FIGURE 5. Proteome-based eukaryotic phylogeny.
From the following article:
The genome of the social amoeba Dictyostelium discoideum
L. Eichinger, J. A. Pachebat, G. Glöckner, M.-A. Rajandream, R. Sucgang, M. Berriman, J. Song, R. Olsen, K. Szafranski, Q. Xu, B. Tunggal, S. Kummerfeld, M. Madera, B. A. Konfortov, F. Rivero, A. T. Bankier, R. Lehmann, N. Hamlin, R. Davies, P. Gaudet, P. Fey, K. Pilcher, G. Chen, D. Saunders, E. Sodergren, P. Davis, A. Kerhornou, X. Nie, N. Hall, C. Anjard, L. Hemphill, N. Bason, P. Farbrother, B. Desany, E. Just, T. Morio, R. Rost, C. Churcher, J. Cooper, S. Haydock, N. van Driessche, A. Cronin, I. Goodhead, D. Muzny, T. Mourier, A. Pain, M. Lu, D. Harper, R. Lindsay, H. Hauser, K. James, M. Quiles, M. Madan Babu, T. Saito, C. Buchrieser, A. Wardroper, M. Felder, M. Thangavelu, D. Johnson, A. Knights, H. Loulseged, K. Mungall, K. Oliver, C. Price, M. A. Quail, H. Urushihara, J. Hernandez, E. Rabbinowitsch, D. Steffen, M. Sanders, J. Ma, Y. Kohara, S. Sharp, M. Simmonds, S. Spiegler, A. Tivey, S. Sugano, B. White, D. Walker, J. Woodward, T. Winckler, Y. Tanaka, G. Shaulsky, M. Schleicher, G. Weinstock, A. Rosenthal, E. C. Cox, R. L. Chisholm, R. Gibbs, W. F. Loomis, M. Platzer, R. R. Kay, J. Williams, P. H. Dear, A. A. Noegel, B. Barrell and A. Kuspa
Nature 435, 43-57 (5 May 2005)
doi: 10.1038/nature03481
The phylogenetic tree was reconstructed from a database of 5,279 orthologous protein clusters drawn from the proteomes of the 17 eukaryotes shown, and was rooted on 159 protein clusters that had representatives from six archaebacterial proteomes. Tree construction, the database of protein clusters and a model of protein divergence used for maximum likelihood estimation are described in Supplementary Information. The relative lengths of the branches are given as Darwins (where 1 Darwin = 1/2,000 of the divergence between S. cerevisiae and humans). Species that are not specified are Plasmodium falciparum (malaria parasite), Chlamydomonas reinhardtii (green alga), Oryza sativa (rice), Zea mays (maize), Takifugu rubripes (fish) and Anopheles gambiae (mosquito).
