Figure 5

Yeast-phase expressed genes with lineage-specific gene expression differences. Expression levels of individual genes in G186A and G217B were compared using FPKM values for yeast-phase cells. (A) Data points represent the log₂ transformation of the expression (FPKM) of individual genes in G186A yeasts (x-axis) and G271B yeasts (y-axis). Data point color indicates genes with similar expression levels in G186A compared to G217B (blue; less than 5-fold change), genes with significantly increased expression in G186A yeast (green; at least 5-fold), or genes with significantly increased expression in G217B yeast (red; at least 5-fold). Data points clustering at log₂(FPKM) = -3.32 represent genes whose expression was FPKM < 0.1, which were then set to (FPKM = 0.1) as the lowest reasonable limit of detection. (B) Venn Diagram of lineage-specific gene expression: genes not differentially expressed (blue overlap) or genes with increased expression (at least 5-fold) in G186A yeast (green) or in G217B yeast (red). Genes with strain-specific expression were further divided into those that were structurally unique to the G186A or G217B genome (unique) or orthologous genes that were differentially expressed by G186A and G217B yeasts (enriched).