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Fig. 4 | BMC Genomics

Fig. 4

From: Gapless genome assembly of Colletotrichum higginsianum reveals chromosome structure and association of transposable elements with secondary metabolite gene clusters

Fig. 4

Waves of expression of secondary metabolism (SM) genes of C. higginsianum during infection of Arabidopsis thaliana. a Heatmap showing the expression profiles of SM key genes. Under-represented transcripts (dark green to bright green) and over-represented transcripts (dark red to bright red) are depicted as log2 relative expression index. The log2 expression levels are presented in the adjoining heatmap colour-coded from white (not expressed) to dark blue (strongly expressed). Red arrowhead: ChPKS38. b Schematic representation of the stage-specific expression of SM gene clusters. The expression of all genes within each cluster was evaluated using the Transcript Per Million (TPM) normalisation method. A cluster was considered expressed if more than 50% of genes had a TPM greater than 1% of the actin gene TPM, and |log2FC| ≥ 2, q-value ≤ 0.01. c Time-course of the expression of the pChPKS38::RFP reporter gene in planta and in vitro (cellophane) using confocal microscopy. All images are overlays of bright field and RFP channels captured with the same settings. RFP channels are projections of 15-25 0.2 μm optical sections. Co: conidium, arrowhead: appressorium, BH: biotrophic hypha, NH: necrotrophic hypha. Bars = 10 μm

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