Alternative splicing of PTC7 orthologs in the Saccharomycotina. (A) Splicing pattern is shown for each of the species analyzed, along with the species phylogeny. Key branches are indicated: the branch leading to the subphylum Saccharomycotina, the branch leading to the family Saccharomycetacea, and the branch leading to the WGD clade. Red species names highlight the WGD clade. Green asterisk indicates the most likely origin of PTC7 intron retention. Red asterisk indicates the most likely replacement of one alternatively spliced gene with duplicate genes. (B–G) Sashimi plots of a representative RNA-seq data set for the indicated species. Each plot indicates in the top left corner the read coverage scale on the y-axis. Arches indicate introns that were spliced out, and the numbers along the arches indicate the number of exon junction reads for that splicing pattern. Below each sashimi plot is the likely RNA structure with boxes indicating coding exons and lines indicating intron. TM indicates a transmembrane helix predicted to be encoded by the retained intron. (B) C. albicans diverged before the likely origin of PTC7 alternative splicing and no alternative splicing was detected. (C) Intron retention in the PTC7 ortholog from C. jadinii. (D) Intron retention in the PTC7 ortholog from T. delbrueckii. (E,F) T. blattae contains two PTC7 orthologs, with one lacking an intron and the other containing a constitutive intron. (G) Intron retention in PTC7 of S. cerevisiae. The box around this panel indicates this panel confirms the previously described alternative splicing.
