4.6 Review

The universal tree of life: an update

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Article Biochemistry & Molecular Biology

Extending the Conserved Phylogenetic Core of Archaea Disentangles the Evolution of the Third Domain of Life

Celine Petitjean et al.

MOLECULAR BIOLOGY AND EVOLUTION (2015)

Article Multidisciplinary Sciences

Complex archaea that bridge the gap between prokaryotes and eukaryotes

Anja Spang et al.

NATURE (2015)

Article Multidisciplinary Sciences

The two-domain tree of life is linked to a new root for the Archaea

Kasie Raymann et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2015)

Article Multidisciplinary Sciences

Bacterial proteins pinpoint a single eukaryotic root

Romain Derelle et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2015)

Editorial Material Biochemistry & Molecular Biology

Lokiarchaeota: eukaryote-like missing links from microbial dark matter?

Arshan Nasir et al.

TRENDS IN MICROBIOLOGY (2015)

Article Evolutionary Biology

Rooting the Domain Archaea by Phylogenomic Analysis Supports the Foundation of the New Kingdom Proteoarchaeota

Celine Petitjean et al.

GENOME BIOLOGY AND EVOLUTION (2015)

Article Evolutionary Biology

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

Sivakumar Kannan et al.

BMC EVOLUTIONARY BIOLOGY (2014)

Article Evolutionary Biology

Concatenated alignments and the case of the disappearing tree

Thorsten Thiergart et al.

BMC EVOLUTIONARY BIOLOGY (2014)

Article Biochemistry & Molecular Biology

An Alternative Root for the Eukaryote Tree of Life

Ding He et al.

CURRENT BIOLOGY (2014)

Article Evolutionary Biology

Global Phylogenomic Analysis Disentangles the Complex Evolutionary History of DNA Replication in Archaea

Kasie Raymann et al.

GENOME BIOLOGY AND EVOLUTION (2014)

Article Evolutionary Biology

Archaeal Dark Matter and the Origin of Eukaryotes

Tom A. Williams et al.

GENOME BIOLOGY AND EVOLUTION (2014)

Article Biochemistry & Molecular Biology

The Relative Ages of Eukaryotes and Akaryotes

David Penny et al.

JOURNAL OF MOLECULAR EVOLUTION (2014)

Article Biochemistry & Molecular Biology

Phylogenomic Test of the Hypotheses for the Evolutionary Origin of Eukaryotes

Nicolas C. Rochette et al.

MOLECULAR BIOLOGY AND EVOLUTION (2014)

Article Biochemistry & Molecular Biology

Ribosomal proteins: Toward a next generation standard for prokaryotic systematics?

Hemalatha Golaconda Ramulu et al.

MOLECULAR PHYLOGENETICS AND EVOLUTION (2014)

Review Microbiology

The hybrid nature of the Eukaryota and a consilient view of life on Earth

James O. McInerney et al.

NATURE REVIEWS MICROBIOLOGY (2014)

Article Biochemistry & Molecular Biology

A highly divergent archaeo-eukaryotic primase from the Thermococcus nautilus plasmid, pTN2

Sukhvinder Gill et al.

NUCLEIC ACIDS RESEARCH (2014)

Article Multidisciplinary Sciences

Metabolic Evolution of a Deep-Branching Hyperthermophilic Chemoautotrophic Bacterium

Rogier Braakman et al.

PLOS ONE (2014)

Review Biochemistry & Molecular Biology

Cellular domains and viral lineages

Patrick Forterre et al.

TRENDS IN MICROBIOLOGY (2014)

Article Cell Biology

The Dispersed Archaeal Eukaryome and the Complex Archaeal Ancestor of Eukaryotes

Eugene V. Koonin et al.

COLD SPRING HARBOR PERSPECTIVES IN BIOLOGY (2014)

Article Multidisciplinary Sciences

Biology of a widespread uncultivated archaeon that contributes to carbon fixation in the subsurface

Alexander J. Probst et al.

NATURE COMMUNICATIONS (2014)

Article Microbiology

Plasmids from Euryarchaeota

Patrick Forterre et al.

MICROBIOLOGY SPECTRUM (2014)

Article Biochemistry & Molecular Biology

From archaeon to eukaryote: the evolutionary dark ages of the eukaryotic cell

Joran Martijn et al.

BIOCHEMICAL SOCIETY TRANSACTIONS (2013)

Article Biochemistry & Molecular Biology

Rooted phylogeny of the three superkingdoms

Ajith Harish et al.

BIOCHIMIE (2013)

Editorial Material Biology

Seeing the Tree of Life behind the phylogenetic forest

Pere Puigbo et al.

BMC BIOLOGY (2013)

Article Evolutionary Biology

Being Aquifex aeolicus: Untangling a Hyperthermophile's Checkered Past

Robert J. M. Eveleigh et al.

GENOME BIOLOGY AND EVOLUTION (2013)

Article Evolutionary Biology

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

Gertraud Burger et al.

GENOME BIOLOGY AND EVOLUTION (2013)

Review Biochemistry & Molecular Biology

Why Are There So Many Diverse Replication Machineries?

Patrick Forterre

JOURNAL OF MOLECULAR BIOLOGY (2013)

Article Biochemistry & Molecular Biology

The effects of model choice and mitigating bias on the ribosomal tree of life

Erica Lasek-Nesselquist et al.

MOLECULAR PHYLOGENETICS AND EVOLUTION (2013)

Article Multidisciplinary Sciences

Insights into the phylogeny and coding potential of microbial dark matter

Christian Rinke et al.

NATURE (2013)

Review Multidisciplinary Sciences

An archaeal origin of eukaryotes supports only two primary domains of life

Tom A. Williams et al.

NATURE (2013)

Review Microbiology

The legacy of Carl Woese and Wolfram Zillig: from phylogeny to landmark discoveries

Sonja-Verena Albers et al.

NATURE REVIEWS MICROBIOLOGY (2013)

Article Biochemistry & Molecular Biology

In vitro biosynthesis of a universal t6A tRNA modification in Archaea and Eukarya

Ludovic Perrochia et al.

NUCLEIC ACIDS RESEARCH (2013)

Article Biochemistry & Molecular Biology

Functional assignment of KEOPS/EKC complex subunits in the biosynthesis of the universal t6A tRNA modification

Ludovic Perrochia et al.

NUCLEIC ACIDS RESEARCH (2013)

Article Biochemistry & Molecular Biology

Reconstitution and characterization of eukaryotic N6-threonylcarbamoylation of tRNA using a minimal enzyme system

Leo C. K. Wan et al.

NUCLEIC ACIDS RESEARCH (2013)

Review Microbiology

The Common Ancestor of Archaea and Eukarya Was Not an Archaeon

Patrick Forterre

ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL (2013)

Article Biochemistry & Molecular Biology

Biosynthesis of Threonylcarbamoyl Adenosine (t6A), a Universal tRNA Nucleoside

Christopher Deutsch et al.

JOURNAL OF BIOLOGICAL CHEMISTRY (2012)

Article Multidisciplinary Sciences

Phylogenomics of Prokaryotic Ribosomal Proteins

Natalya Yutin et al.

PLOS ONE (2012)

Review Immunology

Darwin's goldmine is still open: variation and selection run the world

Patrick Forterre

FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY (2012)

Article Biochemistry & Molecular Biology

Planctomycetes and eukaryotes: A case of analogy not homology

James O. McInerney et al.

BIOESSAYS (2011)

Review Microbiology

Phylogeny and evolution of the Archaea: one hundred genomes later

Celine Brochier-Armanet et al.

CURRENT OPINION IN MICROBIOLOGY (2011)

Article Biochemistry & Molecular Biology

Adaptation to Environmental Temperature Is a Major Determinant of Molecular Evolutionary Rates in Archaea

Mathieu Groussin et al.

MOLECULAR BIOLOGY AND EVOLUTION (2011)

Review Biochemistry & Molecular Biology

The archaeal 'TACK' superphylum and the origin of eukaryotes

Lionel Guy et al.

TRENDS IN MICROBIOLOGY (2011)

Article Biochemistry & Molecular Biology

The Genome of Naegleria gruberi Illuminates Early Eukaryotic Versatility

Lillian K. Fritz-Laylin et al.

Article Multidisciplinary Sciences

Large colonial organisms with coordinated growth in oxygenated environments 2.1 Gyr ago

Abderrazak El Albani et al.

NATURE (2010)

Article Multidisciplinary Sciences

The energetics of genome complexity

Nick Lane et al.

NATURE (2010)

Review Microbiology

Evolution of diverse cell division and vesicle formation systems in Archaea

Kira S. Makarova et al.

NATURE REVIEWS MICROBIOLOGY (2010)

Review Microbiology

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

Simonetta Gribaldo et al.

NATURE REVIEWS MICROBIOLOGY (2010)

Article Biochemistry & Molecular Biology

Two novel families of plasmids from hyperthermophilic archaea encoding new families of replication proteins

Nicolas Soler et al.

NUCLEIC ACIDS RESEARCH (2010)

Editorial Material Multidisciplinary Sciences

Bacteria with a eukaryotic touch: A glimpse of ancient evolution?

Patrick Forterre et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)

Review Biochemistry & Molecular Biology

Distinct gene set in two different lineages of ammonia-oxidizing archaea supports the phylum Thaumarchaeota

Anja Spang et al.

