A horizon scan of priorities for coastal marine microbiome research

Key colonist pools and habitat filters mediate the composition of fiddler crab-associated bacterial communities

(2019) Catalina Cuellar-Gempeler et al.   ECOLOGY

Host-microbiota interactions: from holobiont theory to analysis

(2019) Jean-Christophe Simon et al.   Microbiome

An automated Raman-based platform for the sorting of live cells by functional properties

(2019) Kang Soo Lee et al.   Nature Microbiology

Disentangling the effect of host-genotype and environment on the microbiome of the coral Acropora tenuis

(2019) Bettina Glasl et al.   PeerJ

Future climate change is predicted to affect the microbiome and condition of habitat-forming kelp

(2019) Zhiguang Qiu et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Algae dictate multiple stressor effects on coral microbiomes

(2019) A. L. Brown et al.   CORAL REEFS

Resolving structure and function of metaorganisms through a holistic framework combining reductionist and integrative approaches

(2019) Cornelia Jaspers et al.   ZOOLOGY

Updating the 97% identity threshold for 16S ribosomal RNA OTUs

(2018) Robert C Edgar   BIOINFORMATICS

Elevated seawater temperature disrupts the microbiome of an ecologically important bioeroding sponge

(2018) Blake D. Ramsby et al.   MOLECULAR ECOLOGY

Keystone taxa as drivers of microbiome structure and functioning

(2018) Samiran Banerjee et al.   NATURE REVIEWS MICROBIOLOGY

Culturing the human microbiota and culturomics

(2018) Jean-Christophe Lagier et al.   NATURE REVIEWS MICROBIOLOGY

Ocean warming alters predicted microbiome functionality in a common sea urchin

(2018) Cecilia J. Brothers et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Metaorganisms in extreme environments: do microbes play a role in organismal adaptation?

(2018) Corinna Bang et al.   ZOOLOGY

Recovery of genomes from metagenomes via a dereplication, aggregation and scoring strategy

(2018) Christian M. K. Sieber et al.   Nature Microbiology

Are microbiome studies ready for hypothesis-driven research?

(2018) Anupriya Tripathi et al.   CURRENT OPINION IN MICROBIOLOGY

Biologists ignore ocean weather at their peril

(2018) Amanda E. Bates et al.   NATURE

Marine probiotics: increasing coral resistance to bleaching through microbiome manipulation

(2018) Phillipe M. Rosado et al.   ISME Journal

Coral-associated bacteria demonstrate phylosymbiosis and cophylogeny

(2018) F. Joseph Pollock et al.   Nature Communications

Fecal source identification using random forest

(2018) Adélaïde Roguet et al.   Microbiome

Inhibiting bacterial quorum sensing arrests coral disease development and disease-associated microbes

(2017) Rebecca H. Certner et al.   ENVIRONMENTAL MICROBIOLOGY

Disentangling causation: complex roles of coral-associated microorganisms in disease

(2017) Hanaka Mera et al.   ENVIRONMENTAL MICROBIOLOGY

Shifting paradigms in restoration of the world's coral reefs

(2017) Madeleine J. H. van Oppen et al.   GLOBAL CHANGE BIOLOGY

Integrated metabolism in sponge–microbe symbiosis revealed by genome-centered metatranscriptomics

(2017) Lucas Moitinho-Silva et al.   ISME Journal

Exact sequence variants should replace operational taxonomic units in marker-gene data analysis

(2017) Benjamin J Callahan et al.   ISME Journal

Co-niche construction between hosts and symbionts: ideas and evidence

(2017) Renee M. Borges   JOURNAL OF GENETICS

The effects of warming and ocean acidification on growth, photosynthesis, and bacterial communities for the marine invasive macroalga Caulerpa taxifolia

(2017) Alexandra J. Roth-Schulze et al.   LIMNOLOGY AND OCEANOGRAPHY

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

(2017) Bettina Glasl et al.   MARINE BIOLOGY

Seasonal Stability in the Microbiomes of Temperate Gorgonians and the Red Coral Corallium rubrum Across the Mediterranean Sea

(2017) Jeroen A. J. M. van de Water et al.   MICROBIAL ECOLOGY

A communal catalogue reveals Earth’s multiscale microbial diversity

(2017) Luke R. Thompson et al.   NATURE

Seagrass ecosystems reduce exposure to bacterial pathogens of humans, fishes, and invertebrates

(2017) Joleah B. Lamb et al.   SCIENCE

Defining the Core Microbiome in Corals’ Microbial Soup

(2017) Alejandra Hernandez-Agreda et al.   TRENDS IN MICROBIOLOGY

Nitrogen Fixation Aligns with nifH Abundance and Expression in Two Coral Trophic Functional Groups

(2017) Claudia Pogoreutz et al.   Frontiers in Microbiology

Beneficial Microorganisms for Corals (BMC): Proposed Mechanisms for Coral Health and Resilience

