This project ensures that the existing data from previous fishery independent surveys can be combined with data collected under new methodology, ensuring preservation of long-time series reef fish datasets in the US Caribbean. Specifically, this archived dataset are the site level fish abundance and size observations collected simultaneously by one transect diver and a pair of stationary point count divers at survey sites in Puerto Rico and the U.S. Virgin Islands. These collection methods represent the pre- National Coral Reef Monitoring Program (NCRMP) belt-transect survey methodology and the currently used Reef Visual Census (RVC) survey methodology, respectively. More information about the methodologies can be found (Jeffrey 2019 & CRCP 2022). In the U.S. Caribbean, the National Coral Reef Monitoring Program began in 2012. Initially, the belt transect method was used for fish surveys, but then transitioned to the RVC method in all the U.S. Caribbean by 2016. This dataset is the field samples collected in order to properly calibrate belt transect data to RVC data.

The Belt Transect method is used to conduct fish surveys in St. Croix, US Virgin Islands (USVI) as part of the National Coral Reef Monitoring Program (NCRMP). The Belt Transect method collects and reports information on species composition, density, size, abundance and derived metrics (e.g., species richness, diversity). Surveys are concurrent with and along the same transect as the Line Point-Intercept (LPI) benthic survey. Data provided in this data set were collected around the USVI as part of NOAA National Centers for Coastal Ocean Science (NCCOS)-led missions in collaboration with partners at the NOAA National Marine Fisheries Service (NMFS) Southeast Fisheries Science Center, the National Park Service, USVI Department of Planning and Natural Resources, University of the Virgin Islands, University of Miami, Nova Southeastern University, The Nature Conservancy, and U.S. Environmental Protection Agency.

This project employed specialized technical SCUBA diving methods to provide the first assessment of population dynamics and habitat-related life history of reef fishes on the mesophotic reef habitat in St. Thomas and St. John, U.S. Virgin Islands that can improve Caribbean island-based stock assessments. This project used NOAA Coral Reef Conservation Program (CRCP) National Coral Reef Monitoring Program's (NCRMP) standardized Reef Visual Census (RVC) survey methods that were developed by multiple agencies over 35 years ago and adopted as the standard reef fish monitoring method in 2010 for the U.S. territories. Exact protocols can be referenced in peer-reviewed publications (e.g., Bohnsack and Bannerot, 1986; Ault et al. 2006; Smith et al. 2011). The mesophotic fishery-independent survey information extends the ongoing biennial NCRMP survey (0-30m) out to 60 meters along the insular shelf and expands the surveyed hard bottom habitat by 143%. Key fishery metrics (density, occurrence, abundance, biomass, size-structured abundance etc.) can be calculated using standard analytical survey techniques (Smith et al. 2011).

This fish and benthic composition database is the result of a multifaceted effort described below. The intent of this work is five fold: 1) To spatially characterize and monitor the distribution, abundance, and size of both reef fishes and macro-invertebrates (conch, lobster, Diadema); 2) To relate this information to in-situ data collected on associated benthic composition parameters; 3) To use this information to establish the knowledge base necessary for enacting management decisions in a spatial setting; 4) To establish the efficacy of those management decisions; and 5) To work with the National Coral Reef Monitoring Program to develop data collection standards and easily implemented methodologies for transference to other agencies and to work toward standardizing data collection throughout the US states and territories. Toward this end, the Center for Coastal Monitoring and Assessment's Biogeography Branch (BB) has been conducting research in Puerto Rico and the US Virgin Islands since 2000 and 2001, respectively. It is critical, with recent changes in management at both locations (e.g. implementation of MPAs) as well as proposed changes (e.g. zoning to manage multiple human uses) that action is taken now to accurately describe and characterize the fish/macro-invertebrate populations in these areas. It is also important that BB work closely with the individuals responsible for recommending and implementing these management strategies. Recognizing this, BB has been collaborating with partners at the University of Puerto Rico, National Park Service, US Geological Survey and the Virgin Islands Department of Planning and Natural Resources.

