Microbial indicators as a diagnostic tool for assessing water quality and climate stress in coral reef ecosystems

A bacterial community-based index to assess the ecological status of estuarine and coastal environments

(2017) Eva Aylagas et al.   MARINE POLLUTION BULLETIN

Global warming and recurrent mass bleaching of corals

(2017) Terry P. Hughes et al.   NATURE

Conceptual and methodological advances for holobiont research

(2017) Nicole S. Webster   Environmental Microbiology Reports

Bacterial community dynamics are linked to patterns of coral heat tolerance

(2017) Maren Ziegler et al.   Nature Communications

Insights into the Coral Microbiome: Underpinning the Health and Resilience of Reef Ecosystems

(2016) David G. Bourne et al.   Annual Review of Microbiology

Microbial transcriptome profiling of black band disease in a Faviid coral during a seasonal disease peak

(2016) L Arotsker et al.   DISEASES OF AQUATIC ORGANISMS

Ocean acidification influences host DNA methylation and phenotypic plasticity in environmentally susceptible corals

(2016) Hollie M. Putnam et al.   Evolutionary Applications

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

(2016) Matthew J Neave et al.   ISME Journal

The microbiome of coral surface mucus has a key role in mediating holobiont health and survival upon disturbance

(2016) Bettina Glasl et al.   ISME Journal

Coral microbial community dynamics in response to anthropogenic impacts near a major city in the central Red Sea

(2016) Maren Ziegler et al.   MARINE POLLUTION BULLETIN

Long-term salinity tolerance is accompanied by major restructuring of the coral bacterial microbiome

(2016) Till Röthig et al.   MOLECULAR ECOLOGY

Gut microbiome in health and disease: Linking the microbiome–gut–brain axis and environmental factors in the pathogenesis of systemic and neurodegenerative diseases

(2016) Shivani Ghaisas et al.   PHARMACOLOGY & THERAPEUTICS

Massive bleaching killed 35% of the coral on the northern end of the Great Barrier Reef

(2016) Dennis Normile   SCIENCE

Network analysis reveals functional redundancy and keystone taxa amongst bacterial and fungal communities during organic matter decomposition in an arable soil

(2016) Samiran Banerjee et al.   SOIL BIOLOGY & BIOCHEMISTRY

The Sponge Hologenome

(2016) Nicole S. Webster et al.   mBio

Overfishing and nutrient pollution interact with temperature to disrupt coral reefs down to microbial scales

(2016) Jesse R. Zaneveld et al.   Nature Communications

Diversity, structure and convergent evolution of the global sponge microbiome

(2016) Torsten Thomas et al.   Nature Communications

Effects of light attenuation on the sponge holobiont- implications for dredging management

(2016) Mari-Carmen Pineda et al.   Scientific Reports

Machine Learning Meta-analysis of Large Metagenomic Datasets: Tools and Biological Insights

(2016) Edoardo Pasolli et al.   PLoS Computational Biology

Snapshot of a Bacterial Microbiome Shift during the Early Symptoms of a Massive Sponge Die-Off in the Western Mediterranean

(2016) Andrea Blanquer et al.   Frontiers in Microbiology

Marine microbial communities of the Great Barrier Reef lagoon are influenced by riverine floodwaters and seasonal weather events

(2016) Florent E. Angly et al.   PeerJ

Isolation of an antimicrobial compound produced by bacteria associated with reef-building corals

(2016) Jean-Baptiste Raina et al.   PeerJ

Global microbialization of coral reefs

(2016) Andreas F. Haas et al.   Nature Microbiology

Archaeal and Bacterial Communities Associated with the Surface Mucus of Caribbean Corals Differ in Their Degree of Host Specificity and Community Turnover Over Reefs

(2016) Pedro R. Frade et al.   PLoS One

Coral mucus fuels the sponge loop in warm- and cold-water coral reef ecosystems

(2016) Laura Rix et al.   Scientific Reports

The Dynamics of the Human Infant Gut Microbiome in Development and in Progression toward Type 1 Diabetes

(2015) Aleksandar D. Kostic et al.   Cell Host & Microbe

The coral core microbiome identifies rare bacterial taxa as ubiquitous endosymbionts

(2015) Tracy D Ainsworth et al.   ISME Journal

Coral-the world's most diverse symbiotic ecosystem

(2015) Linda L. Blackall et al.   MOLECULAR ECOLOGY

Building coral reef resilience through assisted evolution

(2015) Madeleine J. H. van Oppen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functional significance of dinitrogen fixation in sustaining coral productivity under oligotrophic conditions

(2015) Ulisse Cardini et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Nitrogen cycling in corals: the key to understanding holobiont functioning?

