Disentangling the complex microbial community of coral reefs using standardized Autonomous Reef Monitoring Structures (ARMS)

Beyond the visual: using metabarcoding to characterize the hidden reef cryptobiome

(2019) Susana Carvalho et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Lessons from photo analyses of Autonomous Reef Monitoring Structures as tools to detect (bio-)geographical, spatial, and environmental effects

(2019) Romain David et al.   MARINE POLLUTION BULLETIN

Coral bacterial community structure responds to environmental change in a host-specific manner

(2019) Maren Ziegler et al.   Nature Communications

Soil pH mediates the balance between stochastic and deterministic assembly of bacteria

(2018) Binu M. Tripathi et al.   ISME Journal

Coral physiology and microbiome dynamics under combined warming and ocean acidification

(2018) Andréa G. Grottoli et al.   PLoS One

Cross-shelf investigation of coral reef cryptic benthic organisms reveals diversity patterns of the hidden majority

(2018) J. K. Pearman et al.   Scientific Reports

Deterministic influences exceed dispersal effects on hydrologically-connected microbiomes

(2017) Emily B. Graham et al.   ENVIRONMENTAL MICROBIOLOGY

Patterns of primary production in the Red Sea

(2017) Mohammad Ali Qurban et al.   JOURNAL OF MARINE SYSTEMS

Coral reefs in the Anthropocene

(2017) Terry P. Hughes et al.   NATURE

Defining the Core Microbiome in Corals’ Microbial Soup

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

Bacterial community dynamics are linked to patterns of coral heat tolerance

(2017) Maren Ziegler et al.   Nature Communications

Microbial planktonic communities in the Red Sea: high levels of spatial and temporal variability shaped by nutrient availability and turbulence

(2017) John K. Pearman et al.   Scientific Reports

Introduced ascidians harbor highly diverse and host-specific symbiotic microbial assemblages

(2017) James S. Evans et al.   Scientific Reports

Cross shelf benthic biodiversity patterns in the Southern Red Sea

(2017) Joanne Ellis et al.   Scientific Reports

Microbial communities in the reef water at Kham Island, lower Gulf of Thailand

(2017) Naraporn Somboonna et al.   PeerJ

The importance of standardization for biodiversity comparisons: A case study using autonomous reef monitoring structures (ARMS) and metabarcoding to measure cryptic diversity on Mo’orea coral reefs, French Polynesia

(2017) Emma Ransome et al.   PLoS One

Deep COI sequencing of standardized benthic samples unveils overlooked diversity of Jordanian coral reefs in the northern Red Sea

(2016) Mamoon M.D. Al-Rshaidat et al.   GENOME

Please mind the gap – Visual census and cryptic biodiversity assessment at central Red Sea coral reefs

(2016) John K. Pearman et al.   MARINE ENVIRONMENTAL RESEARCH

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

DADA2: High-resolution sample inference from Illumina amplicon data

(2016) Benjamin J Callahan et al.   NATURE METHODS

Year-Long Monitoring of Physico-Chemical and Biological Variables Provide a Comparative Baseline of Coral Reef Functioning in the Central Red Sea

(2016) Anna Roik et al.   PLoS One

Carbon and nitrogen stable isotope ratios of pelagic zooplankton elucidate ecohydrographic features in the oligotrophic Red Sea

(2016) Benjamin Kürten et al.   PROGRESS IN OCEANOGRAPHY

Co-occurrence Analysis of Microbial Taxa in the Atlantic Ocean Reveals High Connectivity in the Free-Living Bacterioplankton

(2016) Mathias Milici et al.   Frontiers in 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

DNA barcoding and metabarcoding of standardized samples reveal patterns of marine benthic diversity

(2015) Matthieu Leray et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Structure and function of the global ocean microbiome

(2015) S. Sunagawa et al.   SCIENCE

Estimating and mapping ecological processes influencing microbial community assembly

(2015) James C. Stegen et al.   Frontiers in Microbiology

Microbial Communities Can Be Described by Metabolic Structure: A General Framework and Application to a Seasonally Variable, Depth-Stratified Microbial Community from the Coastal West Antarctic Peninsula

(2015) Jeff S. Bowman 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

Impact of a phytoplankton bloom on the diversity of the active bacterial community in the southern North Sea as revealed by metatranscriptomic approaches