To quantify patterns of spatial distribution and make meaningful interpretations, we must first have knowledge of the underlying variables determining species distribution. The basis for this work therefore, is the nearshore benthic habitats maps (less than 100 ft depth) created by NOAA's Biogeography Program in 2001 and NOS' bathymetry models. Using ArcView GIS software, the digitized habitat maps are stratified to select sampling stations. Sites are randomly selected within these strata to ensure coverage of the entire study region and not just a particular reef or seagrass area. At each site, fish, macro-invertebrates, and benthic composition information is then quantified following standardized protocols. By relating the data collected in the field back to the habitat maps and bathymetric models, BB is able to model and map species level and community level information. These protocols are standardized throughout the US Caribbean to enable quantification and comparison of reef fish abundance and distribution trends between locations. Armed with the knowledge of where "hot spots" of species richness and diversity are likely to occur in the seascape, the BB is in a unique position to answer questions about the efficacy of marine zoning strategies (e.g. placement of no fishing, anchoring, or snorkeling locations), and what locations are most suitable for establishing MPAs. Knowledge of the current status of fish/macro-invertebrate communities coupled with longer term monitoring will enable evaluation of management efficacy, thus it is essential to future management actions. In October 2010, the regular St. Croix survey area was extended eastward and southward to encompass a more extensive area of East End Marine Park. The purpose of this modification was to collect information on the distribution and diversity of marine communities across the zones in the southern half of EEMP where presently very little information is available. The survey techniques used are compatible with those used for the northern portion of EEMP and neighboring Buck Island Reef National Monument to facilitate comparative analyses. In water surveys collected data on federally listed Acropora species, Nassau grouper and other fauna of special concern (i.e. conch, sea urchins, lobster and the invasive lionfish).

This fish and benthic composition database is the result of a multifaceted effort described below. The intent of this work is five fold: 1) To spatially characterize and monitor the distribution, abundance, and size of both reef fishes and macro-invertebrates (conch, lobster, Diadema); 2) To relate this information to in-situ data collected on associated benthic composition parameters; 3) To use this information to establish the knowledge base necessary for enacting management decisions in a spatial setting; 4) To establish the efficacy of those management decisions; and 5) To work with the National Coral Reef Monitoring Program to develop data collection standards and easily implemented methodologies for transference to other agencies and to work toward standardizing data collection throughout the US states and territories. Toward this end, the Center for Coastal Monitoring and Assessment's Biogeography Branch (BB) has been conducting research in Puerto Rico and the US Virgin Islands since 2000 and 2001, respectively. It is critical, with recent changes in management at both locations (e.g. implementation of MPAs) as well as proposed changes (e.g. zoning to manage multiple human uses) that action is taken now to accurately describe and characterize the fish/macro-invertebrate populations in these areas. It is also important that BB work closely with the individuals responsible for recommending and implementing these management strategies. Recognizing this, BB has been collaborating with partners at the University of Puerto Rico, National Park Service, US Geological Survey and the Virgin Islands Department of Planning and Natural Resources.

To quantify patterns of spatial distribution and make meaningful interpretations, we must first have knowledge of the underlying variables determining species distribution. The basis for this work therefore, is the nearshore benthic habitats maps (less than 100 ft depth) created by NOAA's Biogeography Program in 2001 and NOS' bathymetry models. Using ArcView GIS software, the digitized habitat maps are stratified to select sampling stations. Sites are randomly selected within these strata to ensure coverage of the entire study region and not just a particular reef or seagrass area. At each site, fish, macro-invertebrates, and benthic composition information is then quantified following standardized protocols. By relating the data collected in the field back to the habitat maps and bathymetric models, BB is able to model and map species level and community level information. These protocols are standardized throughout the US Caribbean to enable quantification and comparison of reef fish abundance and distribution trends between locations. Armed with the knowledge of where "hot spots" of species richness and diversity are likely to occur in the seascape, the BB is in a unique position to answer questions about the efficacy of marine zoning strategies (e.g. placement of no fishing, anchoring, or snorkeling locations), and what locations are most suitable for establishing MPAs. Knowledge of the current status of fish/macro-invertebrate communities coupled with longer term monitoring will enable evaluation of management efficacy, thus it is essential to future management actions.

