Functional genomics of a Spiroplasma associated with the carmine cochineals Dactylopius coccus and Dactylopius opuntiae

Cultivable, Host-Specific Bacteroidetes Symbionts Exhibit Diverse Polysaccharolytic Strategies

(2020) Arturo Vera-Ponce de León et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Blind killing of both male and female Drosophila embryos by a natural variant of the endosymbiotic bacterium Spiroplasma poulsonii

(2020) Florent Masson et al.   CELLULAR MICROBIOLOGY

IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era

(2020) Bui Quang Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Whole-chromosome hitchhiking driven by a male-killing endosymbiont

(2020) Simon H. Martin et al.   PLOS BIOLOGY

Functional analysis of RIP toxins from the Drosophila endosymbiont Spiroplasma poulsonii

(2019) Mario Gonzalo Garcia-Arraez et al.   BMC MICROBIOLOGY

The hemolymph microbiome of insects

(2019) Frances Blow et al.   JOURNAL OF INSECT PHYSIOLOGY

Phylogenetics of the Spiroplasma ixodetis endosymbiont reveals past transfers between ticks and other arthropods

(2019) Florian Binetruy et al.   Ticks and Tick-Borne Diseases

Genome-resolved insights into a novel Spiroplasma symbiont of the Wheat Stem Sawfly (Cephus cinctus)

(2019) Carl J. Yeoman et al.   PeerJ

dbCAN2: a meta server for automated carbohydrate-active enzyme annotation

(2018) Han Zhang et al.   NUCLEIC ACIDS RESEARCH

In Vitro Culture of the Insect Endosymbiont Spiroplasma poulsonii Highlights Bacterial Genes Involved in Host-Symbiont Interaction

(2018) Florent Masson et al.   mBio

Dissecting the Acid Stress Response of Rhizobium tropici CIAT 899

(2018) Julio Guerrero-Castro et al.   Frontiers in Microbiology

Convergent Evolution among Ruminant-Pathogenic Mycoplasma Involved Extensive Gene Content Changes

(2018) Wen-Sui Lo et al.   Genome Biology and Evolution

Male-killing toxin in a bacterial symbiont of Drosophila

(2018) Toshiyuki Harumoto et al.   NATURE

The defensive Spiroplasma

(2018) Matthew J Ballinger et al.   Current Opinion in Insect Science

Mi Casa es Su Casa: how an intracellular symbiont manipulates host biology

(2017) Tamanash Bhattacharya et al.   ENVIRONMENTAL MICROBIOLOGY

Candidatus Dactylopiibacterium carminicum, a Nitrogen-Fixing Symbiont of Dactylopius Cochineal Insects (Hemiptera: Coccoidea: Dactylopiidae)

(2017) Arturo Vera-Ponce de León et al.   Genome Biology and Evolution

Horizontal Acquisition and Transcriptional Integration of Novel Genes in Mosquito-Associated Spiroplasma

(2017) Wen-Sui Lo et al.   Genome Biology and Evolution

Large-Scale Identification of Wolbachia pipientis Effectors

(2017) Danny W. Rice et al.   Genome Biology and Evolution

ModelFinder: fast model selection for accurate phylogenetic estimates

(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

Symbiont Acquisition and Replacement as a Source of Ecological Innovation

(2017) Sailendharan Sudakaran et al.   TRENDS IN MICROBIOLOGY

Generality of toxins in defensive symbiosis: Ribosome-inactivating proteins and defense against parasitic wasps in Drosophila

(2017) Matthew J. Ballinger et al.   PLoS Pathogens

Differential expression of Spiroplasma citri surface protein genes in the plant and insect hosts

(2016) Marie-Pierre Dubrana et al.   BMC MICROBIOLOGY

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

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

NCBI prokaryotic genome annotation pipeline

(2016) Tatiana Tatusova et al.   NUCLEIC ACIDS RESEARCH

Independent origins of resistance or susceptibility of parasitic wasps to a defensive symbiont

(2016) Mariana Mateos et al.   Ecology and Evolution

Genomes of Candidatus Wolbachia Bourtzisii wDacA and Candidatus Wolbachia Pipientis wDacB from the Cochineal Insect Dactylopius coccus (Hemiptera: Dactylopiidae)

(2016) S. T. Ramirez-Puebla et al.   G3-Genes Genomes Genetics

Fungal Community Associated with Dactylopius (Hemiptera: Coccoidea: Dactylopiidae) and Its Role in Uric Acid Metabolism

(2016) Arturo Vera-Ponce de León et al.   Frontiers in Microbiology

Identification of protein secretion systems in bacterial genomes

(2016) Sophie S. Abby et al.   Scientific Reports

Spiroplasma – an emerging arthropod-borne pathogen?

(2015) Ewa Cisak et al.   ANNALS OF AGRICULTURAL AND ENVIRONMENTAL MEDICINE

Range Wide Phylogeography of Dactylopius coccus (Hemiptera: Dactylopiidae)

(2015) A. R. Van Dam et al.   ANNALS OF THE ENTOMOLOGICAL SOCIETY OF AMERICA

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

(2015) Donovan H. Parks et al.   GENOME RESEARCH

metaxa2: improved identification and taxonomic classification of small and large subunit rRNA in metagenomic data

(2015) Johan Bengtsson-Palme et al.   Molecular Ecology Resources

A ribosome-inactivating protein in aDrosophiladefensive symbiont

(2015) Phineas T. Hamilton et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Species in Wolbachia? Proposal for the designation of ‘Candidatus Wolbachia bourtzisii’, ‘Candidatus Wolbachia onchocercicola’, ‘Candidatus Wolbachia blaxteri’, ‘Candidatus Wolbachia brugii’, ‘Candidatus Wolbachia taylori’, ‘Candidatus Wolbachia collembolicola’ and ‘Candidatus Wolbachia multihospitum’ for the different species within Wolbachia supergroups

