According to the phylogenetic tree, which domains are more genetically related? the first branch of the phylogenetic tree holds the species of the bacteria division. it contains thermotoga bacteria, green non-sulfur bacteria, cyanobacteria, gram-positive bacteria, and purple bacteria. the second branch of the phylogenetic tree holds species of the eukarya. it contains diplomonads, microsporidia, trichomonads, flagellates, entamoeba, slime molds, ciliates, plants, animals, and fungi. the last branch of the phylogenetic tree starts at the beginning of eukarya line and holds the species of the archaea division. it contains thermococcus, pyrodictium, thermoproteus, methanobacterium, and extreme halophiles. © 2011 flvs