@ARTICLE{TreeBASE2Ref24184, author = {Romain Derelle and Guifr? Torruella and Vladim?r Klime? and Henner Brinkmann and Eunsoo Kim and Čestm?r Vlček and Bernard Franz Lang and Marek Eli?}, title = {Bacterial proteins pinpoint a single eukaryotic root.}, year = {2015}, keywords = {eukaryote phylogeny, phylogenomics, Opimoda, Diphoda, LECA}, doi = {10.1073/pnas.1420657112}, url = {http://}, pmid = {}, journal = {Proceedings of the National Academy of Sciences of the United States of America}, volume = {}, number = {}, pages = {}, abstract = {The large phylogenetic distance separating eukaryotic genes and their archaeal orthologs has prevented identification of the position of the eukaryotic root in phylogenomic studies. Recently, an in- novative approach has been proposed to circumvent this issue: the use as phylogenetic markers of proteins that have been transferred from bacterial donor sources to eukaryotes, after their emergence from Archaea. Using this approach, two recent independent studies have built phylogenomic datasets based on bacterial sequences, leading to different predictions of the eukaryotic root. Taking advan- tage of additional genome sequences from the jakobid Andalucia godoyi and the two known malawimonad species (Malawimonas jakobiformis and Malawimonas californiana), we reanalyzed these two phylogenomic datasets. We show that both datasets pinpoint the same phylogenetic position of the eukaryotic root that is be- tween ?Unikonta? and ?Bikonta,? with malawimonad and collodic- tyonid lineages on the Unikonta side of the root. Our results firmly indicate that (i) the supergroup Excavata is not monophyletic and (ii) the last common ancestor of eukaryotes was a biflagellate organism. Based on our results, we propose to rename the two major eukaryotic groups Unikonta and Bikonta as Opimoda and Diphoda, respectively.} }

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