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Figure S1. Hydrophobicity plots in the N terminus of the PsbO amino acid sequence. Y-axis: Hydrophobic values calculated using the Kyte–Doolittle method (Kyte and Doolittle 1982) and averaged over a window of seven amino acid residues. X-axis: The number of amino acids from the PsbO start codon. Asterisks indicate the cleavage position just after signal peptide (ETD). We used amino acids from start codon to alanine–X(amino acid)–alanine (AXA) motif for hydrophobicity plot. (a) Neorhodella cyanea, (b) Chroomonas caudata, (c) Botrydium granulatum, (d) Phaeodactylum tricornutum, (e) Isochrysis galbana, (f) Karenia brevis, (g) Heterocapsa triquetra, (h) Kryptoperidinium foliaceum, (i) Karlodinium veneficum.

Figure S2. Comparison of 5’ terminal nucleotide sequences of the nuclear genes of plastid-targeted proteins of the peridinin-containing dinophytes (Zhang et al. 2007) and the psbO gene from the dinophyte with diatom-derived plastids (Kf_psbO, Kryptoperidinium foliaceum). Gray box and bold font indicate splice reader and start codon, respectively. PPi, Pfiesteria piscicida; Sym-sp, Symbiodinium sp.; Kmik, Karenia mikimotoi; Kmic, Karlodinium micrum; pcna, proliferating cell nuclear antigen; Gap, glyceraldehyde-3-phosphate.

Table S1. List of psbO genes analyzed in the present study.

Table S2. List of primers for 3’ and 5’ rapid amplification of cDNA ends (RACE).

Table S3. Analysis of the signal and transit peptide of PsbO’s.

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