research

  • ACCRETE

    Climate change and ocean acidification are both a result of increasing anthropogenic CO2 in the Earth’s atmosphere.  These two global-scale stressors will impact coral reefs in differing ways, but the interaction of the two over the 21st century are expected to threaten the persistence of coral reef ecosystems.  ACCRETE (Acidification, Climate, and Coral Reef Ecosystems TEam) researchers are actively researching how climate change and ocean acidification will, and, already are, affecting the construction (coral growth, calcification) and breakdown (bioerosion, dissolution) of coral reef ecosystems, as well as the associated ramifications this has for ecosystem function (e.g., biodiversity).  To this end, ACCRETE scientists utilize a unique interdisciplinary approach that incorporates aspects of biology, chemistry, and geology within an ecological framework.  Through field, laboratory, and modeling studies, this laboratory is improving our understanding of the rate and magnitude of climate change and acidification on coral reefs, as well as the ecological impacts of these changes.

    ACCRETE is a subunit of the Coral Health and Monitoring Program (CHAMP) and is located within the Ocean Chemistry and Ecosystems Division (OCED) at the National Oceanic and Atmospheric Administration’s (NOAA) Atlantic Oceanographic and Meteorological Laboratory (AOML) in Miami, FL.  Please visit our ACCRETE People page for details about our team membership.

  • National Coral Reef Monitoring Program

    National Coral Reef Monitoring ProgramThe National Coral Reef Monitoring Program gauges the status and trends of coral reef health through long-term measurement of key variables.

  • Ocean Acidification Product Suite

    Ocean Acidification Product SuiteA high resolution monitoring product has been developed that maps current ocean acidification in the Caribbean and Gulf of Mexico.

  • Atlantic OA Test-bed

    Altantic Ocean Acidification Test-bedThe Atlantic Ocean Acidification Test-bed assesses through monitoring and research the impacts of ocean acidification on Atlantic coral reef ecosystems.

  • Reef Framework Research

    Reef Framework ResearchClimate change has both thermal (warming) and chemical (ocean acidification, OA) ramifications for coral reef ecosystems.

  • CGON

    Coral tissue samplingAn example of coral tissue sampling (image from coralrepository.org).Reef-building corals comprise multipartite symbioses between the cnidarian animal hosts and their associated microbial populations of eukaryotic, prokaryotic, and viral microorganisms forming a coral microbiome, together known as a holobiont. The health of the entire coral holobiont of reefs is being negatively impacted by an increasing variety of environmental and anthropogenic stressors that can cause shifts in the community structure patterns of coral microbiomes. Many corals around the world are being increasingly stressed and degraded or even killed by changing conditions that can lead to greater exposure to pathogens and incidence of bleaching and/or coral disease. The biodiversity of coral reef communities, including biodiversity of the coral microbiomes, can be an important factor involved in coral health and resilience.  The establishment of ongoing Genomic Observatories to characterize corals and their microbiomes can be a useful diagnostic and assessment tool to judge the relative health conditions of reefs and assess the effectiveness of management strategies intended to protect them. Such coral genomic observatories can be an extremely useful addition to larger Marine Biodiversity Observing Networks (MBONs) that serve to holistically characterize ecosystem health, status, and trends.

    AOML is in the process of developing an integrated Coral Genomics Observing Network (CGON) to collect coral reef community holobiont samples (including coral animal tissue, coral microbiome, and near-coral water samples), to extract and purify total community metagenomics DNA (i.e. the collective environmental DNA from all the organisms in a particular environmental sample), and to conduct metagenomics DNA sequence analysis of all the organisms in these environmental samples, including bacteria, algae, fungi, protists, microscopic eukaryotic larvae, and the coral animals themselves, by the use of state-of-the-art Next-Generation-Sequencing.  These coral community characterizations are being conducted for sentinel reef sites along the southeastern Florida coast, in the Florida Keys National Marine Sanctuary, and in other selected sites throughout the Caribbean.  It is anticipated that this CGON program will eventually be expanded to include a variety of sentinel coral reef sites around the world and cover a range of critically important and endangered coral species to provide a better understanding of how the coral holobiont/microbiome can influence coral community resilience and adaptation to a wide range of anthropogenic and environmental stressors in the face of changing environmental conditions from climate change, sea level rise, land-based sources of pollution and disease, and ocean acidification. Such a holistic approach to better understand the community genetic factors influencing coral reef resiliency may help managers better predict impacts to coral reefs and to help guide choices of coral species, strains, symbionts, and coral holobiont community structure for use in coral reef restoration efforts. These coral community metagenomic characterization efforts will also serve to add to the community biodiversity measurements and characterization efforts of larger ecosystem-focused Marine Biodiversity Observing Networks, such as the MBON that has been established for the Florida Keys National Marine Sanctuary.  CGON sentinel reef observations are also integrated into the on-going ICON and CHAMP programs at AOML.