(2015) Nils Rädecker et al.   TRENDS IN MICROBIOLOGY

Application of metagenomics in the human gut microbiome

(2015) Wei-Lin Wang et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Microbes in the coral holobiont: partners through evolution, development, and ecological interactions

(2015) Janelle R. Thompson et al.   Frontiers in Cellular and Infection Microbiology

Transcriptional activity of the giant barrel sponge, Xestospongia muta Holobiont: molecular evidence for metabolic interchange

(2015) Cara L. Fiore et al.   Frontiers in Microbiology

The green impact: bacterioplankton response toward a phytoplankton spring bloom in the southern North Sea assessed by comparative metagenomic and metatranscriptomic approaches

(2015) Bernd Wemheuer et al.   Frontiers in Microbiology

Fecal microbiota transplantation: in perspective

(2015) Shaan Gupta et al.   Therapeutic Advances in Gastroenterology

Macroalgae Inhibits Larval Settlement and Increases Recruit Mortality at Ningaloo Reef, Western Australia

(2015) Fiona J. Webster et al.   PLoS One

Natural volcanic CO2 seeps reveal future trajectories for host–microbial associations in corals and sponges

(2014) Kathleen M Morrow et al.   ISME Journal

Coral reef baselines: How much macroalgae is natural?

(2014) John F. Bruno et al.   MARINE POLLUTION BULLETIN

Variability in Microbial Community Composition and Function Between Different Niches Within a Coral Reef

(2014) Jessica Tout et al.   MICROBIAL ECOLOGY

Microbiome therapy gains market traction

(2014) Sara Reardon   NATURE

Bacterial Communities Associated with Porites White Patch Syndrome (PWPS) on Three Western Indian Ocean (WIO) Coral Reefs

(2014) Mathieu G. Séré et al.   PLoS One

Natural Diet of Coral-Excavating Sponges Consists Mainly of Dissolved Organic Carbon (DOC)

(2014) Benjamin Mueller et al.   PLoS One

Community Shifts in the Surface Microbiomes of the Coral Porites astreoides with Unusual Lesions

(2014) Julie L. Meyer et al.   PLoS One

Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors

(2014) L. W. Kelly et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Impacts of nutrient enrichment on coral reefs: new perspectives and implications for coastal management and reef survival

(2014) Cecilia D’Angelo et al.   Current Opinion in Environmental Sustainability

Bacterial dynamics within the mucus, tissue and skeleton of the coral Porites lutea during different seasons

(2014) Jie Li et al.   Scientific Reports

Benthic N2fixation in coral reefs and the potential effects of human-induced environmental change

(2014) Ulisse Cardini et al.   Ecology and Evolution

Eutrophication has no short-term effect on the Cymbastela stipitata holobiont

(2014) Heidi M. Luter et al.   Frontiers in Microbiology

The Human Microbiome: From Symbiosis to Pathogenesis

(2013) Emiley A. Eloe-Fadrosh et al.   Annual Review of Medicine

Amplicon pyrosequencing reveals spatial and temporal consistency in diazotroph assemblages of theAcropora milleporamicrobiome

(2013) Kimberley A. Lema et al.   ENVIRONMENTAL MICROBIOLOGY

Molecular community profiling reveals impacts of time, space, and disease status on the bacterial community associated with the Caribbean spongeAplysina cauliformis

(2013) Julie B. Olson et al.   FEMS MICROBIOLOGY ECOLOGY

Chronic nutrient enrichment increases prevalence and severity of coral disease and bleaching

(2013) Rebecca L. Vega Thurber et al.   GLOBAL CHANGE BIOLOGY

Metatranscriptomics reveal differences in in situ energy and nitrogen metabolism among hydrothermal vent snail symbionts

(2013) J G Sanders et al.   ISME Journal

Coral and macroalgal exudates vary in neutral sugar composition and differentially enrich reef bacterioplankton lineages

(2013) Craig E Nelson et al.   ISME Journal

Marine microbial symbiosis heats up: the phylogenetic and functional response of a sponge holobiont to thermal stress

