MitoCOGs: clusters of orthologous genes from mitochondria and implications for the evolution of eukaryotes

An Alternative Root for the Eukaryote Tree of Life

(2014) Ding He et al.   CURRENT BIOLOGY

Compositional complexity of the mitochondrial proteome of a unicellular eukaryote (Acanthamoeba castellanii, supergroup Amoebozoa) rivals that of animals, fungi, and plants

(2014) Ryan M.R. Gawryluk et al.   Journal of Proteomics

Evolution of Mitochondria Reconstructed from the Energy Metabolism of Living Bacteria

(2014) Mauro Degli Esposti et al.   PLoS One

The Pre-Endosymbiont Hypothesis: A New Perspective on the Origin and Evolution of Mitochondria

(2014) M. W. Gray   Cold Spring Harbor Perspectives in Biology

Massively Convergent Evolution for Ribosomal Protein Gene Content in Plastid and Mitochondrial Genomes

(2013) Uwe-G Maier et al.   Genome Biology and Evolution

Strikingly Bacteria-Like and Gene-Rich Mitochondrial Genomes throughout Jakobid Protists

(2013) Gertraud Burger et al.   Genome Biology and Evolution

Early bioenergetic evolution

(2013) F. L. Sousa et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Massive Mitochondrial Gene Transfer in a Parasitic Flowering Plant Clade

(2013) Zhenxiang Xi et al.   PLoS Genetics

The Origin of Membrane Bioenergetics

(2012) Nick Lane et al.   CELL

Gene structure in the sea urchin Strongylocentrotus purpuratus based on transcriptome analysis

(2012) Q. Tu et al.   GENOME RESEARCH

Horizontal acquisition of multiple mitochondrial genes from a parasitic plant followed by gene conversion with host mitochondrial genes

(2011) Jeffrey P Mower et al.   BMC BIOLOGY

A unique horizontal gene transfer event has provided the octocoral mitochondrial genome with an active mismatch repair gene that has potential for an unusual self-contained function

(2011) Jaret P Bilewitch et al.   BMC EVOLUTIONARY BIOLOGY

Rooting the Eukaryotic Tree with Mitochondrial and Bacterial Proteins

(2011) R. Derelle et al.   MOLECULAR BIOLOGY AND EVOLUTION

Phylogenomic evidence for a common ancestor of mitochondria and the SAR11 clade

(2011) J. Cameron Thrash et al.   Scientific Reports

A Detailed History of Intron-rich Eukaryotic Ancestors Inferred from a Global Survey of 100 Complete Genomes

(2011) Miklos Csuros et al.   PLoS Computational Biology

A low-polynomial algorithm for assembling clusters of orthologous groups from intergenomic symmetric best matches

(2010) David M. Kristensen et al.   BIOINFORMATICS

Count: evolutionary analysis of phylogenetic profiles with parsimony and likelihood

(2010) M. Csuos   BIOINFORMATICS

Evolution of spliceosomal introns following endosymbiotic gene transfer

(2010) Nahal Ahmadinejad et al.   BMC EVOLUTIONARY BIOLOGY

The energetics of genome complexity

(2010) Nick Lane et al.   NATURE

Mitochondria and cell death: outer membrane permeabilization and beyond

(2010) Stephen W. G. Tait et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations

(2010) Federico Abascal et al.   NUCLEIC ACIDS RESEARCH

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

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

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

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

Analysis of Rare Genomic Changes Does Not Support the Unikont–Bikont Phylogeny and Suggests Cyanobacterial Symbiosis as the Point of Primary Radiation of Eukaryotes

(2009) Igor B. Rogozin et al.   Genome Biology and Evolution

Hydrogenosomes and Mitosomes: Conservation and Evolution of Functions

(2009) MARK VAN DER GIEZEN   JOURNAL OF EUKARYOTIC MICROBIOLOGY

Comparative Analysis of Structural Diversity and Sequence Evolution in Plant Mitochondrial Genes Transferred to the Nucleus

(2009) S.-L. Liu et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

The give-and-take of DNA: horizontal gene transfer in plants

(2009) Ralph Bock   TRENDS IN PLANT SCIENCE

Eukaryotic large nucleo-cytoplasmic DNA viruses: Clusters of orthologous genes and reconstruction of viral genome evolution

(2009) Natalya Yutin et al.   Virology Journal

DNA Transfer from Organelles to the Nucleus: The Idiosyncratic Genetics of Endosymbiosis

(2008) Tatjana Kleine et al.   Annual Review of Plant Biology

WebScipio: An online tool for the determination of gene structures using protein sequences

(2008) Florian Odronitz et al.   BMC GENOMICS

The Mitochondrial Proteome: From Inventory to Function

(2008) Chris Meisinger et al.   CELL

Frequent, Phylogenetically Local Horizontal Transfer of the cox1 Group I Intron in Flowering Plant Mitochondria

(2008) M. V. Sanchez-Puerta et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Deep Archaeal Roots of Eukaryotes

(2008) N. Yutin et al.   MOLECULAR BIOLOGY AND EVOLUTION

GOBASE: an organelle genome database

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