  • National Microbiome Initiative

    National Microbiome InitiativeThe National Microbiome Initiative is a multi-agency research effort to sample and better understand communities of micro-organisms that are critical to both human health and the world's ecosystems.

  • CREWS/ICON

    NOAA's Coral Reef Early Warning System (CREWS) and Integrated Coral Observing Network (ICON) are two closely related projects that have together amassed a long-term dataset of in situ measurements in the near environments of coral reefs throughout Florida, the Caribbean and the world.  These observations are largely reported in close to real-time via satellite, radio and cellular networks and their data are immediately analyzed using expert systems models to produce useful predictions (termed "ecoforecasts") about ecological conditions that may impact coral reefs.

    The first CREWS station was a buoy installed in the Bahamas in 2001.  Since then, six fixed-pylon stations have been installed in the Bahamas, U.S. Virgin Islands, Puerto Rico, Jamaica, the Cayman Islands and Saipan (U.S. CNMI), with lifetimes spanning the years from 2002 to 2014.  Two collaborative or "hybrid" CREWS stations were installed on land or on marine navigational beacons (2008 to present), and in later years CREWS has been installing buoys in Belize, the Cayman Islands, and Tobago (2013 onwards) with more buoys to come in Barbados and the Dominican Republic.  Early CREWS data were processed by an expert system coded in CLIPS (C Language Integrated Production System).

    Beginning in 2004, the CLIPS expert system was migrated to the more powerful G2 platform produced by the Gensym corporation and began to integrate data from non-CREWS sources including satellite observations, model output and other in situ experiments.  This larger expert system became known as ICON.  Today, the names CREWS and ICON are sometimes used interchangeably although CREWS now more properly refers to the in situ observing platforms and ICON refers to the G2 expert system and the ecoforecasts it produces.

    Please visit our CREWS/ICON People page for details about our team membership.

  • The ICON Project

    The ICON ProjectThe vision of the Integrated Coral Observing Network (ICON) is to serve as a model for all of NOAA in establishing a high quality in situ coral reef monitoring network and for the integration of near real-time in situ, satellite, radar, and other data for ecological forecasting in coral reef ecosystems.

  • The CREWS Network

    The CREWS NetworkCREWS stations collect meteorological and oceanographic measurements that are processed with a suite of expert systems which determine whether the data being received are within a reasonable range, and whether certain environmental conditions are conducive to specific marine behavioral events (e.g., bleaching). 

  • CREWS Blogs

    CREWS BlogsThe basic CREWS instrumentation architecture has evolved over time into a robust package that, combined with a regimen of regular instrument cleaning and recalibration, has yielded a continuous, long-term, high-quality dataset from these harsh marine environments.

  • Data Integration

    Data IntegrationSince 2005, the CHAMP project has developed techniques and software for integrating data from observers, autonomous monitoring stations, satellites, radar, and numerical computer models.

  • Ecoforecasting

    EcoforecastingThe term ecoforecasting as used on this Web site refers to the process of examining multivariate environmental data from many sources in order to forecast or "now-cast" a response to those environmental stimuli within some component of the aquatic ecosystem.

  • Crews Instrumentation

    CREWS InstrumentationThe basic CREWS instrumentation architecture has evolved over time into a robust package that, combined with a regimen of regular instrument cleaning and recalibration, has yielded a continuous, long-term, high-quality dataset from these harsh marine environments.

  • Operational Support

    Operational SupportAOML has worked under the auspices of the NOAA Diving Program and other institutional organizations to develop an innovative approach to the installation of temporary, yet extremely robust, dynamic pylons for purposes of in situ monitoring of environmental conditions that influence coral reef ecoystems.

  • MARES

    The Marine and Estuarine Goal Setting for South Florida (MARES) project aims to reach a science-based consensus about the defining characteristics and fundamental regulating processes of a South Florida coastal marine ecosystem that is both sustainable and capable of providing the diverse ecological services upon which our society depends. Collaboration among stakeholders is being gathered during 12 public workshops planned over the three-year project period that started in September 2009.

    MARES represents a collaboration among academic scientists, federal and state agency experts and non-governmental organizations working in close conjunction with federal and state environmental managers, private industry stakeholders and interested members of the public.