(2013) Lu Fan et al.   ISME Journal

Insights from quantitative metaproteomics and protein-stable isotope probing into microbial ecology

(2013) Martin von Bergen et al.   ISME Journal

Determining indicator taxa across spatial and seasonal gradients in the Columbia River coastal margin

(2013) Caroline S Fortunato et al.   ISME Journal

Coral reef invertebrate microbiomes correlate with the presence of photosymbionts

(2013) David G Bourne et al.   ISME Journal

Phylogenetically Diverse Denitrifying and Ammonia-Oxidizing Bacteria in Corals Alcyonium gracillimum and Tubastraea coccinea

(2013) Shan Yang et al.   MARINE BIOTECHNOLOGY

Ankyrin-repeat proteins from sponge symbionts modulate amoebal phagocytosis

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

Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences

(2013) Morgan G I Langille et al.   NATURE BIOTECHNOLOGY

Algae as an important environment for bacteria – phylogenetic relationships among new bacterial species isolated from algae

(2013) Franz Goecke et al.   PHYCOLOGIA

Algae as Reservoirs for Coral Pathogens

(2013) Michael J. Sweet et al.   PLoS One

Surviving in a Marine Desert: The Sponge Loop Retains Resources Within Coral Reefs

(2013) Jasper M. de Goeij et al.   SCIENCE

Bacterial communities and species-specific associations with the mucus of Brazilian coral species

(2013) Camila Carlos et al.   Scientific Reports

Corals Form Characteristic Associations with Symbiotic Nitrogen-Fixing Bacteria

(2012) Kimberley A. Lema et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Stability of Sponge-Associated Bacteria over Large Seasonal Shifts in Temperature and Irradiance

(2012) Patrick M. Erwin et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Transcriptomic analysis of the red seaweed Laurencia dendroidea (Florideophyceae, Rhodophyta) and its microbiome

(2012) Louisi de Oliveira et al.   BMC GENOMICS

Sponge white patch disease affecting the Caribbean sponge Amphimedon compressa

(2012) H Angermeier et al.   DISEASES OF AQUATIC ORGANISMS

Bacterial diversity in relation to secondary production and succession on surfaces of the kelp Laminaria hyperborea

(2012) Mia M Bengtsson et al.   ISME Journal

Metaproteogenomic analysis of a community of sponge symbionts

(2012) Michael Liu et al.   ISME Journal

Phylogenetic conservatism of functional traits in microorganisms

(2012) Adam C Martiny et al.   ISME Journal

Thermal and Sedimentation Stress Are Unlikely Causes of Brown Spot Syndrome in the Coral Reef Sponge, Ianthella basta

(2012) Heidi M. Luter et al.   PLoS One

Assessing Coral Reefs on a Pacific-Wide Scale Using the Microbialization Score

(2012) Tracey McDole et al.   PLoS One

Macroalgae Decrease Growth and Alter Microbial Community Structure of the Reef-Building Coral, Porites astreoides

(2012) Rebecca Vega Thurber et al.   PLoS One

Sponge-Microbe Associations Survive High Nutrients and Temperatures

(2012) Rachel Simister et al.   PLoS One

The 27-year decline of coral cover on the Great Barrier Reef and its causes

(2012) G. De'ath et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Substrate-Controlled Succession of Marine Bacterioplankton Populations Induced by a Phytoplankton Bloom

(2012) H. Teeling et al.   SCIENCE

Unseen players shape benthic competition on coral reefs

(2012) Katie L. Barott et al.   TRENDS IN MICROBIOLOGY

Archaea in Symbioses

(2012) Christoph Wrede et al.   ARCHAEA-AN INTERNATIONAL MICROBIOLOGICAL JOURNAL

Fundamentals of Microbial Community Resistance and Resilience

(2012) Ashley Shade et al.   Frontiers in Microbiology

The Commensal Microbiota Drives Immune Homeostasis

(2012) Marie-Claire Arrieta et al.   Frontiers in Immunology

Abundance and Composition of Epiphytic Bacterial and Archaeal Ammonia Oxidizers of Marine Red and Brown Macroalgae

(2011) Rosalia Trias et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Life without a cell membrane: Challenging the specificity of bacterial endophytes within Bryopsis (Bryopsidales, Chlorophyta)

(2011) Joke Hollants et al.   BMC MICROBIOLOGY

Allelochemicals produced by Caribbean macroalgae and cyanobacteria have species-specific effects on reef coral microorganisms

