The Candidate Phylum Poribacteria by Single-Cell Genomics: New Insights into Phylogeny, Cell-Compartmentation, Eukaryote-Like Repeat Proteins, and Other Genomic Features

Exploring Symbioses by Single-Cell Genomics

(2016) Janine Kamke et al.   BIOLOGICAL BULLETIN

Signature Protein of the PVC Superphylum

(2013) Ilias Lagkouvardos et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Single-cell genomics reveals complex carbohydrate degradation patterns in poribacterial symbionts of marine sponges

(2013) Janine Kamke et al.   ISME Journal

Ankyrin-repeat proteins from sponge symbionts modulate amoebal phagocytosis

(2013) Mary T. H. D. Nguyen et al.   MOLECULAR ECOLOGY

Insights into the phylogeny and coding potential of microbial dark matter

(2013) Christian Rinke et al.   NATURE

Phylogeny of Bacterial and Archaeal Genomes Using Conserved Genes: Supertrees and Supermatrices

(2013) Jenna Morgan Lang et al.   PLoS One

Three-Dimensional Reconstruction of Bacteria with a Complex Endomembrane System

(2013) Rachel Santarella-Mellwig et al.   PLOS BIOLOGY

RAxML-Light: a tool for computing terabyte phylogenies

(2012) A. Stamatakis et al.   BIOINFORMATICS

SINA: Accurate high-throughput multiple sequence alignment of ribosomal RNA genes

(2012) Elmar Pruesse et al.   BIOINFORMATICS

Single cell genomics: an individual look at microbes

(2012) Ramunas Stepanauskas   CURRENT OPINION IN MICROBIOLOGY

Tetratricopeptide Repeat Motifs in the World of Bacterial Pathogens: Role in Virulence Mechanisms

(2012) Lukas Cerveny et al.   INFECTION AND IMMUNITY

‘Sponge-specific’ bacteria are widespread (but rare) in diverse marine environments

(2012) Michael W Taylor et al.   ISME Journal

Genomic insights into the marine sponge microbiome

(2012) Ute Hentschel et al.   NATURE REVIEWS MICROBIOLOGY

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

(2012) Christian Quast et al.   NUCLEIC ACIDS RESEARCH

Functional equivalence and evolutionary convergence in complex communities of microbial sponge symbionts

(2012) L. Fan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Using comparative genomics to uncover new kinds of protein-based metabolic organelles in bacteria

(2012) Julien Jorda et al.   PROTEIN SCIENCE

The genes and enzymes of phosphonate metabolism by bacteria, and their distribution in the marine environment

(2012) Juan F. Villarreal-Chiu   Frontiers in Microbiology

Molecular signatures for the PVC clade (Planctomycetes, Verrucomicrobia, Chlamydiae, and Lentisphaerae) of bacteria provide insights into their evolutionary relationships

(2012) Gupta   Frontiers in Microbiology

The protein shells of bacterial microcompartment organelles

(2011) Todd O Yeates et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Assessing the complex sponge microbiota: core, variable and species-specific bacterial communities in marine sponges

(2011) Susanne Schmitt et al.   ISME Journal

HMMER web server: interactive sequence similarity searching

(2011) R. D. Finn et al.   NUCLEIC ACIDS RESEARCH

The Complete Genome Sequence of Fibrobacter succinogenes S85 Reveals a Cellulolytic and Metabolic Specialist

(2011) Garret Suen et al.   PLoS One

Bacterial Microcompartment Organelles: Protein Shell Structure and Evolution

(2010) Todd O. Yeates et al.   Annual Review of Biophysics

Bacterial Microcompartments

(2010) Cheryl A. Kerfeld et al.   Annual Review of Microbiology

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Functional genomic analysis of an uncultured δ-proteobacterium in the sponge Cymbastela concentrica

(2010) Michael Yizhe Liu et al.   ISME Journal

Functional genomic signatures of sponge bacteria reveal unique and shared features of symbiosis

(2010) Torsten Thomas et al.   ISME Journal

Single-cell genomics reveals the lifestyle of Poribacteria, a candidate phylum symbiotically associated with marine sponges

(2010) Alexander Siegl et al.   ISME Journal

FastTree 2 – Approximately Maximum-Likelihood Trees for Large Alignments

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

Synthesis of 5-Hydroxyectoine from Ectoine: Crystal Structure of the Non-Heme Iron(II) and 2-Oxoglutarate-Dependent Dioxygenase EctD

(2010) Klaus Reuter et al.   PLoS One

The Compartmentalized Bacteria of the Planctomycetes-Verrucomicrobia-Chlamydiae Superphylum Have Membrane Coat-Like Proteins

(2010) Rachel Santarella-Mellwig et al.   PLOS BIOLOGY

Widespread Distribution of Poribacteria in Demospongiae

(2009) F. F. Lafi et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Identification and characterization of new LuxR/LuxI-type quorum sensing systems from metagenomic libraries

(2009) Youai Hao et al.   ENVIRONMENTAL MICROBIOLOGY

Widespread known and novel phosphonate utilization pathways in marine bacteria revealed by functional screening and metagenomic analyses

(2009) Asuncion Martinez et al.   ENVIRONMENTAL MICROBIOLOGY

A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea

(2009) Dongying Wu et al.   NATURE

A microbial source of phosphonates in oligotrophic marine systems

(2009) Sonya T. Dyhrman et al.   Nature Geoscience

A protein secretion system linked to bacteroidete gliding motility and pathogenesis

(2009) K. Sato et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

PKS and NRPS gene clusters from microbial symbiont cells of marine sponges by whole genome amplification

(2009) Alexander Siegl et al.   Environmental Microbiology Reports

Molecular Microbial Diversity Survey of Sponge Reproductive Stages and Mechanistic Insights into Vertical Transmission of Microbial Symbionts

(2008) S. Schmitt et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Phylogenetic analyses of ribosomal DNA-containing bacterioplankton genome fragments from a 4000 m vertical profile in the North Pacific Subtropical Gyre

(2008) Vinh D. Pham et al.   ENVIRONMENTAL MICROBIOLOGY