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Figure 3 | Genome Biology

Figure 3

From: Apple miRNAs and tasiRNAs with novel regulatory networks

Figure 3

Complex MYB regulatory network mediated by miR159, miR828, and miR858. (a) Numbers of MYB genes targeted by apple miR159, miR828 and miR858. (b) Conservation of the region co-targeted by miR828 and miR858 among diverse plant species, including Zea mays (ZM; BT088210), Oryza sativa (OS; NM_001050499), Physcomitrella patens (PPa; XM_001781987), Solanum lycopersicum(SL; AK322126), Vitis vinifera (VV; XM_002269386), Gossypium tomentosum (GT; EU249416), Populus trichocarpa (PT; XM_002315854), Arabidopsis thaliana (AT; NM_116126), Prunus persica (PPe; ppa016135m), and Malus × domestica (MD; MDP0000124555). The sequence-conserved region in the MYB coding region is shown in black while the sequence-divergent region is shown in red. Pairing of miR828 and miR858 with their target sites in a representative MYB transcript is illustrated below. (c) RNA gel blot analysis of expression of miR390, miR828 and miR858 in various tissues. (d) Phylogenetic analysis and functional relationship between apple and Arabidopsis MYB factors. The tree was inferred using the neighbor-joining method and 1,000 bootstraps with MYB amino acid sequences and Clustal X2 software. The subgroup and function annotation were designated as described previously [56, 58]. Subclans consisting of only Arabidopsis MYBs were collapsed are and denoted with black triangles. The MYB genes that are targeted by a specific miRNA or co-targeted by two miRNAs are denoted in a specific color as designated in (a). miR828-targeted MYBs capable of producing secondary siRNAs are marked with a star, and MYBs whose cleavage was confirmed by degradome analysis are marked with filled circles. ABA, abscisic acid; nt, nucleotide.

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