(2011) K. M. Morrow et al.   CORAL REEFS

Identifying grasshopper bioindicators for habitat quality assessment of ecological networks

(2011) Corinna S. Bazelet et al.   ECOLOGICAL INDICATORS

Drivers of bacterial diversity dynamics in permeable carbonate and silicate coral reef sands from the Red Sea

(2011) Sandra Schöttner et al.   ENVIRONMENTAL MICROBIOLOGY

New directions in coral reef microbial ecology

(2011) Melissa Garren et al.   ENVIRONMENTAL MICROBIOLOGY

Microbial diversity associated with four functional groups of benthic reef algae and the reef-building coral Montastraea annularis

(2011) Katie L. Barott et al.   ENVIRONMENTAL MICROBIOLOGY

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

(2011) Susanne Schmitt et al.   ISME Journal

The Functional Half-Life of an mRNA Depends on the Ribosome Spacing in an Early Coding Region

(2011) Margit Pedersen et al.   JOURNAL OF MOLECULAR BIOLOGY

Who Is in There? Exploration of Endophytic Bacteria within the Siphonous Green Seaweed Bryopsis (Bryopsidales, Chlorophyta)

(2011) Joke Hollants et al.   PLoS One

Effects of Coral Reef Benthic Primary Producers on Dissolved Organic Carbon and Microbial Activity

(2011) Andreas F. Haas et al.   PLoS One

Genomes and Virulence Factors of Novel Bacterial Pathogens Causing Bleaching Disease in the Marine Red Alga Delisea pulchra

(2011) Neil Fernandes et al.   PLoS One

Bacterial community assembly based on functional genes rather than species

(2011) C. Burke et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Microbial to reef scale interactions between the reef-building coral Montastraea annularis and benthic algae

(2011) K. L. Barott et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Metagenomic analysis of the coral holobiont during a natural bleaching event on the Great Barrier Reef

(2011) Raechel Littman et al.   Environmental Microbiology Reports

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

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

New Method for Counting Bacteria Associated with Coral Mucus

(2010) M. Garren et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Exploring the Role of Microorganisms in the Disease-Like Syndrome Affecting the Sponge Ianthella basta

(2010) H. M. Luter et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Isolation of seaweed-associated bacteria and their morphogenesis-inducing capability in axenic cultures of the green alga Ulva fasciata

(2010) RP Singh et al.   Aquatic Biology

Bacterial assemblages differ between compartments within the coral holobiont

(2010) M. J. Sweet et al.   CORAL REEFS

Water quality as a regional driver of coral biodiversity and macroalgae on the Great Barrier Reef

(2010) Glenn De'ath et al.   ECOLOGICAL APPLICATIONS

Rapidly measured indicators of recreational water quality and swimming-associated illness at marine beaches: a prospective cohort study

(2010) Timothy J Wade et al.   Environmental Health

Spatial patterns and light-driven variation of microbial population gene expression in surface waters of the oligotrophic open ocean

(2010) Ian Hewson et al.   ENVIRONMENTAL MICROBIOLOGY

Epibacterial community patterns on marine macroalgae are host-specific but temporally variable

(2010) Tim Lachnit et al.   ENVIRONMENTAL MICROBIOLOGY

Temperature induced bacterial virulence and bleaching disease in a chemically defended marine macroalga

(2010) Rebecca J. Case et al.   ENVIRONMENTAL MICROBIOLOGY

Composition, uniqueness and variability of the epiphytic bacterial community of the green alga Ulva australis

(2010) Catherine Burke et al.   ISME Journal

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

(2010) Torsten Thomas et al.   ISME Journal

In situ fluxes of dissolved inorganic nitrogen from the sponge community on Conch Reef, Key Largo, Florida

(2010) Melissa W. Southwell et al.   LIMNOLOGY AND OCEANOGRAPHY

Tropical cyclones and climate change

(2010) Thomas R. Knutson et al.   Nature Geoscience

Improving indicator species analysis by combining groups of sites

(2010) Miquel De Cáceres et al.   OIKOS

Threatened Corals Provide Underexplored Microbial Habitats

(2010) Shinichi Sunagawa et al.   PLoS One

Polymorphisms of the ITGAM Gene Confer Higher Risk of Discoid Cutaneous Than of Systemic Lupus Erythematosus

