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. 2015 Jun 25;15:160. doi: 10.1186/s12870-015-0529-y

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© Liu et al.; licensee BioMed Central. 2015

This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

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Fig. 2 — Comparison of the amino acid sequences of Tc-MYBPA and various plant MYB transcription factors. a Alignment of the deduced amino acid sequences of the R2R3-MYB proteins functioning in anthocyanin and PA synthesis, including Tc-MYBPA (cacao), ZmC1 (maize), VvMybPA1, VvMybPA2, VvMybA1, VvMybA2 (grape), PtMyb134 (poplar), LjTT2a, LjTT2b, LjTT2c (Lotus), and Arabidopsis regulators AtTT2, AtPAP1 and AtPAP2. The R2 and R3 repeats of the MYB domain are indicated above the alignment. Identical amino acids are indicated in black, similar amino acids in gray. Arrowheads indicate amino acids that are conserved in all PA-regulating MYBs but absent in anthocyanin-regulating MYBs. Sequences were aligned using the ClustalW program and were displayed using the GeneDoc program. b Phylogenetic tree showing selected plant MYB transcription factors from GenBank. Human c-myb is included as an outgroup. Functions of the MYB proteins are given on the right side in bold. The alignment was performed using the ClustalW program and the tree was constructed using the neighbor-joining algorithm of the MEGA package (Version 3.1). The scale bar represents 0.1 substitutions per site and the numbers next to each node are bootstrap values from 1000 replicates. The GenBank accession numbers of the MYB proteins are as follows: AtGL1 (P27900), ZmP (P27898), ZmC1 (AAA33482), VvMybA1 (BAD18977), VvMybA2 (BAD18978), AtPAP1 (AAG42001), PhAN2 (AAF66727), LeANT1 (AAQ55181), OsMyb4 (T02988), AmMixta (CAA55725), AtMyb111 (AAK97396), AtMyb12 (NM_130314), PmMybF1 (AAA82943), PhPH4 (AAY51377), AtPAP2 (AAG42002), AtMybWER (CAC01874), VvMyb5a (AAS68190), VvMYB5b (Q58QD0), VvMYBPA1 (AM259485), VvMybPA2 (ACK56131), c-myb (AAB49039), PtMyb134 (FJ573151), PhMyb1 (Z13996), LjTT2a (AB300033), LjTT2b (AB300034), LjTT2c (AB300035), AtTT2 (Q2FJA2), MtMybPAR (ADU78729), TaMyb14 (AFJ53053) Also included in the tree are one putative cacao PA specific MYB (Tc-MYBPA), and three MYB-like proteins found in the cacao EST collections (CL158Contig1, CL8212Contig1 and CL2621Contig1)