(2013) Bernd Wemheuer et al.   FEMS MICROBIOLOGY ECOLOGY

Down under the tunic: bacterial biodiversity hotspots and widespread ammonia-oxidizing archaea in coral reef ascidians

(2013) Patrick M Erwin et al.   ISME Journal

Quantifying community assembly processes and identifying features that impose them

(2013) James C Stegen et al.   ISME Journal

Coral reef invertebrate microbiomes correlate with the presence of photosymbionts

(2013) David G Bourne et al.   ISME Journal

Influence of environmental gradients on C and N stable isotope ratios in coral reef biota of the Red Sea, Saudi Arabia

(2013) Benjamin Kürten et al.   JOURNAL OF SEA RESEARCH

Environmental gradients predict the genetic population structure of a coral reef fish in the Red Sea

(2013) Gerrit B. Nanninga et al.   MOLECULAR ECOLOGY

Remote Sensing the Phytoplankton Seasonal Succession of the Red Sea

(2013) Dionysios E. Raitsos et al.   PLoS One

marmap: A Package for Importing, Plotting and Analyzing Bathymetric and Topographic Data in R

(2013) Eric Pante et al.   PLoS One

Stochastic and deterministic assembly processes in subsurface microbial communities

(2012) James C Stegen et al.   ISME Journal

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

VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R

(2011) Hanbo Chen et al.   BMC BIOINFORMATICS

Effects of ocean acidification on microbial community composition of, and oxygen fluxes through, biofilms from the Great Barrier Reef

(2011) Verena Witt et al.   ENVIRONMENTAL MICROBIOLOGY

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

Marine sponges and their microbial symbionts: love and other relationships

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

Abrupt warming of the Red Sea

(2011) D. E. Raitsos et al.   GEOPHYSICAL RESEARCH LETTERS

Shifts in bacterial communities of two caribbean reef-building coral species affected by white plague disease

(2011) Anny Cárdenas et al.   ISME Journal

Biogeography of pelagic bacterioplankton across an antagonistic temperature-salinity gradient in the Red Sea

(2011) DAVID KAMANDA NGUGI et al.   MOLECULAR ECOLOGY

Development of Bacterial Biofilms on Artificial Corals in Comparison to Surface-Associated Microbes of Hard Corals

(2011) Michael John Sweet et al.   PLoS One

The Diversity of Coral Reefs: What Are We Missing?

(2011) Laetitia Plaisance et al.   PLoS One

Picante: R tools for integrating phylogenies and ecology

(2010) S. W. Kembel et al.   BIOINFORMATICS

Phylogenetic community structure and phylogenetic turnover across space and edaphic gradients in western Amazonian tree communities

(2010) Paul V. A. Fine et al.   ECOGRAPHY

Ribosomal tag pyrosequencing of DNA and RNA from benthic coral reef microbiota: community spatial structure, rare members and nitrogen-cycling guilds

(2010) Eric Gaidos et al.   ENVIRONMENTAL MICROBIOLOGY

Microbial ecology of corals, sponges, and algae in mesophotic coral environments

(2010) Julie B. Olson et al.   FEMS MICROBIOLOGY ECOLOGY

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

(2010) On On Lee et al.   ISME Journal

Threatened Corals Provide Underexplored Microbial Habitats

(2010) Shinichi Sunagawa et al.   PLoS One

Connectivity, regime shifts and the resilience of coral reefs

(2009) Toby Elmhirst et al.   CORAL REEFS

Relative roles of niche and neutral processes in structuring a soil microbial community

(2009) Alex J Dumbrell et al.   ISME Journal

The future of coral reefs: a microbial perspective

(2009) Tracy D. Ainsworth et al.   TRENDS IN ECOLOGY & EVOLUTION

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

(2008) A. Rusch et al.   CORAL REEFS

Unlocking the diversity and biotechnological potential of marine surface associated microbial communities

(2008) Suhelen Egan et al.   CURRENT OPINION IN MICROBIOLOGY

Remotely-sensed chlorophyll a observations of the northern Red Sea indicate seasonal variability and influence of coastal reefs

(2007) James Acker et al.   JOURNAL OF MARINE SYSTEMS