Bacterial DNA Sifted from the Trichoplax adhaerens (Animalia: Placozoa) Genome Project Reveals a Putative Rickettsial Endosymbiont

Novel Clade of Alphaproteobacterial Endosymbionts Associated with Stinkbugs and Other Arthropods

(2012) Yu Matsuura et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

An Evolutionary Network of Genes Present in the Eukaryote Common Ancestor Polls Genomes on Eukaryotic and Mitochondrial Origin

(2012) Thorsten Thiergart et al.   Genome Biology and Evolution

Revised Systematics of Holospora-Like Bacteria and Characterization of “Candidatus Gortzia infectiva”, a Novel Macronuclear Symbiont of Paramecium jenningsi

(2012) Vittorio Boscaro et al.   MICROBIAL ECOLOGY

A study on the presence of flagella in the order Rickettsiales: the case of 'Candidatus Midichloria mitochondrii'

(2012) M. Mariconti et al.   MICROBIOLOGY-SGM

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

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

Molecular Identification of Rickettsial Endosymbionts in the Non-Phagotrophic Volvocalean Green Algae

(2012) Kaoru Kawafune et al.   PLoS One

Adaptive horizontal transfer of a bacterial gene to an invasive insect pest of coffee

(2012) R. Acuna et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functional diversity within the simple gut microbiota of the honey bee

(2012) P. Engel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Ectobiotic and Endobiotic Bacteria Associated with Eutreptiella sp. Isolated from Long Island Sound

(2012) Rita C. Kuo et al.   PROTIST

Untangling Genomes from Metagenomes: Revealing an Uncultured Class of Marine Euryarchaeota

(2012) V. Iverson et al.   SCIENCE

Incorporating 16S Gene Copy Number Information Improves Estimates of Microbial Diversity and Abundance

(2012) Steven W. Kembel et al.   PLoS Computational Biology

Biochemical Diversification through Foreign Gene Expression in Bdelloid Rotifers

(2012) Chiara Boschetti et al.   PLoS Genetics

Comparative Genomics Suggests an Independent Origin of Cytoplasmic Incompatibility in Cardinium hertigii

(2012) Thomas Penz et al.   PLoS Genetics

Interactive metagenomic visualization in a Web browser

(2011) Brian D Ondov et al.   BMC BIOINFORMATICS

Pathogen-origin horizontally transferred genes contribute to the evolution of Lepidopteran insects

(2011) Zi-Wen Li et al.   BMC EVOLUTIONARY BIOLOGY

An Interdependent Metabolic Patchwork in the Nested Symbiosis of Mealybugs

(2011) John P. McCutcheon et al.   CURRENT BIOLOGY

16S rRNA Gene Sequence Analysis of Drinking Water Using RNA and DNA Extracts as Targets for Clone Library Development

(2011) Randy P. Revetta et al.   CURRENT MICROBIOLOGY

PATRIC: the Comprehensive Bacterial Bioinformatics Resource with a Focus on Human Pathogenic Species

(2011) Joseph J. Gillespie et al.   INFECTION AND IMMUNITY

The genome of the obligate endobacterium of an AM fungus reveals an interphylum network of nutritional interactions

(2011) Stefano Ghignone et al.   ISME Journal

A Rickettsia Genome Overrun by Mobile Genetic Elements Provides Insight into the Acquisition of Genes Characteristic of an Obligate Intracellular Lifestyle

(2011) J. J. Gillespie et al.   JOURNAL OF BACTERIOLOGY

Ultrastructural analyses support different morphological lineages in the phylum placozoa Grell, 1971

(2011) Loretta Guidi et al.   JOURNAL OF MORPHOLOGY

Phylogenomic Evidence for the Presence of a Flagellum and cbb3 Oxidase in the Free-Living Mitochondrial Ancestor

(2011) D. Sassera et al.   MOLECULAR BIOLOGY AND EVOLUTION

Independent Genome Reduction and Phylogenetic Reclassification of the Oceanic SAR11 Clade

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

The genome of Tetranychus urticae reveals herbivorous pest adaptations

(2011) Miodrag Grbić et al.   NATURE

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Reorganizing the protein space at the Universal Protein Resource (UniProt)

(2011)   NUCLEIC ACIDS RESEARCH

New Insights into Placozoan Sexual Reproduction and Development

(2011) Michael Eitel et al.   PLoS One

Phylogenomic Analysis of Odyssella thessalonicensis Fortifies the Common Origin of Rickettsiales, Pelagibacter ubique and Reclimonas americana Mitochondrion

(2011) Kalliopi Georgiades et al.   PLoS One

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

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

"Candidatus Anadelfobacter veles" and "Candidatus Cyrtobacter comes," Two New Rickettsiales Species Hosted by the Protist Ciliate Euplotes harpa (Ciliophora, Spirotrichea)

(2010) C. Vannini et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Wide Dispersal and Possible Multiple Origins of Low-Copy-Number Plasmids in Rickettsia Species Associated with Blood-Feeding Arthropods

(2010) G. D. Baldridge et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

DIVEIN: a web server to analyze phylogenies, sequence divergence, diversity, and informative sites

