Transcriptomic and proteomic effects of gene deletions are not conserved between the two yeasts. (A,B) Fractions of shared transcriptomic (A) or proteomic (B) effects between deletions of two genes of four types: orthologous genes in the two yeasts (n = 41 pairs for transcriptomics and 2242 pairs for proteomics), corresponding nonorthologous genes in the two yeasts, randomly paired genes in the orthologous group in Sce, and randomly paired genes in the orthologous group in Spo. (C,D) Fractions of shared transcriptomic (C) or proteomic (D) effects between deletions of two genes of two types in two subsets of data: orthologous genes with similar fitness effects of deletion in the two yeasts (n = 17 pairs for transcriptomics and 1150 pairs for proteomics) and corresponding nonorthologous genes; orthologous genes with dissimilar fitness effects of deletion in the two yeasts (n = 12 pairs for transcriptomics and 426 pairs for proteomics) and corresponding nonorthologous genes. Orthologous genes included in C and D must have information of the fitness effect of deletion in both yeasts. (E,F) Fractions of shared enriched GO terms of transcriptomic (E) or proteomic (F) effects between deletions of orthologous genes, nonorthologous genes, randomly paired unrelated Sce genes, and randomly paired unrelated Spo genes. Most shared enriched GO terms are related to stress response. P-values are based on Mann–Whitney U tests. In all panels, the lower and upper edges of a box represent the first (qu1) and third (qu3) quartiles, respectively; the horizontal line inside the box indicates the median (md); and the whiskers extend to the most extreme values inside inner fences; md ± 1.5(qu3−qu1). Dots in E and F show outliers.
