated using mfold at 23°C (Zuker, M., 2003, Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res. 31, 3406-3415).
• Supplemental Table 6 - Sequences of oligonucleotides used for RT-PCR of YABBY genes in amiR-yabby overexpressers
• Supplemental Table 7 - Summary of downregulated genes with seed matches to amiRNAs
• Supplemental Figure 2 - Overlap of significantly downregulated genes (logit-T, p < 0.01) in gun4-1 and amiR-white overexpressers. Numbers in parentheses indicate genes common to amiR-white-1 (MIR172a backbone) and amiR-white-2 (MIR172a backbone) overexpressers. Only genes called as present by Affymetrix algorithms in wild-type controls were considered. Note that only technical replicates were available for the gun4 and amiR-white samples (biological replicates for Co-0 control).
• Supplemental Figure 3 - Expression of FT in leaves of amiR-ft overexpressers
• Supplemental Figure 4 - RNA blot of weak and strong amiR-mads-2 (MIR319a backbone) overexpressers. Different levels of amiR-mads-2 are evident in weak and strong amiR-mads-2 (MIR319a backbone) overexpressers. A mix of weak and strong primary transformants has been used in Figure 2A and is included on the rightmost lane (labeled “mix”).
• Supplemental Table 1 - Predicted target genes of artificial microRNAs and expression changes in amiRNA overexpressers compared to wild-type controls by microarray analyses.
• Supplemental Table 2 - Functionality of artificial microRNAs in different backbones and under different promoters.
• Supplemental Table 3 - Means of Smith-Waterman scores.
• Supplemental Table 4 - Potential targets of secondary siRNAs.
• Supplemental Table 5 - Sequences of miRNA stemloop backbones and oligonucleotides.