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. 2015 Mar 18;11(3):e1005096. doi: 10.1371/journal.pgen.1005096

Fig 4. Orthology of SM and development genes differentially expressed in ΔveA and ΔmtfA relative to wild type in A. fumigatus and A. nidulans.

Fig 4

Circos plots of genes in SM clusters (A,B) and developmental genes (C,D) showing change in gene expression patterns in ΔveA vs WT (A,C) and in ΔmtfA vs WT (B,D) experiments. In all plots, A. fumigatus genes are shown on the left and A. nidulans genes on the right. Inner tracks show the relative number of under-expressed genes (red), over-expressed genes (blue) and not differentially expressed genes (grey) in each species. Links between the two species indicate orthologous genes that are both under-expressed (red links), both over-expressed (blue links) and both not differentially expressed (light grey links); purple links indicate that the orthologous genes have conflicting expression patterns. In both A and B, the 317 SM cluster genes present in A. fumigatus are shown on the left and the 498 A. nidulans SM cluster genes are shown on the right. Many SM cluster genes are differentially expressed in the ΔveA vs. WT comparison in both species (A). Many SM cluster genes are also differentially expressed in the ΔmtfA vs. WT comparison in A. nidulans; the proportion of differentially expressed genes in the ΔmtfA vs. WT comparison in A. fumigatus is much smaller (B). The absence of links between most of the SM cluster genes in the two species indicates that most SM cluster genes are species-specific. For those genes that share orthology in the two species, they often differ in their expression in response to a master transcriptional regulator. In C and D, the 478 genes annotated to the GO term developmental process in A. fumigatus are shown on the left side of the plot and the 490 genes annotated to the same GO term in A. nidulans are shown on the right side. The presence of links between most genes in these two species indicates a high degree of gene conservation. The expression patterns of all individual genes, including those present in SM gene clusters and those involved in developmental processes, are shown in S5 Table. Expression patterns of the SM cluster genes organized by individual SM pathways are shown in S10 Table.