(2017) Raquel S. Peixoto et al.   Frontiers in Microbiology

The sponge microbiome project

(2017) Lucas Moitinho-Silva et al.   GigaScience

Recovery of nearly 8,000 metagenome-assembled genomes substantially expands the tree of life

(2017) Donovan H. Parks et al.   Nature Microbiology

The microbiome beyond the horizon of ecological and evolutionary theory

(2017) Britt Koskella et al.   Nature Ecology & Evolution

The interaction between the proliferating macroalga Asparagopsis taxiformis and the coral Astroides calycularis induces changes in microbiome and metabolomic fingerprints

(2017) Stéphane Greff et al.   Scientific Reports

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

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

Nitrogen-fixing bacteria in Mediterranean seagrass (Posidonia oceanica) roots

(2016) Neus Garcias-Bonet et al.   AQUATIC BOTANY

Assessing the ecological status of seagrasses using morphology, biochemical descriptors and microbial community analyses. A study in Halophila stipulacea (Forsk.) Aschers meadows in the northern Red Sea

(2016) Astrid Y. Mejia et al.   ECOLOGICAL INDICATORS

Microbial dinitrogen fixation in coral holobionts exposed to thermal stress and bleaching

(2016) Ulisse Cardini et al.   ENVIRONMENTAL MICROBIOLOGY

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

The Sponge Hologenome

(2016) Nicole S. Webster et al.   mBio

Diversity, structure and convergent evolution of the global sponge microbiome

(2016) Torsten Thomas et al.   Nature Communications

Phylosymbiosis: Relationships and Functional Effects of Microbial Communities across Host Evolutionary History

(2016) Andrew W. Brooks et al.   PLOS BIOLOGY

Editorial: Anthropogenic Impacts on the Microbial Ecology and Function of Aquatic Environments

(2016) Maurizio Labbate et al.   Frontiers in Microbiology

Rhizosphere Microbiomes of European + Seagrasses Are Selected by the Plant, But Are Not Species Specific

(2016) Catarina Cúcio et al.   Frontiers in Microbiology

Unraveling the Functions of the Macroalgal Microbiome

(2016) Ravindra Pal Singh et al.   Frontiers in Microbiology

Comparison of Sewage and Animal Fecal Microbiomes by Using Oligotyping Reveals Potential Human Fecal Indicators in Multiple Taxonomic Groups

(2015) Jenny C. Fisher et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Continental-scale variation in seaweed host-associated bacterial communities is a function of host condition, not geography

(2015) Ezequiel M. Marzinelli et al.   ENVIRONMENTAL MICROBIOLOGY

Bacterial predation in a marine host-associated microbiome

(2015) Rory M Welsh et al.   ISME Journal

The coral core microbiome identifies rare bacterial taxa as ubiquitous endosymbionts

(2015) Tracy D Ainsworth et al.   ISME Journal

Molecular aspects of the pathogenesis of periodontitis

(2015) Joerg Meyle et al.   PERIODONTOLOGY 2000

Structure and function of the global ocean microbiome

(2015) S. Sunagawa et al.   SCIENCE

Spatial and temporal changes in cumulative human impacts on the world’s ocean

(2015) Benjamin S. Halpern et al.   Nature Communications

Coral transplantation triggers shift in microbiome and promotion of coral disease associated potential pathogens

(2015) Jordan M. Casey et al.   Scientific Reports

Spatial variability of microbial assemblages associated with a dominant habitat-forming seaweed

(2015) Alexandra H. Campbell et al.   Frontiers in Microbiology

The Influence of the Gut Microbiome on Obesity, Metabolic Syndrome and Gastrointestinal Disease

(2015) Parth J Parekh et al.   Clinical and Translational Gastroenterology

Using the class 1 integron-integrase gene as a proxy for anthropogenic pollution

(2014) Michael R Gillings et al.   ISME Journal

Hemolymph microbiome of Pacific oysters in response to temperature, temperature stress and infection

(2014) Ana Lokmer et al.   ISME Journal

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

(2014) Jessica Tout et al.   MICROBIAL ECOLOGY

Onset and establishment of diazotrophs and other bacterial associates in the early life history stages of the coralAcropora millepora

(2014) Kimberley A. Lema et al.   MOLECULAR ECOLOGY

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

Strategic foresight: how planning for the unpredictable can improve environmental decision-making

(2014) Carly N. Cook et al.   TRENDS IN ECOLOGY & EVOLUTION

Discovering new indicators of fecal pollution

(2014) Sandra L. McLellan et al.   TRENDS IN MICROBIOLOGY

Symbiosis as a General Principle in Eukaryotic Evolution

(2014) A. E. Douglas   Cold Spring Harbor Perspectives in Biology

Phylogenetic signal in the community structure of host-specific microbiomes of tropical marine sponges

