Figure 3.

Expression levels and fold changes of nitrogen and phosphorus metabolism genes. (A) Heatmap of all differentially expressed genes involved in nitrogen and phosphorus metabolism. Log₂ (fold change against replete treatment) in both P-limited and N-limited treatments were plotted for genes encoding ammonium transporters (B), formate/nitrite transporters (C), nitrogen assimilation genes (D), and phosphate transporters (E). For each category, a dot represents a single gene; the bar represents mean ± SD of the Log₂ fold changes. For each category and each treatment, t-tests were used to test whether the Log₂ fold change values were significantly different from 0, i.e., whether these genes were differentially expressed compared to the replete treatment, collectively. Different p-values are represented by different numbers of stars. For a list of these genes and their read counts and FPKM values, see Table S1.