TRENDS IN MICROBIOLOGY (2010)

Article Biochemistry & Molecular Biology

Streamlining and Large Ancestral Genomes in Archaea Inferred with a Phylogenetic Birth-and-Death Model

Miklos Csuros et al.

MOLECULAR BIOLOGY AND EVOLUTION (2009)

Article Biochemistry & Molecular Biology

Phylogenomics of DNA topoisomerases: their origin and putative roles in the emergence of modern organisms

Patrick Forterre et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Multidisciplinary Sciences

On the chimeric nature, thermophilic origin, and phylogenetic placement of the Thermotogales

Olga Zhaxybayeva et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2009)

Article Microbiology

Phylogeny of prokaryotes: does it exist and why should we care?

Simonetta Gribaldo et al.

RESEARCH IN MICROBIOLOGY (2009)

Article Microbiology

Horizontal gene transfer and the earliest stages of the evolution of life

Anthony M. Poole

RESEARCH IN MICROBIOLOGY (2009)

Article Multidisciplinary Sciences

Parallel adaptations to high temperatures in the Archaean eon

Bastien Boussau et al.

NATURE (2008)

Review Microbiology

Mesophilic crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota

Celine Brochier-Armanet et al.

NATURE REVIEWS MICROBIOLOGY (2008)

Review Microbiology

Redefining viruses: lessons from Mimivirus

Didier Raoult et al.

NATURE REVIEWS MICROBIOLOGY (2008)

Article Multidisciplinary Sciences

The archaebacterial origin of eukaryotes

Cymon J. Cox et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2008)

Article Microbiology

Tracking microbial biodiversity through molecular and genomic ecology

Purificacion Lopez-Garcia et al.

RESEARCH IN MICROBIOLOGY (2008)

Article Biochemistry & Molecular Biology

Acquisition of a bacterial RumA-type tRNA(uracil-54, C5)-methyltransferase by Archaea through an ancient horizontal gene transfer

Jaunius Urbonavicius et al.

MOLECULAR MICROBIOLOGY (2008)

Review Microbiology

Inventing the dynamo machine: The evolution of the F-type and V-type ATPases

Armen Y. Mulkidjanian et al.

NATURE REVIEWS MICROBIOLOGY (2007)

Review Genetics & Heredity

Essay - The origin of eukaryotes: a reappraisal

Christian de Duve

NATURE REVIEWS GENETICS (2007)

Article Multidisciplinary Sciences

Lineages of acidophilic archaea revealed by community genomic analysis

Brett J. Baker et al.

SCIENCE (2006)

Review Multidisciplinary Sciences

Genomics and the irreducible nature of eukaryote cells

CG Kurland et al.

SCIENCE (2006)

Article Multidisciplinary Sciences

Three RNA cells for ribosomal lineages and three DNA viruses to replicate their genomes: A hypothesis for the origin of cellular domain

P Forterre

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2006)

Article Multidisciplinary Sciences

Toward automatic reconstruction of a highly resolved tree of life

FD Ciccarelli et al.

SCIENCE (2006)

Article Biochemistry & Molecular Biology

Structure of a bifunctional DNA primase-polymerase

G Lipps et al.

NATURE STRUCTURAL & MOLECULAR BIOLOGY (2004)

Article Multidisciplinary Sciences

The ring of life provides evidence for a genome fusion origin of eukaryotes

MC Rivera et al.

NATURE (2004)

Letter Biochemistry & Molecular Biology

The root of the eukaryote tree pinpointed

A Stechmann et al.

CURRENT BIOLOGY (2003)

Article Biochemical Research Methods

On the impossibility of reconstructing ancestral data and phylogenies

E Mossel

JOURNAL OF COMPUTATIONAL BIOLOGY (2003)

Review Microbiology

The origin of DNA genomes and DNA replication proteins

P Forterre

CURRENT OPINION IN MICROBIOLOGY (2002)

Article Multidisciplinary Sciences

Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus

W Martin et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)

Article Multidisciplinary Sciences

On the evolution of cells

CR Woese

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2002)

Review Ecology

Ancient phylogenetic relationships

S Gribaldo et al.

THEORETICAL POPULATION BIOLOGY (2002)

Article Multidisciplinary Sciences

Phylogeny - A non-hyperthermophilic ancestor for bacteria

C Brochier et al.

NATURE (2002)

Article Biochemistry & Molecular Biology

Archaeal phylogeny based on ribosomal proteins

O Matte-Tailliez et al.

MOLECULAR BIOLOGY AND EVOLUTION (2002)

Article Multidisciplinary Sciences

Interpreting the universal phylogenetic tree

CR Woese

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2000)

Article Multidisciplinary Sciences

Uprooting the tree of life

WF Doolittle

SCIENTIFIC AMERICAN (2000)