(2014) Cole G. Easson et al.   Frontiers in Microbiology

Population dynamics and ecology of Arcobacter in sewage

(2014) Jenny C. Fisher et al.   Frontiers in Microbiology

Associations and dynamics of Vibrionaceae in the environment, from the genus to the population level

(2014) Alison F. Takemura et al.   Frontiers in Microbiology

TheMontastraea faveolatamicrobiome: ecological and temporal influences on a Caribbean reef-building coral in decline

(2013) Nikole E. Kimes et al.   ENVIRONMENTAL MICROBIOLOGY

Temporal molecular and isotopic analysis of active bacterial communities in two New Zealand sponges

(2013) Rachel Simister et al.   FEMS MICROBIOLOGY ECOLOGY

A bacterial pathogen uses dimethylsulfoniopropionate as a cue to target heat-stressed corals

(2013) Melissa Garren 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

Identification of 100 fundamental ecological questions

(2013) William J. Sutherland et al.   JOURNAL OF ECOLOGY

Genomics in marine monitoring: New opportunities for assessing marine health status

(2013) Sarah J. Bourlat et al.   MARINE POLLUTION BULLETIN

Current Status and Future Prospects for the Assessment of Marine and Coastal Ecosystem Services: A Systematic Review

(2013) Camino Liquete et al.   PLoS One

A Method for Selectively Enriching Microbial DNA from Contaminating Vertebrate Host DNA

(2013) George R. Feehery et al.   PLoS One

Oligotyping: differentiating between closely related microbial taxa using 16S rRNA gene data

(2013) A. Murat Eren et al.   Methods in Ecology and Evolution

Marine bacteria: potential candidates for enhanced bioremediation

(2012) Hirak R. Dash et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Eliciting Expert Knowledge in Conservation Science

(2012) TARA G. MARTIN et al.   CONSERVATION BIOLOGY

Physiological aspects of mangrove (Laguncularia racemosa) grown in microcosms with oil-degrading bacteria and oil contaminated sediment

(2012) Vanessa Sodré et al.   ENVIRONMENTAL POLLUTION

Growth and Thallus Morphogenesis ofUlva mutabilis(Chlorophyta) Depends on A Combination of Two Bacterial Species Excreting Regulatory Factors

(2012) Michael Spoerner et al.   JOURNAL OF PHYCOLOGY

Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota

(2012) Davide Bulgarelli et al.   NATURE

Functional interactions between the gut microbiota and host metabolism

(2012) Valentina Tremaroli et al.   NATURE

Genomic insights into the marine sponge microbiome

(2012) Ute Hentschel et al.   NATURE REVIEWS MICROBIOLOGY

Community Structure and Functional Gene Profile of Bacteria on Healthy and Diseased Thalli of the Red Seaweed Delisea pulchra

(2012) Neil Fernandes et al.   PLoS One

A Three-Stage Symbiosis Forms the Foundation of Seagrass Ecosystems

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

Climate change and disease: bleaching of a chemically defended seaweed

(2011) ALEXANDRA H. CAMPBELL et al.   GLOBAL CHANGE BIOLOGY

Bacterial structure and characterization of plant growth promoting and oil degrading bacteria from the rhizospheres of mangrove plants

(2011) Flávia Lima do Carmo et al.   JOURNAL OF MICROBIOLOGY

An estimate of the cost of acute health effects from food- and water-borne marine pathogens and toxins in the USA

(2011) Erin P. Ralston et al.   JOURNAL OF WATER AND HEALTH

Bayesian community-wide culture-independent microbial source tracking

(2011) Dan Knights et al.   NATURE METHODS

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

Bioaugmentation and biostimulation strategies to improve the effectiveness of bioremediation processes

(2010) Meenu Tyagi et al.   BIODEGRADATION

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

Seasonal and interannual change in a Chesapeake Bay eelgrass community: Insights into biotic and abiotic control of community structure

(2010) James G. Douglass et al.   LIMNOLOGY AND OCEANOGRAPHY

Development of Novel Drugs from Marine Surface Associated Microorganisms

(2010) Anahit Penesyan et al.   Marine Drugs

Metagenomic analysis of stressed coral holobionts

(2009) Rebecca Vega Thurber et al.   ENVIRONMENTAL MICROBIOLOGY

Biostimulation strategies for fresh and chronically polluted marine environments with petroleum hydrocarbons

(2009) Maria Nikolopoulou et al.   JOURNAL OF CHEMICAL TECHNOLOGY AND BIOTECHNOLOGY

Consequences of ecological connectivity: the coastal ecosystem mosaic

(2009) M Sheaves   MARINE ECOLOGY PROGRESS SERIES

The coastal environment and human health: microbial indicators, pathogens, sentinels and reservoirs

(2008) Jill R Stewart et al.   Environmental Health