The Cyanobacteria-Dominated Sponge Dactylospongia elegans in the South China Sea: Prokaryotic Community and Metagenomic Insights

Genome Reduction and Microbe-Host Interactions Drive Adaptation of a Sulfur-Oxidizing Bacterium Associated with a Cold Seep Sponge

(2017) Ren-Mao Tian et al.   mSystems

The deep-sea glass sponge L ophophysema eversa harbours potential symbionts responsible for the nutrient conversions of carbon, nitrogen and sulfur

(2016) Ren-Mao Tian et al.   ENVIRONMENTAL MICROBIOLOGY

Dysiherbols A–C and Dysideanone E, Cytotoxic and NF-κB Inhibitory Tetracyclic Meroterpenes from a Dysidea sp. Marine Sponge

(2016) Wei-Hua Jiao et al.   JOURNAL OF NATURAL PRODUCTS

Functional gene-based discovery of phenazines from the actinobacteria associated with marine sponges in the South China Sea

(2015) Valliappan Karuppiah et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Lifestyle Evolution in Cyanobacterial Symbionts of Sponges

(2015) Ilia Burgsdorf et al.   mBio

Actinomycetes from the South China Sea sponges: isolation, diversity, and potential for aromatic polyketides discovery

(2015) Wei Sun et al.   Frontiers in Microbiology

Biogeographic variation in the microbiome of the ecologically important sponge,Carteriospongia foliascens

(2015) Heidi M. Luter et al.   PeerJ

Diversity and genomic insights into the unculturedChloroflexifrom the human microbiota

(2014) Alisha G. Campbell et al.   ENVIRONMENTAL MICROBIOLOGY

Pyrosequencing Reveals the Microbial Communities in the Red Sea Sponge Carteriospongia foliascens and Their Impressive Shifts in Abnormal Tissues

(2014) Zhao-Ming Gao et al.   MICROBIAL ECOLOGY

Temporal dynamics of prokaryotic communities in the marine spongeSarcotragus spinosulus

(2014) Cristiane C. P. Hardoim et al.   MOLECULAR ECOLOGY

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

(2014) Janine Kamke et al.   PLoS One

Symbiotic Adaptation Drives Genome Streamlining of the Cyanobacterial Sponge Symbiont "Candidatus Synechococcus spongiarum"

(2014) Z.-M. Gao et al.   mBio

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

Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes

(2013) Mads Albertsen et al.   NATURE BIOTECHNOLOGY

Bacterial community profiles in low microbial abundance sponges

(2012) Emily C. Giles et al.   FEMS MICROBIOLOGY ECOLOGY

SPAdes: A New Genome Assembly Algorithm and Its Applications to Single-Cell Sequencing

(2012) Anton Bankevich et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Horny sponges and their affairs: On the phylogenetic relationships of keratose sponges

(2012) Dirk Erpenbeck et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing

(2012) Nicholas A Bokulich et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Evaluation of general 16S ribosomal RNA gene PCR primers for classical and next-generation sequencing-based diversity studies

(2012) Anna Klindworth et al.   NUCLEIC ACIDS RESEARCH

NGS QC Toolkit: A Toolkit for Quality Control of Next Generation Sequencing Data

(2012) Ravi K. Patel et al.   PLoS One

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

Spatial distribution of prokaryotic symbionts and ammoxidation, denitrifier bacteria in marine sponge Astrosclera willeyana

(2012) Zhenya Yang et al.   Scientific Reports

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

Sponge-specific clusters revisited: a comprehensive phylogeny of sponge-associated microorganisms

(2011) Rachel L. Simister et al.   ENVIRONMENTAL MICROBIOLOGY

Marine sponges and their microbial symbionts: love and other relationships

(2011) Nicole S. Webster et al.   ENVIRONMENTAL MICROBIOLOGY

Chloroflexi bacteria are more diverse, abundant, and similar in high than in low microbial abundance sponges

(2011) Susanne Schmitt et al.   FEMS MICROBIOLOGY ECOLOGY

Integrative analysis of environmental sequences using MEGAN4

(2011) D. H. Huson et al.   GENOME RESEARCH

Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

(2011) B. J. Haas et al.   GENOME RESEARCH

Btrim: A fast, lightweight adapter and quality trimming program for next-generation sequencing technologies

(2011) Yong Kong   GENOMICS

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

(2011) Susanne Schmitt et al.   ISME Journal

MEGA5: Molecular Evolutionary Genetics Analysis Using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods

(2011) K. Tamura et al.   MOLECULAR BIOLOGY AND EVOLUTION

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

The Pfam protein families database

(2011) M. Punta et al.   NUCLEIC ACIDS RESEARCH

Search and clustering orders of magnitude faster than BLAST

(2010) Robert C. Edgar   BIOINFORMATICS

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Pyrosequencing reveals highly diverse and species-specific microbial communities in sponges from the Red Sea

(2010) On On Lee et al.   ISME Journal

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

(2010) Michael Yizhe Liu 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

Sesquiterpene Benzoxazoles and Sesquiterpene Quinones from the Marine SpongeDactylospongia elegans

(2010) Simon P. B. Ovenden et al.   JOURNAL OF NATURAL PRODUCTS

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

Comparison of two next-generation sequencing technologies for resolving highly complex microbiota composition using tandem variable 16S rRNA gene regions

(2010) Marcus J. Claesson et al.   NUCLEIC ACIDS RESEARCH

Widespread Distribution of Poribacteria in Demospongiae

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

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

PyNAST: a flexible tool for aligning sequences to a template alignment

(2009) J. G. Caporaso et al.   BIOINFORMATICS

Cryptic diversity of the symbiotic cyanobacterium Synechococcus spongiarum among sponge hosts

(2008) PATRICK M. ERWIN et al.   MOLECULAR ECOLOGY