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. 2017 Mar 20;114(14):E2816–E2825. doi: 10.1073/pnas.1617777114

Fig. 1.

Fig. 1.

Conservation of putative PUF binding elements in Asycomocota fungi. (A) Phylogenetic tree of selected fungi (see full tree in Fig. S1). Colored branches represent each subphylum. Pink, Saccharomycotina (budding yeasts); orange, Pezizomycontina (filamentous fungi); blue, Taphrinomycontina (fission yeast), black, other fungi. (B) Representation of 8-, 9-, and 10-nt PWM models used to parameterize the log-likelihood function. Height of base represents probability of a base at each position in the binding element. (C–E) k-means clustering of orthologous transcripts based on log-likelihood scores for putative PUF binding elements in 3′UTRs for species in A, as shown in the key. Each row plots the log-likelihood PWM-match scores for an orthologous 3′UTR, and each column represents a species (with the phylogenetic tree shown above). Clustering was done independently for each heat map. Only clusters with a GO term P value lower than E-9 were highlighted (except cluster 2). Shown are the log-likelihood scores based on the 8-nt binding elements (C) found in one or more of 4425 orthologous transcripts. (D) The 9-nt binding elements found in 4,898 transcripts. (E) The 10-nt binding elements found in 4,423 transcripts.