Fig. 1
From: Genome and transcriptome evolve separately in recently hybridized Trichosporon fungi
Rapid convergences of transcriptional regulation of homeologous genes following genome hybridization. Expression levels from log-phase growth condition are shown. a Phylogenetic relationship between Trichosporon species analyzed. Spearman rank correlation coefficients for pairwise comparisons of expression levels between orthologs and homeologs from different Trichosporon genome and subgenomes are indicated. Only gene ortholog groups that are present in all species involved (T. asahii, T. faecale, and T. coremiiforme for the top table and T. inkin and T. ovoides for the bottom table) were included in the calculations. b Scatter plot comparing expression levels in log10 fragments per kilobase of transcript per million mapped reads (FPKM) between T. asahii and T. faecale orthologs. Dashed lines indicate the x = y diagonal. c Similar scatter plots for the comparisons of expression levels between T. coremiiforme’s subgenomes and T. asahii. Data points corresponding to two-copy and single-copy homeolog groups in T. coremiiforme are distinguished by blue and red markers, respectively. d Similar scatter plots for the comparisons of expression levels between T. ovoides’s subgenomes and T. inkin. e Boxplots comparing subgenome-specific expression levels in T. coremiiforme and T. ovoides. Wilcoxon signed-rank test p-values for the paired comparisons of expression levels among two-copy homeologs and Mann–Whitney U-test p-values for the comparisons among single-copy genes are indicated. Blue boxes indicate the 25th–75th percentile ranges. Red bars indicate the medians. Black whiskers indicate the approximated 0.35th–99.65th percentile ranges. Red cross markers indicate individual data points lying outside the 0.35th–99.65th percentile ranges. Number of genes in each group is indicated