(2010) Wenjie Deng et al.   BIOTECHNIQUES

Phylogenomics Reveals a Diverse Rickettsiales Type IV Secretion System

(2010) J. J. Gillespie et al.   INFECTION AND IMMUNITY

The dynamic genome of Hydra

(2010) Jarrod A. Chapman et al.   NATURE

CDD: a Conserved Domain Database for the functional annotation of proteins

(2010) A. Marchler-Bauer et al.   NUCLEIC ACIDS RESEARCH

Threatened Corals Provide Underexplored Microbial Habitats

(2010) Shinichi Sunagawa et al.   PLoS One

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

(2010) Morgan N. Price et al.   PLoS One

Endosymbiont DNA in Endobacteria-Free Filarial Nematodes Indicates Ancient Horizontal Genetic Transfer

(2010) Samantha N. McNulty et al.   PLoS One

Functional and Evolutionary Insights from the Genomes of Three Parasitoid Nasonia Species

(2010) J. H. Werren et al.   SCIENCE

Bacterial Genes in the Aphid Genome: Absence of Functional Gene Transfer from Buchnera to Its Host

(2010) Naruo Nikoh et al.   PLoS Genetics

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

(2009) Nicolas Lartillot et al.   BIOINFORMATICS

Aphids acquired symbiotic genes via lateral gene transfer

(2009) Naruo Nikoh et al.   BMC BIOLOGY

Evolution of prokaryotic SPFH proteins

(2009) Markus Hinderhofer et al.   BMC EVOLUTIONARY BIOLOGY

New Findings from an Old Pathogen: Intraerythrocytic Bacteria (Family Anaplasmatacea) in Red-Backed Salamanders Plethodon cinereus

(2009) Andrew K. Davis et al.   EcoHealth

Circos: An information aesthetic for comparative genomics

(2009) M. Krzywinski et al.   GENOME RESEARCH

The Genome of the Amoeba Symbiont "Candidatus Amoebophilus asiaticus" Reveals Common Mechanisms for Host Cell Interaction among Amoeba-Associated Bacteria

(2009) S. Schmitz-Esser et al.   JOURNAL OF BACTERIOLOGY

Evolution of Mutation Rates: Phylogenomic Analysis of the Photolyase/Cryptochrome Family

(2009) J. I. Lucas-Lledo et al.   MOLECULAR BIOLOGY AND EVOLUTION

An Anomalous Type IV Secretion System in Rickettsia Is Evolutionarily Conserved

(2009) Joseph J. Gillespie et al.   PLoS One

Genome Analysis of the Anaerobic Thermohalophilic Bacterium Halothermothrix orenii

(2009) Konstantinos Mavromatis et al.   PLoS One

Genome Sequence of the Endosymbiont Rickettsia peacockii and Comparison with Virulent Rickettsia rickettsii: Identification of Virulence Factors

(2009) Roderick F. Felsheim et al.   PLoS One

Convergent evolution of metabolic roles in bacterial co-symbionts of insects

(2009) J. P. McCutcheon et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Longicorn beetle that vectors pinewood nematode carries many Wolbachia genes on an autosome

(2009) T. Aikawa et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Identification of bacterial populations in drinking water using 16S rRNA-based sequence analyses

(2009) Randy P. Revetta et al.   WATER RESEARCH

Concatenated Analysis Sheds Light on Early Metazoan Evolution and Fuels a Modern “Urmetazoon” Hypothesis

(2009) Bernd Schierwater et al.   PLOS BIOLOGY

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

A Mitochondrial Protein Compendium Elucidates Complex I Disease Biology

(2008) David J. Pagliarini et al.   CELL

Animal Evolution: Trichoplax, Trees, and Taxonomic Turmoil

(2008) David J. Miller et al.   CURRENT BIOLOGY

Comparative genomics of two ecotypes of the marine planktonic copiotroph Alteromonas macleodii suggests alternative lifestyles associated with different kinds of particulate organic matter

(2008) Elena Ivars-Martinez et al.   ISME Journal

Genome Sequence of the Wolbachia Endosymbiont of Culex quinquefasciatus JHB

(2008) S. L. Salzberg et al.   JOURNAL OF BACTERIOLOGY

Discovering Functional Novelty in Metagenomes: Examples from Light-Mediated Processes

(2008) A. H. Singh et al.   JOURNAL OF BACTERIOLOGY

The Trichoplax genome and the nature of placozoans

(2008) Mansi Srivastava et al.   NATURE

Rickettsia Phylogenomics: Unwinding the Intricacies of Obligate Intracellular Life

(2008) Joseph J. Gillespie et al.   PLoS One

Microbial community gene expression in ocean surface waters

(2008) J. Frias-Lopez et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Massive Horizontal Gene Transfer in Bdelloid Rotifers

(2008) E. A. Gladyshev et al.   SCIENCE

Graph Clustering Via a Discrete Uncoupling Process

(2008) Stijn Van Dongen   SIAM JOURNAL ON MATRIX ANALYSIS AND APPLICATIONS

A Rapid Bootstrap Algorithm for the RAxML Web Servers

(2008) Alexandros Stamatakis et al.   SYSTEMATIC BIOLOGY

Wolbachia genome integrated in an insect chromosome: Evolution and fate of laterally transferred endosymbiont genes

(2007) N. Nikoh et al.   GENOME RESEARCH