Candidate pathogenicity islands in the genome of ‘CandidatusRickettsiella isopodorum’, an intracellular bacterium infecting terrestrial isopod crustaceans

BlastKOALA and GhostKOALA: KEGG Tools for Functional Characterization of Genome and Metagenome Sequences

(2016) Minoru Kanehisa et al.   JOURNAL OF MOLECULAR BIOLOGY

MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets

(2016) Sudhir Kumar et al.   MOLECULAR BIOLOGY AND EVOLUTION

PHASTER: a better, faster version of the PHAST phage search tool

(2016) David Arndt et al.   NUCLEIC ACIDS RESEARCH

The High Diversity and Global Distribution of the Intracellular Bacterium Rickettsiella in the Polar Seabird Tick Ixodes uriae

(2015) Olivier Duron et al.   MICROBIAL ECOLOGY

Multiple Conserved Heteroplasmic Sites in tRNA Genes in the Mitochondrial Genomes of Terrestrial Isopods (Oniscidea)

(2015) Christopher H. Chandler et al.   G3-Genes Genomes Genetics

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

HGTector: an automated method facilitating genome-wide discovery of putative horizontal gene transfers

(2014) Qiyun Zhu et al.   BMC GENOMICS

Patterns of sequencing coverage bias revealed by ultra-deep sequencing of vertebrate mitochondria

(2014) Robert Ekblom et al.   BMC GENOMICS

A first Glimpse at the genome of the Baikalian amphipodEulimnogammarus verrucosus

(2014) Lorena Rivarola-Duarte et al.   JOURNAL OF EXPERIMENTAL ZOOLOGY PART B-MOLECULAR AND DEVELOPMENTAL EVOLUTION

Ultrastructural characterization and multilocus sequence analysis (MLSA) of ‘Candidatus Rickettsiella isopodorum’, a new lineage of intracellular bacteria infecting woodlice (Crustacea: Isopoda)

(2014) Regina G. Kleespies et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

Horizontal gene transfer of a bacterial insect toxin gene into the Epichloë fungal symbionts of grasses

(2014) Karen V. Ambrose et al.   Scientific Reports

Space-efficient and exact de Bruijn graph representation based on a Bloom filter

(2013) Rayan Chikhi et al.   Algorithms for Molecular Biology

Novel Rickettsiella Bacterium in the Leafhopper Orosius albicinctus (Hemiptera: Cicadellidae)

(2013) L. Iasur-Kruh et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Phenotypic Effect of “Candidatus Rickettsiella viridis,” a Facultative Symbiont of the Pea Aphid (Acyrthosiphon pisum), and Its Interaction with a Coexisting Symbiont

(2013) Tsutomu Tsuchida et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

QUAST: quality assessment tool for genome assemblies

(2013) Alexey Gurevich et al.   BIOINFORMATICS

Reconstructing mitochondrial genomes directly from genomic next-generation sequencing reads—a baiting and iterative mapping approach

(2013) Christoph Hahn et al.   NUCLEIC ACIDS RESEARCH

REAPR: a universal tool for genome assembly evaluation

(2013) Martin Hunt et al.   GENOME BIOLOGY

Blobology: exploring raw genome data for contaminants, symbionts and parasites using taxon-annotated GC-coverage plots

(2013) Sujai Kumar et al.   Frontiers in Genetics

Integrative Genomics Viewer (IGV): high-performance genomics data visualization and exploration

(2012) H. Thorvaldsdottir et al.   BRIEFINGS IN BIOINFORMATICS

Multilocus sequence analysis (MLSA) of ‘Rickettsiella costelytrae' and ‘Rickettsiella pyronotae’, intracellular bacterial entomopathogens from New Zealand

(2012) A. Leclerque et al.   JOURNAL OF APPLIED MICROBIOLOGY

Genome Sequence of Diplorickettsia massiliensis, an Emerging Ixodes ricinus-Associated Human Pathogen

(2012) M. J. Mathew et al.   JOURNAL OF BACTERIOLOGY

A Rickettsiella Bacterium from the Hard Tick, Ixodes woodi: Molecular Taxonomy Combining Multilocus Sequence Typing (MLST) with Significance Testing

(2012) Andreas Leclerque et al.   PLoS One

SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

(2012) Ruibang Luo et al.   GigaScience

Genetic and Electron-Microscopic Characterization of ‘Rickettsiella agriotidis’, a new Rickettsiella Pathotype Associated with Wireworm, Agriotes sp. (Coleoptera: Elateridae)

(2011) Andreas Leclerque et al.   CURRENT MICROBIOLOGY

Multilocus sequence typing (MLST) for the infra-generic taxonomic classification of entomopathogenic Rickettsiella bacteria

(2011) Andreas Leclerque et al.   FEMS MICROBIOLOGY LETTERS

Genetic and electron-microscopic characterization of Rickettsiella bacteria from the manuka beetle, Pyronota setosa (Coleoptera: Scarabaeidae)

(2011) Regina G. Kleespies et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega

(2011) F. Sievers et al.   Molecular Systems Biology

Integrative genomics viewer

(2011) James T Robinson et al.   NATURE BIOTECHNOLOGY

ISsaga is an ensemble of web-based methods for high throughput identification and semi-automatic annotation of insertion sequences in prokaryotic genomes

(2011) Alessandro M Varani et al.   GENOME BIOLOGY

Detecting genomic islands using bioinformatics approaches

(2010) Morgan G. I. Langille et al.   NATURE REVIEWS MICROBIOLOGY

A Novel Obligate Intracellular Gamma-Proteobacterium Associated with Ixodid Ticks, Diplorickettsia massiliensis, Gen. Nov., Sp. Nov

(2010) Oleg Mediannikov et al.   PLoS One

Symbiotic Bacterium Modifies Aphid Body Color

(2010) T. Tsuchida et al.   SCIENCE

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Whole genome-based assessment of the taxonomic position of the arthropod pathogenic bacterium Rickettsiella grylli

(2008) Andreas Leclerque   FEMS MICROBIOLOGY LETTERS

Type IV secretion system components as phylogenetic markers of entomopathogenic bacteria of the genusRickettsiella

(2008) Andreas Leclerque et al.   FEMS MICROBIOLOGY LETTERS

16S rRNA-, GroEL- and MucZ-based assessment of the taxonomic position of 'Rickettsiella melolonthae' and its implications for the organization of the genus Rickettsiella

(2008) A. Leclerque et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Genetic and electron-microscopic characterization of Rickettsiella tipulae, an intracellular bacterial pathogen of the crane fly, Tipula paludosa

(2008) Andreas Leclerque et al.   JOURNAL OF INVERTEBRATE PATHOLOGY

Toward an Online Repository of Standard Operating Procedures (SOPs) for (Meta)genomic Annotation

(2008) Samuel V. Angiuoli et al.   OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY