Rooting the Eukaryotic Tree with Mitochondrial and Bacterial Proteins

ProtTest 3: fast selection of best-fit models of protein evolution

(2011) Diego Darriba et al.   BIOINFORMATICS

ETE: a python Environment for Tree Exploration

(2010) Jaime Huerta-Cepas et al.   BMC BIOINFORMATICS

The origin of eukaryotes and their relationship with the Archaea: are we at a phylogenomic impasse?

(2010) Simonetta Gribaldo et al.   NATURE REVIEWS MICROBIOLOGY

Diversity and reductive evolution of mitochondria among microbial eukaryotes

(2010) K. Hjort et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Mosaic origin of the mitochondrial proteome

(2010) Radek Szklarczyk et al.   PROTEOMICS

Phylogeny and Evolution of Apusomonadida (Protozoa: Apusozoa): New Genera and Species

(2010) Thomas Cavalier-Smith et al.   PROTIST

The Novel Marine Gliding Zooflagellate Genus Mantamonas (Mantamonadida ord. n.: Apusozoa)

(2010) Edvard Glücksman et al.   PROTIST

Broadly Sampled Multigene Analyses Yield a Well-Resolved Eukaryotic Tree of Life

(2010) Laura Wegener Parfrey et al.   SYSTEMATIC BIOLOGY

The origin and early evolution of eukaryotes in the light of phylogenomics

(2010) Eugene V Koonin   GENOME BIOLOGY

trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses

(2009) S. Capella-Gutierrez et al.   BIOINFORMATICS

PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating

(2009) Nicolas Lartillot et al.   BIOINFORMATICS

Kingdoms Protozoa and Chromista and the eozoan root of the eukaryotic tree

(2009) T. Cavalier-Smith   Biology Letters

Evolution: Revisiting the Root of the Eukaryote Tree

(2009) Andrew J. Roger et al.   CURRENT BIOLOGY

Large-Scale Phylogenomic Analyses Reveal That Two Enigmatic Protist Lineages, Telonemia and Centroheliozoa, Are Related to Photosynthetic Chromalveolates

(2009) Fabien Burki et al.   Genome Biology and Evolution

A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea

(2009) Dongying Wu et al.   NATURE

Phylogenomic analyses support the monophyly of Excavata and resolve relationships among eukaryotic "supergroups"

(2009) V. Hampl et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Organelles in Blastocystis that Blur the Distinction between Mitochondria and Hydrogenosomes

(2008) Alexandra Stechmann et al.   CURRENT BIOLOGY

A Site- and Time-Heterogeneous Model of Amino Acid Replacement

(2008) Samuel Blanquart et al.   MOLECULAR BIOLOGY AND EVOLUTION

GOBASE: an organelle genome database

(2008) E. A. O'Brien et al.   NUCLEIC ACIDS RESEARCH

Improvement of molecular phylogenetic inference and the phylogeny of Bilateria

(2008) N. Lartillot et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The archaebacterial origin of eukaryotes

(2008) C. J. Cox et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA