Figure_6.tif (1.27 MB)

Computational and molecular characterization of Phytophthora MIRNA genes.

figure

posted on 2013-10-21, 02:58 authored by Noah Fahlgren, Stephanie R. Bollmann, Kristin D. Kasschau, Josh T. Cuperus, Caroline M. Press, Christopher M. Sullivan, Elisabeth J. Chapman, J. Steen Hoyer, Kerrigan B. Gilbert, Niklaus J. Grünwald, James C. Carrington

(A) Single-nucleotide resolution small RNA read density in regions containing pin-MIR8788, pra-MIR8788a, psj-MIR8788a and pin-IR2758. (B) MIR8788 foldback structures predicted with RNAfold [90]. Ribonucleotides are colored by base-pairing entropy. (C) T-coffee alignment of DNA sequences corresponding to the MIR8788 foldbacks. Alignment quality is shown as a heatmap. (D) Northern blot detection of the pin-miR8788 guide RNA and pin-IR2758- and Pi-helitron-derived small RNA in P. infestans mycelia tissue. Northern blot detection of serine-tRNA was included as a loading standard. (E) Summary of TargetFinder results for predicted target transcripts of miR8788. (F) RLM-5′RACE validation of psj-miR8788-guided cleavage of AAAP transcripts. Arrows indicate the detected cleavage position with the number of clones supporting cleavage out of the total tested. The representative structure of AAAP transcripts is shown with the AAAP domain and miRNA target site highlighted.