Phylogenetic analyses of the <i>FAD2</i> genes among 20 oil-plants.

<p>(<b>a</b>) The alignment of Cole|AFK31315 (<i>C. oleifera</i>, AFK31315), Cche|AGH32914 (<i>C. chekiangoleosa</i>, AGH32914) and ColeFAD2 (ColeIsotig4522:451–1599) amino acid sequences. The solid black lines indicate conserved amino acids. The filled boxes represent three H-boxes, including HECGH (red box), HRRHH (blue box), and HVAHH (green box). The position (left) is based on <i>FAD2</i> gene in <i>C. chekiangoleosa</i> (AGH32914). The three inconsistent amino acids were plotted in uppercase letters (black). Multiple sequence alignment was performed using ClustalW <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0104150#pone.0104150-Chenna1" target="_blank">[58]</a>, <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0104150#pone.0104150-Larkin1" target="_blank">[59]</a> package. (<b>b</b>) The amino acid sequences were used for phylogenetic tree analysis. The asterisk indicates the <i>FAD2</i> gene (ColeFAD2) detected in the assembled <i>C. oleifera</i> transcriptome (ColeIsotig4522:451–1599). I–V represent the five groups of all the 20 oil-plants classified by the sequence similarity. The GenBank accession numbers and the full species names of the genes used here are: Scom|CAA63432 (<i>Solanum commersonii</i>, CAA63432); Atha|NP_187819 (<i>Arabidopsis thaliana</i>, NP_187819); Hann|AAL68982 (<i>Helianthus annuus</i>, AAL68982); Brap|CAD30827 (<i>Brassica rapa</i>, CAD30827); Sole|BAC22091 (<i>Spinacia oleracea</i>, BAC22091); Oeur|AAL93620 (<i>Olea europaea</i>, AAL93620); Pgra|AAO37754 (<i>Punica granatum</i>, AAO37754); Oeur|AAW63041 (<i>Olea europaea</i>, AAW63041); Gmax|BAD89862 (<i>Glycine max</i>, BAD89862); Hbra|AAY87459 (<i>Hevea brasiliensis</i>, AAY87459); Jcur|ABA41034 (<i>Jatropha curcas</i>, ABA41034); Ptom|ABC41578 (<i>Populus tomentosa</i>, ABC41578); Vmon|ABL86147 (<i>Vernicia Montana</i>, ABL86147); Lusi|ACF49507 (<i>Linum usitatissimum</i>, ACF49507); Rcom|002530704 (<i>Ricinus communis</i>, XP_002530704); Ahyp|ACZ06072 (<i>Arachis hypogaea</i>, ACZ06072); Pvul|ADO17551 (<i>Phaseolus vulgaris</i>, ADO17551); Vfor|AEE69020 (<i>Vernicia fordii</i>, AEE69020); Vlab|AEI60128 (<i>Vitis labrusca</i>, AEI60128); Cole|AFK31315 (<i>C. oleifera</i>, AFK31315); Cche|AGH32914 (<i>C. chekiangoleosa</i>, AGH32914).