    A three-step process is being used to develop ecosystem report cards.

    Step 1 is the development of Integrated Conceptual Ecosystem Models (ICEMs) for three sub-regions of south Florida; The Florida Keys and Dry Tortugas, the Southwest Florida Shelf, the Southeast Florida Shelf, and the total marine ecosystem that couples each of the MARES ICEMs with existing models for Biscayne Bay, Florida Bay and the Caloosahatchee Estuary.

    MARES Study SiteFigure 1. MARES Study Site

    The ICEMs incorporate not only the best available information about relevant natural science, but also incorporate human dimensions science and societal processes. The models illustrate cause and effect relationships in the ecosystem, and also identify valued services provided by the ecosystem and account for ecosystem management activities (Responses) intended to mitigate the adverse effects on the ecosystem (Impacts).

    Step 2 of the project is to develop Quantitative Ecosystem Indicators that can be monitored to measure change and reflect the condition of the ecosystem. They must be present throughout the coastal system and be a key attribute or effect in the ICEM. Indicators must also integrate the system-wide response to various ecosystem drivers. One example of a QEI is algal bloom status in Florida Bay. The concentration, duration and spatial extent of chlorophyll a with respect to historical conditions assess changes in the habitat.

    Step 3 is the development of an Ecosystem Report Card. The reports provide an overview of the condition of the ecosystem using a stoplight approach with red, green, and yellow rankings. The Report Cards provide the public, managers, and researchers with a quick guide for identifying areas that require immediate attention and those that are meeting consensus goals quantified as indicator targets in step two.

    Please visit our MARES People page for details about our team membership.

  • Environmental Goal Setting

    Environmental Goal SettingThe goal of the Marine and Estuarine Goal Setting for South Florida (MARES) project is to reach a science-based consensus about the defining characteristics and fundamental regulating processes of a South Florida coastal marine ecosystem that is both sustainable and capable of providing the diverse ecological services upon which our society depends.

  • Physical Oceanography

    Ocean currents and waves are like the life blood of coral reef ecosystems: they bring nutrients, prey, and new recruits, and may carry away or dilute particulates and harmful chemical compounds. Currents are the medium connecting reefs with estuaries, channels, mangrove forests and seagrass beds inshore, and with the deeper oceans that invariably lie offshore of the reef. Together with direct air-sea exchanges of heat, water, gases, momentum, and nutrients at the sea surface, ocean currents largely control the physical and chemical environment of coral reefs. Yet while significant advances have occurred, especially over the past 30 years, our scientific knowledge of the physical oceanography of coral reefs is far from complete.

    The complex physical interplay between wind, waves, water density (which is determined largely by sea temperature, but also by salinity), pressure, solar radiation, and the hard boundaries of the ocean make physical oceanography a challenging subject. For coastal oceanography, especially near reefs, the complexity of and rapid gradients in sea-floor bottom topography heighten these challenges. Furthermore, wind and waves in such environments may cause relatively violent water motions and heavy sediment loads, and the ongoing ecology of the reef itself may cause significant biofouling. Thus, the gathering of useful physical data to enhance our understanding of coral reefs becomes a very significant operational and practical challenge in its own right.

    Ocean currents are among the most difficult variables to directly measure in situ (i.e., in the natural environment of the reef). Because of the paucity of direct measurements of currents on reefs, CHAMP researchers are using other, more easily measured variables like sea and air temperature, wind, light attenuation, and coastal ocean color (from satellites) as proxies for detecting and interpreting significant reef circulation events. The onshore flux page describes these efforts in more detail. Understanding the connection of coral reefs with the wider world through larger-scale oceanography is also an active area of research using shipboard measurements.

    Finally, sea temperature, a physical oceanographic variable, is in itself a significant driver of coral reef ecosystems. Understanding the balance of air-sea fluxes, convection, and ocean currents that force sea temperature change over reefs, the so-called reef heat budget, is a major area of research within CHAMP right now.

  • Modeling Onshore Flux

    Modeling Onshore FluxThe CHAMP project has developed an ecoforecast model that seeks to now-cast onshore flux directly, by matching characteristic patterns in physical data on the reef.

  • Reef Heat Budgets

    Reef Heat BudgetsQuality-controlled, in situ data have been combined with high-resolution atmospheric reanalyses from the NOAA National Centers for Environmental Prediction (NCEP), together with models and satellite data, to estimate surface radiative and turbulent heat fluxes and heat advection for monitored sites.