Fig 2. Analysis of mRNAs in polysome gradients.

(A) For each gene in the "unique gene" set, the percentage of the mRNA in polysomes (heavy and light combined) at 27°C (cyan) and after 1h at 39°C (pink) was calculated. The results for all of these mRNAs ("All") are displayed on the left as box plots. We then examined separately mRNAs that were reproducibly at least 3x enriched in a ZC3H11 pull-down (ZC3H11 bind 3x); and mRNAs encoding ribosomal proteins (Ribprot). Boxes indicate the 25th to 75 percentiles with central median; notches represent the 95% confidence intervals for the medians; dotted lines show 1.5x the inter-quartile range and circles are outliers. (B) Effect of a 1h 39°C treatment on polysome loading and abundance for mRNAs from each gene in the list of unique genes. The x-axis shows, for each gene, the amount of mRNA after 1h at 39°C divided by the amount of mRNA at 27°C, on a log₂ scale. The y-axis shows the percentage of that mRNA in the polysomes after 1h at 39°C divided by the amount of mRNA at 27°C, also on a log₂ scale. The line is a regression line with the correlation coefficient (R) also displayed. Ribosomal protein mRNAs are in orange (Ribprot) and mRNAs that bind to ZC3H11 are in cyan. (C) Functional classes of proteins encoded by mRNAs that shifted away from the polysomal fraction and into the free and monosomal fractions after heat shock. For these mRNAs the proportion of the mRNA in polysomes (heavy and light combined) decreased by 1.25x or more after heat shock. The results of a Fisher test for enrichment of functional classes are shown; if no result is shown there was no significant enrichment. (D) Functional classes of proteins encoded by mRNAs that shifted towards the polysomal fraction after heat shock. "Increase" means that the proportion of the corresponding mRNA in polysomes increased by 2x or more. The results of a Fisher test for significant enrichment of functional classes are shown.