(2015) Shamayim T. Ramírez-Puebla et al.   SYSTEMATIC AND APPLIED MICROBIOLOGY

Genome Sequence of the Drosophila melanogaster Male-Killing Spiroplasma Strain MSRO Endosymbiont

(2015) Juan C. Paredes et al.   mBio

America's red gold: multiple lineages of cultivated cochineal in Mexico

(2015) Michael G. Campana et al.   Ecology and Evolution

Secretion systems and signal exchange between nitrogen-fixing rhizobia and legumes

(2015) Matthew S. Nelson et al.   Frontiers in Plant Science

Prokka: rapid prokaryotic genome annotation

(2014) T. Seemann   BIOINFORMATICS

Invasion of insect cells bySpiroplasma citriinvolves spiralin relocalization and lectin/glycoconjugate-type interactions

(2014) Sybille Duret et al.   CELLULAR MICROBIOLOGY

Molecular Evolution of the Substrate Utilization Strategies and Putative Virulence Factors in Mosquito-Associated Spiroplasma Species

(2014) Tean-Hsu Chang et al.   Genome Biology and Evolution

Tackling soil diversity with the assembly of large, complex metagenomes

(2014) Adina Chuang Howe et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The oxidative environment: a mediator of interspecies communication that drives symbiosis evolution

(2014) Y. Mone et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

GET_HOMOLOGUES, a Versatile Software Package for Scalable and Robust Microbial Pangenome Analysis

(2013) Bruno Contreras-Moreira et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Comparative genome analysis of Spiroplasma melliferum IPMB4A, a honeybee-associated bacterium

(2013) Wen-Sui Lo et al.   BMC GENOMICS

Complete Genomes of Two Dipteran-Associated Spiroplasmas Provided Insights into the Origin, Dynamics, and Impacts of Viral Invasion in Spiroplasma

(2013) Chuan Ku et al.   Genome Biology and Evolution

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

De novo transcript sequence reconstruction from RNA-seq using the Trinity platform for reference generation and analysis

(2013) Brian J Haas et al.   Nature Protocols

Vertical Transmission of a Drosophila Endosymbiont Via Cooption of the Yolk Transport and Internalization Machinery

(2013) J. K. Herren et al.   mBio

IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth

(2012) Y. Peng et al.   BIOINFORMATICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

Virulence of Mycobacterium tuberculosis Depends on Lipoamide Dehydrogenase, a Member of Three Multienzyme Complexes

(2011) Aditya Venugopal et al.   Cell Host & Microbe

Qualitative HPLC determination of main anthraquinone and lake pigment contents from Dactylopius coccus dye insect

(2011) O. Deveoglu et al.   CHEMISTRY OF NATURAL COMPOUNDS

Involvement of a Minimal Actin-Binding Region of Spiroplasma citri Phosphoglycerate Kinase in Spiroplasma Transmission by Its Leafhopper Vector

(2011) Fabien Labroussaa et al.   PLoS One

Bees brought to their knees: microbes affecting honey bee health

(2011) Jay D. Evans et al.   TRENDS IN MICROBIOLOGY

Accelerated Profile HMM Searches

(2011) Sean R. Eddy   PLoS Computational Biology

The Repertoire of ICE in Prokaryotes Underscores the Unity, Diversity, and Ubiquity of Conjugation

(2011) Julien Guglielmini et al.   PLoS Genetics

Entry of Spiroplasma citri into Circulifer haematoceps Cells Involves Interaction between Spiroplasma Phosphoglycerate Kinase and Leafhopper Actin

(2010) F. Labroussaa et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Scaffolding pre-assembled contigs using SSPACE

(2010) Marten Boetzer et al.   BIOINFORMATICS

Spiroplasmas and phytoplasmas: Microbes associated with plant hosts

(2010) Gail E. Gasparich   BIOLOGICALS

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Molecular Phylogeny of the Genus Dactylopius (Hemiptera: Dactylopiidae) and Identification of the Symbiotic Bacteria

(2010) S. T. Ramírez-Puebla et al.   ENVIRONMENTAL ENTOMOLOGY

H-NOX-mediated nitric oxide sensing modulates symbiotic colonization by Vibrio fischeri

(2010) Y. Wang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Adaptation via Symbiosis: Recent Spread of a Drosophila Defensive Symbiont

(2010) J. Jaenike et al.   SCIENCE

The Opuntia (Cactaceae) and Dactylopius (Hemiptera: Dactylopiidae) in Mexico: a historical perspective of use, interaction and distribution

(2009) C. K. Chávez-Moreno et al.   BIODIVERSITY AND CONSERVATION

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Structural basis for ADP-mediated transcriptional regulation by P1 and P7 ParA

(2009) Thomas D Dunham et al.   EMBO JOURNAL

Variable Incidence of Spiroplasma Infections in Natural Populations of Drosophila Species

(2009) Thomas Watts et al.   PLoS One

Functional diversity of ankyrin repeats in microbial proteins

(2009) Souhaila Al-Khodor et al.   TRENDS IN MICROBIOLOGY

The abundant extrachromosomal DNA content of the Spiroplasma citri GII3-3X genome

(2008) Colette Saillard et al.   BMC GENOMICS

Genetic and Functional Characterization of the Type IV Secretion System in Wolbachia

(2008) E. Rances et al.   JOURNAL OF BACTERIOLOGY

The Endosymbiont Wolbachia pipientis Induces the Expression of Host Antioxidant Proteins in an Aedes albopictus Cell Line

(2008) Lesley J. Brennan et al.   PLoS One