Bioinformatics analysis of the squalene synthase gene and the amino acid sequence in ginseng species

The cDNA sequence, their structure, physical properties, signal peptide, hydrophobicity, hydrophilicity, subcellular localization domain of transmembrane domain and evolutionary relationship of encoded amino acid sequences were analyzed in squalene synthase of 9 species of ginseng plant using bioinformatics methods on GenBank. The results showed that the averaged similarity of squalene synthase cDNA sequence structure in Ginseng species was 96.245%, the similarity of the amino acid encoding sequence was 95.5%. The secondary structure prediction results showed that the amino acid sequence of 9 squalene synthase had α helix and random coil as the main components. After the phylogenetic analysis in 9 kinds of ginseng species, we found that they can be divided into two subfamilies. The analysis showed that plants, animals, yeasts belonged to different species, the homology was high within plant species and animal species. By analyzing the ginseng species squalene synthase and their encoding gene bioinformatics features, we can provide the theoretical reference for the squalene synthase gene cloning and the genetic manipulation.