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The chloroplast and mitochondrion of brown algae(Class Phaeophyceae of Phylum Ochrophyta)may have originated from different endosymbiosis.In this study,we carried out phylogenomic analysis to distinguish their evolutionary lingeages by using algal RNA-seq datasets of the 1000 Plants(1KP)Project and publicly available complete genomes of mitochondria and chloroplasts of Kingdom Chromista.