Fig. 3.

Overview of differentially expressed transcripts. a Venn diagram of differentially expressed (DE) transcripts (q < 0.05) identified in 4 pairwise comparisons: $\mathrm{T}{1}_{5\mathrm{A}+}^{5\mathrm{A}-}$ (orange), $\mathrm{T}{2}_{5\mathrm{A}+}^{5\mathrm{A}-}$ (green), $5\mathrm{A}{-}_{\mathrm{T}2}^{\mathrm{T}1}$ (grey) and $5\mathrm{A}{+}_{\mathrm{T}2}^{\mathrm{T}1}$ (purple). b Number of DE transcripts located on each chromosome for all comparisons. The $5\mathrm{A}{-}_{\mathrm{T}2}^{\mathrm{T}1}$ and $5\mathrm{A}{+}_{\mathrm{T}2}^{\mathrm{T}1}$ DE transcripts (top graphs) are evenly distributed across all 21 chromosomes whereas $\mathrm{T}{1}_{5\mathrm{A}+}^{5\mathrm{A}-}$ and $\mathrm{T}{2}_{5\mathrm{A}+}^{5\mathrm{A}-}$ DE transcripts (bottom graphs) are concentrated on chromosome 5A. c Heatmap of normalised tpm (transcripts per million) of common DE transcripts in $5\mathrm{A}{-}_{\mathrm{T}2}^{\mathrm{T}1}$ and $5\mathrm{A}{+}_{\mathrm{T}2}^{\mathrm{T}1}$ (n = 1832). Hierarchical clustering separated these into transcripts that were upregulated (n = 1532) and downregulated (n = 300) across time. Significantly enriched GO terms (biological function only) for each group are shown on the right of the heatmap