Ancient horizontal gene transfer and the last common ancestors

AliGROOVE – visualization of heterogeneous sequence divergence within multiple sequence alignments and detection of inflated branch support

(2014) Patrick Kück et al.   BMC BIOINFORMATICS

Coexistence of bacterial leucyl-tRNA synthetases with archaeal tRNA binding domains that distinguish tRNALeu in the archaeal mode

(2014) Zhi-Peng Fang et al.   NUCLEIC ACIDS RESEARCH

Methanogenic burst in the end-Permian carbon cycle

(2014) D. H. Rothman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenomic Data Support a Seventh Order of Methylotrophic Methanogens and Provide Insights into the Evolution of Methanogenesis

(2013) Guillaume Borrel et al.   Genome Biology and Evolution

Evidence for the Existence of Elaborate Enzyme Complexes in the Paleoarchean Era

(2013) Bernd Reisinger et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

GenBank

(2013) Dennis A. Benson et al.   NUCLEIC ACIDS RESEARCH

Lateral Gene Transfer from the Dead

(2013) Gergely J. Szöllősi et al.   SYSTEMATIC BIOLOGY

Accounting For Alignment Uncertainty in Phylogenomics

(2012) Martin Wu et al.   PLoS One

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

(2011) Diego Darriba et al.   BIOINFORMATICS

The struggle for life of the genome's selfish architects

(2011) Aurélie Hua-Van et al.   Biology Direct

Biased gene transfer and its implications for the concept of lineage

(2011) Cheryl P Andam et al.   Biology Direct

Home and away- the evolutionary dynamics of homing endonucleases

(2011) Adi Barzel et al.   BMC EVOLUTIONARY BIOLOGY

Gene Capture by Helitron Transposons Reshuffles the Transcriptome of Maize

(2011) A. M. Barbaglia et al.   GENETICS

Association between translation efficiency and horizontal gene transfer within microbial communities

(2011) Tamir Tuller et al.   NUCLEIC ACIDS RESEARCH

A Methylaspartate Cycle in Haloarchaea

(2011) M. Khomyakova et al.   SCIENCE

Horizontal Transfer, Not Duplication, Drives the Expansion of Protein Families in Prokaryotes

(2011) Todd J. Treangen et al.   PLoS Genetics

Non-homologous isofunctional enzymes: A systematic analysis of alternative solutions in enzyme evolution

(2010) Marina V Omelchenko et al.   Biology Direct

Parametric and non-parametric masking of randomness in sequence alignments can be improved and leads to better resolved trees

(2010) Patrick Kück et al.   Frontiers in Zoology

Pervasive Horizontal Transfer of Rolling-Circle Transposons among Animals

(2010) Jainy Thomas et al.   Genome Biology and Evolution

Rooting the Ribosomal Tree of Life

(2010) G. P. Fournier et al.   MOLECULAR BIOLOGY AND EVOLUTION

GUIDANCE: a web server for assessing alignment confidence scores

(2010) O. Penn et al.   NUCLEIC ACIDS RESEARCH

Biased gene transfer mimics patterns created through shared ancestry

(2010) C. P. Andam et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multiple lateral gene transfers and duplications have promoted plant parasitism ability in nematodes

(2010) Etienne G. J. Danchin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolution of Genes and Organisms

(2009) Lorraine Olendzenski et al.   Annals of the New York Academy of Sciences

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

(2009) Nicolas Lartillot et al.   BIOINFORMATICS

Molecular domestication of transposable elements: From detrimental parasites to useful host genes

(2009) L. Sinzelle et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Deciphering synonymous codons in the three domains of life: Co-evolution with specific tRNA modification enzymes

(2009) Henri Grosjean et al.   FEBS LETTERS

Horizontal gene transfer from extinct and extant lineages: biological innovation and the coral of life

(2009) G. P. Fournier et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Accounting for horizontal gene transfers explains conflicting hypotheses regarding the position of aquificales in the phylogeny of Bacteria

(2008) Bastien Boussau et al.   BMC EVOLUTIONARY BIOLOGY

An Improved General Amino Acid Replacement Matrix

(2008) S. Q. Le et al.   MOLECULAR BIOLOGY AND EVOLUTION

Development of tRNA synthetases and connection to genetic code and disease

(2008) Paul Schimmel   PROTEIN SCIENCE