Taxonomic and functional heterogeneity of the gill microbiome in a symbiotic coastal mangrove lucinid species

Loving the poison: the methylcitrate cycle and bacterial pathogenesis

(2018) Stephen K. Dolan et al.   MICROBIOLOGY-SGM

Impact of Branched-Chain Amino Acid Catabolism on Fatty Acid and Alkene Biosynthesis in Micrococcus luteus

(2018) Maximilian J. Surger et al.   Frontiers in Microbiology

Symbiosis in the microbial world: from ecology to genome evolution

(2018) Jean-Baptiste Raina et al.   Biology Open

Cooperative Metabolism in a Three-Partner Insect-Bacterial Symbiosis Revealed by Metabolic Modeling

(2017) Nana Y. D. Ankrah et al.   JOURNAL OF BACTERIOLOGY

The genome analysis of Oleiphilus messinensis ME102 (DSM 13489 T ) reveals backgrounds of its obligate alkane-devouring marine lifestyle

(2017) Stepan V. Toshchakov et al.   Marine Genomics

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea

(2017) Robert M Bowers et al.   NATURE BIOTECHNOLOGY

Endozoicomonas genomes reveal functional adaptation and plasticity in bacterial strains symbiotically associated with diverse marine hosts

(2017) Matthew J. Neave et al.   Scientific Reports

Insights into Symbiont Population Structure among Three Vestimentiferan Tubeworm Host Species at Eastern Pacific Spreading Centers

(2016) Maëva Perez et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Diversity and function of prevalent symbiotic marine bacteria in the genus Endozoicomonas

(2016) Matthew J. Neave et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Reproductive periods of Lucina pectinata (BIVALVE; LUCINIDAE) in the Paranaguá Estuarine Complex, Paraná - Brazil

(2016) S. W. Christo et al.   BRAZILIAN JOURNAL OF BIOLOGY

Caribbean Spiny Lobster Fishery Is Underpinned by Trophic Subsidies from Chemosynthetic Primary Production

(2016) Nicholas D. Higgs et al.   CURRENT BIOLOGY

Metabolic and physiological interdependencies in the Bathymodiolus azoricus symbiosis

(2016) Ruby Ponnudurai et al.   ISME Journal

Differential specificity between closely related corals and abundant Endozoicomonas endosymbionts across global scales

(2016) Matthew J Neave et al.   ISME Journal

High-quality draft genome sequence of Sedimenticola selenatireducens strain AK4OH1T, a gammaproteobacterium isolated from estuarine sediment

(2016) Tiffany S. Louie et al.   Standards in Genomic Sciences

Pseudomonas fluorescens Filamentous Hemagglutinin, an Iron-Regulated Protein, Is an Important Virulence Factor that Modulates Bacterial Pathogenicity

(2016) Yuan-Yuan Sun et al.   Frontiers in Microbiology

Endozoicomonas Are Specific, Facultative Symbionts of Sea Squirts

(2016) Lars Schreiber et al.   Frontiers in Microbiology

Genomic Insight into the Host–Endosymbiont Relationship of Endozoicomonas montiporae CL-33T with its Coral Host

(2016) Jiun-Yan Ding et al.   Frontiers in Microbiology

Nitrogen fixation in a chemoautotrophic lucinid symbiosis

(2016) Sten König et al.   Nature Microbiology

Chemosynthetic symbionts of marine invertebrate animals are capable of nitrogen fixation

(2016) Jillian M. Petersen et al.   Nature Microbiology

Host/Microbe Interactions Revealed Through “Omics” in the Symbiosis Between the Hawaiian Bobtail Squid Euprymna scolopes and the Bioluminescent Bacterium Vibrio fischeri

(2016) Bethany A. Rader et al.   BIOLOGICAL BULLETIN

hybridSPAdes: an algorithm for hybrid assembly of short and long reads

(2015) Dmitry Antipov et al.   BIOINFORMATICS

BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs

(2015) Felipe A. Simão et al.   BIOINFORMATICS

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

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

Sedimenticola thiotaurini sp. nov., a sulfur-oxidizing bacterium isolated from salt marsh sediments, and emended descriptions of the genus Sedimenticola and Sedimenticola selenatireducens

(2015) Beverly E. Flood et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Heterogeneous composition of key metabolic gene clusters in a vent mussel symbiont population

(2015) Tetsuro Ikuta et al.   ISME Journal

Database resources of the National Center for Biotechnology Information

(2015)   NUCLEIC ACIDS RESEARCH

Environmental marine pathogen isolation using mesocosm culture of sharpsnout seabream: striking genomic and morphological features of novel Endozoicomonas sp.