(2010) Tiina M. Järvinen et al.   PLoS One

Specific epibacterial communities on macroalgae: phylogeny matters more than habitat

(2009) T Lachnit et al.   Aquatic Biology

Bioindicators of changes in water quality on coral reefs: review and recommendations for monitoring programmes

(2009) T. F. Cooper et al.   CORAL REEFS

Metagenomic analysis of stressed coral holobionts

(2009) Rebecca Vega Thurber et al.   ENVIRONMENTAL MICROBIOLOGY

Comparative day/night metatranscriptomic analysis of microbial communities in the North Pacific subtropical gyre

(2009) Rachel S. Poretsky et al.   ENVIRONMENTAL MICROBIOLOGY

Microbial functional structure ofMontastraea faveolata, an important Caribbean reef-building coral, differs between healthy and yellow-band diseased colonies

(2009) Nikole E. Kimes et al.   ENVIRONMENTAL MICROBIOLOGY

Selective uptake of prokaryotic picoplankton by a marine sponge (Callyspongia sp.) within an oligotrophic coastal system

(2009) Christine E. Hanson et al.   ESTUARINE COASTAL AND SHELF SCIENCE

Coral mucus-associated bacteria: a possible first line of defense

(2009) Maya Shnit-Orland et al.   FEMS MICROBIOLOGY ECOLOGY

Diversity of aerobic and anaerobic ammonia-oxidizing bacteria in marine sponges

(2009) Naglaa M Mohamed et al.   ISME Journal

Global ecological patterns in uncultured Archaea

(2009) Jean-Christophe Auguet et al.   ISME Journal

Resilience of Coral-Associated Bacterial Communities Exposed to Fish Farm Effluent

(2009) Melissa Garren et al.   PLoS One

Diverse communities of active Bacteria and Archaea along oxygen gradients in coral reef sediments

(2008) A. Rusch et al.   CORAL REEFS

Physiology, phylogeny andin situevidence for bacterial and archaeal nitrifiers in the marine spongeAplysina aerophoba

(2008) Kristina Bayer et al.   ENVIRONMENTAL MICROBIOLOGY

Global distribution and diversity of coral-associatedArchaeaand their possible role in the coral holobiont nitrogen cycle

(2008) Nachshon Siboni et al.   ENVIRONMENTAL MICROBIOLOGY

Shifts in microbial and chemical patterns within the marine spongeAplysina aerophobaduring a disease outbreak

(2008) Nicole S. Webster et al.   ENVIRONMENTAL MICROBIOLOGY

Climate change and coral reef bleaching: An ecological assessment of long-term impacts, recovery trends and future outlook

(2008) Andrew C. Baker et al.   ESTUARINE COASTAL AND SHELF SCIENCE

Temperature thresholds for bacterial symbiosis with a sponge

(2008) Nicole S Webster et al.   ISME Journal

Major bulk dissolved organic carbon (DOC) removal by encrusting coral reef cavity sponges

(2008) JM de Goeij et al.   MARINE ECOLOGY PROGRESS SERIES

Symbiotic conversations are revealed under genetic interrogation

(2008) Edward G. Ruby   NATURE REVIEWS MICROBIOLOGY

Microbial Ecology of Four Coral Atolls in the Northern Line Islands

(2008) Elizabeth A. Dinsdale et al.   PLoS One

Baselines and Degradation of Coral Reefs in the Northern Line Islands

(2008) Stuart A. Sandin et al.   PLoS One

Analysis of the Pseudoalteromonas tunicata Genome Reveals Properties of a Surface-Associated Life Style in the Marine Environment

(2008) Torsten Thomas et al.   PLoS One

Effects of colonization, luminescence, and autoinducer on host transcription during development of the squid-vibrio association

(2008) C. K. Chun et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Resistance, resilience, and redundancy in microbial communities

(2008) S. D. Allison et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Metagenomic analysis indicates that stressors induce production of herpes-like viruses in the coral Porites compressa

(2008) R. L. Vega Thurber et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Microbial Engines That Drive Earth's Biogeochemical Cycles

(2008) P. G. Falkowski et al.   SCIENCE

Shifting Baselines, Local Impacts, and Global Change on Coral Reefs

(2008) Nancy Knowlton et al.   PLOS BIOLOGY

Sponge-associated marine bacteria as indicators of heavy metal pollution

(2007) Joseph Selvin et al.   MICROBIOLOGICAL RESEARCH