Figure 2

Translation states (TL) in the rpl24b mutant resemble those in eif3h . (A) Scatterplot comparing translational alterations in the rpl24b mutant with those in the eif3h mutant. Only differentially translated genes (DTGs), that is, genes with differential translation state (|log₂ ΔTL| ≥1.0, false discovery rate (FDR) <0.05; n = 478) are shown. Blue, differentially undertranslated in both mutants; red, differentially overtranslated in both mutants; black, differentially translated in either mutant. R², Pearson correlation coefficients. Dashed lines represent twofold changes. (B) Venn diagrams showing the translational coregulation of sets of mRNAs by RPL24B and/or eIF3h. Overlap for genes undertranslated (top) or overtranslated (bottom) in the eif3h and/or rpl24b mutant. (C) Scatterplot comparing translational alterations in the rpl24b mutant with pab2 pab8 mutant. All genes on the ATH1 array are shown. (D) Scatterplot comparing total mRNA transcript levels (TC) between rpl24b and eif3h. (E) Heatmaps of fuzzy k-means clustering of 478 differentially translated genes identified from Robust Multi-array Average-normalized combined data of rpl24b (3 biological replicates) and eif3h mutants (2 replicates). The heatmaps show median Δlog₂ TL expression values for each of six clusters of mRNAs that show similar translation defects in each mutant over wild-type. A TL = 2.0 corresponds to 80% of the mRNA in the polysomal fraction, and TL = -2.0 corresponds to 20% in the polysomal fraction. The number of genes in each cluster is indicated. The heatmap color panel indicates undertranslation (blue), overtranslation (yellow) and no change (white) in mRNA translation. (F) List of the most significantly enriched Gene Ontology (GO) categories for each cluster. GO terms, BP: biological process; CC: cellular component; MF: molecular function. Adjusted P values and the fold enrichment of the given GO category compared to the reference set are listed.