Evolutionary origin of a streamlined marine bacterioplankton lineage

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

‘Geoarchaeote NAG1’ is a deeply rooting lineage of the archaeal order Thermoproteales rather than a new phylum

(2014) Lionel Guy et al.   ISME Journal

Implications of streamlining theory for microbial ecology

(2014) Stephen J Giovannoni et al.   ISME Journal

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

(2014) Hemalatha Golaconda Ramulu et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

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

(2013) Erica Lasek-Nesselquist et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

New rRNA Gene-Based Phylogenies of the Alphaproteobacteria Provide Perspective on Major Groups, Mitochondrial Ancestry and Phylogenetic Instability

(2013) Matteo P. Ferla et al.   PLoS One

Comparative and Phylogenomic Evidence That the Alphaproteobacterium HIMB59 Is Not a Member of the Oceanic SAR11 Clade

(2013) Johan Viklund et al.   PLoS One

Prevalent genome streamlining and latitudinal divergence of planktonic bacteria in the surface ocean

(2013) B. K. Swan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

PhyloBayes MPI: Phylogenetic Reconstruction with Infinite Mixtures of Profiles in a Parallel Environment

(2013) Nicolas Lartillot et al.   SYSTEMATIC BIOLOGY

Evolution of Divergent Life History Strategies in Marine Alphaproteobacteria

(2013) H. Luo et al.   mBio

Magnetococcus marinus gen. nov., sp. nov., a marine, magnetotactic bacterium that represents a novel lineage (Magnetococcaceae fam. nov., Magnetococcales ord. nov.) at the base of the Alphaproteobacteria

(2012) D. A. Bazylinski et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

PartitionFinder: Combined Selection of Partitioning Schemes and Substitution Models for Phylogenetic Analyses

(2012) R. Lanfear et al.   MOLECULAR BIOLOGY AND EVOLUTION

The SAR11 Group of Alpha-Proteobacteria Is Not Related to the Origin of Mitochondria

(2012) Naiara Rodríguez-Ezpeleta et al.   PLoS One

Streamlining and Core Genome Conservation among Highly Divergent Members of the SAR11 Clade

(2012) J. Grote et al.   mBio

Draft genome sequence of strain HIMB100, a cultured representative of the SAR116 clade of marine Alphaproteobacteria

(2012) Jana Grote et al.   Standards in Genomic Sciences

Genome content of uncultivated marine Roseobacters in the surface ocean

(2011) Haiwei Luo et al.   ENVIRONMENTAL MICROBIOLOGY

Genomic insights to SAR86, an abundant and uncultivated marine bacterial lineage

(2011) Chris L Dupont et al.   ISME Journal

Independent Genome Reduction and Phylogenetic Reclassification of the Oceanic SAR11 Clade

(2011) J. Viklund et al.   MOLECULAR BIOLOGY AND EVOLUTION

Genome Reduction by Deletion of Paralogs in the Marine Cyanobacterium Prochlorococcus

(2011) H. Luo 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

Count: evolutionary analysis of phylogenetic profiles with parsimony and likelihood

(2010) M. Csuos   BIOINFORMATICS

Genome characteristics of a generalist marine bacterial lineage

(2010) Ryan J Newton et al.   ISME Journal

Compositional Heterogeneity and Phylogenomic Inference of Metazoan Relationships

(2010) M. P. Nesnidal et al.   MOLECULAR BIOLOGY AND EVOLUTION

Rooting the Ribosomal Tree of Life

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

Genomic and functional adaptation in surface ocean planktonic prokaryotes

(2010) Shibu Yooseph et al.   NATURE

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

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

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

(2009) M. Csuros et al.   MOLECULAR BIOLOGY AND EVOLUTION

The primary divisions of life: a phylogenomic approach employing composition-heterogeneous methods

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

The genomic basis of trophic strategy in marine bacteria

(2009) F. M. Lauro et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nonstationary Evolution and Compositional Heterogeneity in Beetle Mitochondrial Phylogenomics

(2009) Nathan C. Sheffield et al.   SYSTEMATIC BIOLOGY

The small genome of an abundant coastal ocean methylotroph

(2008) Stephen J. Giovannoni et al.   ENVIRONMENTAL MICROBIOLOGY

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

(2008) Céline Brochier-Armanet et al.   NATURE REVIEWS MICROBIOLOGY

The archaebacterial origin of eukaryotes

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

Lateral gene transfer challenges principles of microbial systematics

(2008) Eric Bapteste et al.   TRENDS IN MICROBIOLOGY