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Fig. 2 | BMC Genomics

Fig. 2

From: Conservation of polypyrimidine tract binding proteins and their putative target RNAs in several storage root crops

Fig. 2

Phylogenetic relationship of RBP50-like PTBs from the Solanaceae family and PTB1/6-like proteins from five storage root crops (sweet potato, cassava, carrot, radish and sugar beet) selected from Table 1. For comparison, the deduced amino-acid sequences for thirteen PTB1/6-like proteins from nine species were analyzed. AtPTB2 (a distant homolog of Arabidopsis AtPTB3), HnRNPI (human PTB) and StBMI1 (a potato non-PTB related protein) amino-acid sequences are included as controls. Conserved RRM (RNA recognition motif) domains characteristic of PTB proteins were also identified using BLAST for all PTB1/6-like proteins from these storage root crops. Amino-acid sequence alignments and phylogenetic analysis were performed using T-COFFEE (hRp://www.ch.embnet.org/soaware/TCoffee.html) and graphical representation of the phylogenetic tree was performed with TreeDyn (v198.3) [42]. Accessions for protein sequences used are written after protein names in the phylogenetic tree. In the phylogenetic tree, the branch length is proportional to the number of substitutions per site and the tree is rerooted using midpoint rooting in TreeDyn. Bv, Beta vulgaris; Cm, Cucurbita maxima; Dc, Daucus carota; It, Ipomoea trifida; Me, Manihot esculenta; Rs, Raphanus sativus; St, Solanum tuberosum; PTB, polypyrimidine tract-binding

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