Population Genomics of Infectious and IntegratedWolbachia pipientisGenomes inDrosophila ananassae

Drosophila Muller F Elements Maintain a Distinct Set of Genomic Properties Over 40 Million Years of Evolution

(2015) Wilson Leung et al.   G3-Genes Genomes Genetics

Mutualism Breakdown by Amplification of Wolbachia Genes

(2015) Ewa Chrostek et al.   PLOS BIOLOGY

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Extensive duplication of the Wolbachia DNA in chromosome four of Drosophila ananassae

(2014) Lisa Klasson et al.   BMC GENOMICS

The Coevolutionary Period of Wolbachia pipientis Infecting Drosophila ananassae and Its Impact on the Evolution of the Host Germline Stem Cell Regulating Genes

(2014) J. Y. Choi et al.   MOLECULAR BIOLOGY AND EVOLUTION

Parallel Histories of Horizontal Gene Transfer Facilitated Extreme Reduction of Endosymbiont Genomes in Sap-Feeding Insects

(2014) Daniel B. Sloan et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolutionary origin of insect-Wolbachia nutritional mutualism

(2014) N. Nikoh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genome Sequence of the Tsetse Fly (Glossina morsitans): Vector of African Trypanosomiasis

(2014) et al.   SCIENCE

LUMPY: a probabilistic framework for structural variant discovery

(2014) Ryan M Layer et al.   GENOME BIOLOGY

New Gene Evolution: Little Did We Know

(2013) Manyuan Long et al.   Annual Review of Genetics

Extensively duplicated and transcriptionally active recent lateral gene transfer from a bacterial Wolbachia endosymbiont to its host filarial nematode Brugia malayi

(2013) Panagiotis Ioannidis et al.   BMC GENOMICS

Horizontal Gene Transfer from Diverse Bacteria to an Insect Genome Enables a Tripartite Nested Mealybug Symbiosis

(2013) Filip Husnik et al.   CELL

Genomic Evolution of the Pathogenic Wolbachia Strain, wMelPop

(2013) Megan Woolfit et al.   Genome Biology and Evolution

Monophyly ofWolbachia pipientisgenomes withinDrosophila melanogaster: geographic structuring, titre variation and host effects across five populations

(2013) Angela M. Early et al.   MOLECULAR ECOLOGY

Wolbachia Variants Induce Differential Protection to Viruses in Drosophila melanogaster: A Phenotypic and Phylogenomic Analysis

(2013) Ewa Chrostek et al.   PLoS Genetics

Antiviral Protection and the Importance of Wolbachia Density and Tissue Tropism in Drosophila simulans

(2012) Sheree E. Osborne et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Detection and characterization of Wolbachia infections in laboratory and natural populations of different species of tsetse flies (genus Glossina)

(2012) Vangelis Doudoumis et al.   BMC MICROBIOLOGY

A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff

(2012) Pablo Cingolani et al.   FLY

Primer3—new capabilities and interfaces

(2012) Andreas Untergasser et al.   NUCLEIC ACIDS RESEARCH

Population Genomics of the Wolbachia Endosymbiont in Drosophila melanogaster

(2012) Mark F. Richardson et al.   PLoS Genetics

CNVnator: An approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing

(2011) A. Abyzov et al.   GENOME RESEARCH

A feedback loop between Wolbachia and the Drosophila gurken mRNP complex influences Wolbachia titer

(2011) Laura R. Serbus et al.   JOURNAL OF CELL SCIENCE

Horizontal gene transfer between bacteria and animals

(2011) Julie C. Dunning Hotopp   TRENDS IN GENETICS

phytools: an R package for phylogenetic comparative biology (and other things)

(2011) Liam J. Revell   Methods in Ecology and Evolution

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

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

(2010) J. H. Werren et al.   SCIENCE

The Wolbachia endosymbiont as an anti-filarial nematode target

(2010) Barton E. Slatko et al.   SYMBIOSIS

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

(2010) Stéphane Guindon et al.   SYSTEMATIC BIOLOGY

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

(2010) Naruo Nikoh et al.   PLoS Genetics

Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads

(2009) K. Ye et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Horizontal gene transfer between Wolbachia and the mosquito Aedes aegypti

(2009) Lisa Klasson et al.   BMC GENOMICS

Comparative Genomics of Drosophila mtDNA: Novel Features of Conservation and Change Across Functional Domains and Lineages

(2009) Kristi L. Montooth et al.   JOURNAL OF MOLECULAR EVOLUTION

The mosaic genome structure of the Wolbachia wRi strain infecting Drosophila simulans

(2009) L. Klasson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Wolbachia as a bacteriocyte-associated nutritional mutualist

(2009) T. Hosokawa 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

Wolbachia as populations within individual insects: causes and consequences of density variation in natural populations

(2009) R. L. Unckless et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The Genetics and Cell Biology ofWolbachia-Host Interactions

(2008) Laura R. Serbus et al.   Annual Review of Genetics

Chromosomal Rearrangement Inferred From Comparisons of 12 Drosophila Genomes

(2008) A. Bhutkar et al.   GENETICS

Polytene Chromosomal Maps of 11 Drosophila Species: The Order of Genomic Scaffolds Inferred From Genetic and Physical Maps

(2008) S. W. Schaeffer et al.   GENETICS

An Ancient Horizontal Gene Transfer between Mosquito and the Endosymbiotic Bacterium Wolbachia pipientis

(2008) Megan Woolfit et al.   MOLECULAR BIOLOGY AND EVOLUTION

Horizontal gene transfer in eukaryotic evolution

(2008) Patrick J. Keeling et al.   NATURE REVIEWS GENETICS

Wolbachia: master manipulators of invertebrate biology

(2008) John H. Werren et al.   NATURE REVIEWS MICROBIOLOGY

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

(2007) N. Nikoh et al.   GENOME RESEARCH