Figure 5. mRNA-Seq reveals Ume6 regulation of a subset of hypha-associated genes in the gut.

A) Schematic of mRNA-Seq experiment. PolyA RNA was recovered from WT C. albicans (ySN250) and ume6 (ySN1479) propagated under standard in vitro conditions (YPD, 30°C; n=3 cultures), filament-inducing conditions (YPD+10% serum, 37°C; n=3 cultures), or for 10 days in the GI commensalism model (n=5 animals). B) Analysis of sequencing depth and coverage. Bars represent % reads that align to C. albicans vs. mouse transcriptomes. Green numbers denote the read count (in millions) of indicated strains under each condition. C) Heat map of hypha-associated gene expression under laboratory conditions and in the host digestive tract. Values represent the log₂ function of the tpm under the indicated condition divided by the tpm under standard in vitro conditions (YPD, 30°C). Final two columns represent the significance [−log₁₀(adjusted p-value)] of expression differences between wild type propagated in the gut vs. in vitro (Gut/YPD) and ume6 vs. WT when both are propagated in the gut (ume6/WT). D) Volcano plot depicting the log2 transformed ratio of hypha-associated gene expression in commensally propagated ume6 vs. wild type (x-axis) versus significance (y-axis). Full mRNA-Seq datasets are presented in Table S4.