Fig. 5
B. hordei exhibits infection stage-dependent expression patterns of coding genes and lncRNAs. A We used TCseq [37] to cluster time-resolved coding gene and lncRNA expression patterns. The lines represent single transcripts; the color shade denotes the cluster membership by Spearman correlation (the darker the shade of orange, the higher the correlation R with the respective expression cluster according to the color scheme). The x-axis denotes the time points of infection (Fig. 1A), i.e., 0 hpi (conidiospore germination), 6 hpi (appressorium formation), 18 hpi (host cell penetration), 24 hpi (haustorium formation), 72 hpi (epiphytic colonization), and 120 hpi (conidiogenesis). The y-axis indicates the relative z-score based on reads per kb of transcript per million mapped reads (RPKM). B The heat map shows the relative median expression of genes encoding putative secreted proteins across the time points according to the color scheme below the heat map. Purple indicates high and white low expression. The time course cluster number (A) is indicated next to the dendrogram above the heat map. C The stacked bar graph shows the number of lncRNAs (orange) and mRNAs (purple) in each cluster, indicating mRNAs encoding putative secreted proteins (blue) or Sgk2-like kinases (brown). The x-axis indicates the co-expression cluster (A) and is annotated with a dot plot below to highlight the time point represented by each cluster. The y-axis shows the number of transcripts. D We conducted gene ontology (GO) enrichment analysis for the coding genes from each cluster (A) using ShinyGO v0.77 [51] accessed online at http://bioinformatics.sdstate.edu/go/, and summarized GO terms with REVIGO [52]. The dot plot shows the fold enrichment of functional terms compared to the full set of genes of B. hordei (dot size); the fill color denotes the − Log10(FDR-adjusted enrichment p value) according to the color scheme on the right. The summarizing GO descriptions are provided below the GO identifiers (x-axis), the respective co-expression cluster (A) is indicated on the y-axis