(2015) Pantelis Katharios et al.   Scientific Reports

MetaBAT, an efficient tool for accurately reconstructing single genomes from complex microbial communities

(2015) Dongwan D. Kang et al.   PeerJ

The genome of the intracellular bacterium of the coastal bivalve, Solemya velum: a blueprint for thriving in and out of symbiosis

(2014) Oleg Dmytrenko et al.   BMC GENOMICS

UniProt: a hub for protein information

(2014)   NUCLEIC ACIDS RESEARCH

Microbial experimental evolution as a novel research approach in the Vibrionaceae and squid-Vibrio symbiosis

(2014) William Soto et al.   Frontiers in Microbiology

A novel agent (Endozoicomonas elysicola) responsible for epitheliocystis in cobia Rachycentrum canadum larvae

(2013) M Mendoza et al.   DISEASES OF AQUATIC ORGANISMS

Short-term dissolved oxygen patterns in sub-tropical mangroves

(2013) Jon M. Knight et al.   ESTUARINE COASTAL AND SHELF SCIENCE

Allying with armored snails: the complete genome of gammaproteobacterial endosymbiont

(2013) Satoshi Nakagawa et al.   ISME Journal

Endosymbiotic bacteria in the bivalve Loripes lacteus: Localization, characterization and aspects of symbiont regulation

(2013) Emmanuelle Pales Espinosa et al.   JOURNAL OF EXPERIMENTAL MARINE BIOLOGY AND ECOLOGY

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

CD-HIT: accelerated for clustering the next-generation sequencing data

(2012) Limin Fu et al.   BIOINFORMATICS

SortMeRNA: fast and accurate filtering of ribosomal RNAs in metatranscriptomic data

(2012) Evguenia Kopylova et al.   BIOINFORMATICS

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

(2012) Y. Peng et al.   BIOINFORMATICS

Bacterial diversity of siliciclastic sediments in a Thalassia testudinum meadow and the implications for Lucinisca nassula chemosymbiosis

(2012) Angela M. Green-García et al.   ESTUARINE COASTAL AND SHELF SCIENCE

Kistimonas scapharcae sp. nov., isolated from a dead ark clam (Scapharca broughtonii), and emended description of the genus Kistimonas

(2012) J. Lee et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Chlorobaculum tepidum TLS Displays a Complex Transcriptional Response to Sulfide Addition

(2012) Brian J. Eddie et al.   JOURNAL OF BACTERIOLOGY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

A Three-Stage Symbiosis Forms the Foundation of Seagrass Ecosystems

(2012) T. van der Heide et al.   SCIENCE

Past decade study of snake venom l-amino acid oxidase

(2012) Chunmei Guo et al.   TOXICON

Diversity of symbioses between chemosynthetic bacteria and metazoans at the Guiness cold seep site (Gulf of Guinea, West Africa)

(2012) Sébastien Duperron et al.   MicrobiologyOpen

Physiological homogeneity among the endosymbionts of Riftia pachyptila and Tevnia jerichonana revealed by proteogenomics

(2011) Antje Gardebrecht et al.   ISME Journal

Molecular Evolution of Mollusc Shell Proteins: Insights from Proteomic Analysis of the Edible Mussel Mytilus

(2011) Benjamin Marie et al.   JOURNAL OF MOLECULAR EVOLUTION

Full-length transcriptome assembly from RNA-Seq data without a reference genome

(2011) Manfred G Grabherr et al.   NATURE BIOTECHNOLOGY

Aphid genome expression reveals host-symbiont cooperation in the production of amino acids

(2011) A. K. Hansen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Status quo in physiological proteomics of the uncultured Riftia pachyptila endosymbiont

(2011) Stephanie Markert et al.   PROTEOMICS

Metatranscriptomic Analysis of Sulfur Oxidation Genes in the Endosymbiont of Solemya Velum

(2011) Frank J. Stewart et al.   Frontiers in Microbiology

Lucinidae/sulfur-oxidizing bacteria: ancestral heritage or opportunistic association? Further insights from the Bohol Sea (the Philippines)

(2010) Terry Brissac et al.   FEMS MICROBIOLOGY ECOLOGY

Intracellular Oceanospirillales bacteria inhabit gills of Acesta bivalves

(2010) Sigmund Jensen et al.   FEMS MICROBIOLOGY ECOLOGY

Branched-Chain Fatty Acids Promote Listeria monocytogenes Intracellular Infection and Virulence

(2010) Y. Sun et al.   INFECTION AND IMMUNITY

Complete genome sequence of Candidatus Ruthia magnifica

(2010) Guus Roeselers et al.   Standards in Genomic Sciences

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities

(2009) P. D. Schloss et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

RNA-Seq gene expression estimation with read mapping uncertainty

(2009) Bo Li et al.   BIOINFORMATICS

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Widespread occurrence of an intranuclear bacterial parasite in vent and seep bathymodiolin mussels

(2009) Frank U. Zielinski et al.   ENVIRONMENTAL MICROBIOLOGY

Kistimonas asteriae gen. nov., sp. nov., a gammaproteobacterium isolated from Asterias amurensis

(2009) E. J. Choi et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Ctenidial structure and three bacterial symbiont morphotypes in Anodontia (Euanodontia) ovum (Reeve, 1850) from the Great Barrier Reef, Australia (Bivalvia: Lucinidae)

(2009) A. D. Ball et al.   JOURNAL OF MOLLUSCAN STUDIES

The RAST Server: Rapid Annotations using Subsystems Technology

(2008) Ramy K Aziz et al.   BMC GENOMICS

Multiple bacterial symbionts in two species of co-occurring gutless oligochaete worms from Mediterranean sea grass sediments

(2008) Caroline Ruehland et al.   ENVIRONMENTAL MICROBIOLOGY

Lack of endosymbiont release by two Lucinidae (Bivalvia) of the genus Codakia: consequences for symbiotic relationships

(2008) Terry Brissac et al.   FEMS MICROBIOLOGY ECOLOGY

Symbiotic diversity in marine animals: the art of harnessing chemosynthesis

(2008) Nicole Dubilier et al.   NATURE REVIEWS MICROBIOLOGY