Starting in 2010, the regular La Parguera survey area was extended eastward to encompass the Guanica Bay region. The purpose of this modification was to conduct a baseline assessment of fish, macro-invertebrates (conch, lobster, Diadema) and benthic communities in support of Guanica Bay watershed restoration, and then to monitor changes over time. A watershed management plan was developed in 2008 by the Center for Watershed Protection, in cooperation with various Divisions of Puerto Rico DNER and NOAA, to identify priority management recommendations and implementation strategies for the Guánica watershed based on input from local experts, observations from on-the-ground assessments, and a comprehensive review of existing studies and applicable local rules and regulations. The Guánica watershed was selected for the watershed planning project because it is a priority of the Commonwealth for conservation of the near shore coral reef habitat, which has been steadily declining in condition during the past several decades. Information collected during this survey will provide critical baseline information for the watershed and adjacent coral reefs which will be used to evaluate the effectiveness of the restoration project implemented. More information on the Guanica Bay project can be found at: http://ccma.nos.noaa.gov/ecosystems/coralreef/guanica.aspx and http://data.nodc.noaa.gov/geoportal/catalog/search/resource/details.page?uuid=%7B708DCA44-46A2-434D-A83C-ED220C029174%7D

The Puerto Rico Long-Term Coral Reef Monitoring Program (PRCRMP) database compilation includes raw biological data (by transect) from reef locations around the Puerto Rican archipelago. Substrate cover by sessile-benthic categories and fish, and motile megabenthic invertebrate taxonomic composition and densities have been characterized in these stations, with variable sampling event frequencies between 1999 to 2021. At present, 42 permanent stations are surveyed biannually (21 per year). For the benthic characterization, a set of five 10-meter-long permanent transects are surveyed at each station. Sessile-benthic reef communities are characterized by the continuous intercept chain-link method, following the Caribbean Coastal Marine Productivity (CARICOMP) (1994) protocol. Demersal diurnal non-cryptic reef fish populations and motile megabenthic invertebrates are surveyed by sets of five 10 x 3 meters wide (30 m2) belt-transects centered along the reference line of transects used for sessile-benthic characterizations at each reef station. From 2004-2013, a diver completed an Active Search Census (ASEC) survey for 30 minutes annotating sizes and abundances of fish and macroinvertebrate species of interest. From 2015, the ASEC survey methodology was replaced by 20 x 3 meters (60 m2) band transects to identify commercially and ecologically important fish and megabenthic invertebrate species. Upon completion of the 10 meters belt-transect survey, the diver swims along the same depth and physiographic reef zone for an extra 10 meters to complete the 60 m2 transect. For each fish individual within the ASEC survey (2004-2013) and 60m2 band transects (2015-2021), a visual fork length (FL) estimate in centimeters is recorded. Fish length estimations are provided by the median of 5cm interval size classes. The cephalothorax length (measurement from the tip of the rostrum to end of the thorax), also known as carapace length (CL) in centimeters is used to report the size of lobsters (Panulirus spp., Scyllarides spp.) within belt-transects. Queen conch (Lobatus gigas) length is reported as the total (diagonal) shell length in centimeters. With the length-weight relationship information available in FishBase.org, biomass estimates are calculated for a subset of commercially and ecologically important fish species. The PRCRMP database was made possible with support from the National Oceanic and Atmospheric Administrations Coral Reef Conservation Program.

This fish database is the result of a mutlifaceted effort described below. The intent of this work is five fold: 1) To spatially characterize and monitor the distribution, abundance, and size of both reef fishes and macro-invertebrates (conch, lobster, Diadema); 2) To relate this information to in-situ data collected on water quality and associated habitat parameters; 3) To use this information to establish the knowledge base necessary for enacting management decisions in a spatial setting; 4) To establish the efficacy of those management decisions; and 5) To work with the National Coral Reef Monitoring Program to develop data collection standards and easily implemented methodologies for transference to other agencies and to work toward standardizing data collection throughout the US states and territories. Toward this end, the Center for Coastal Monitoring and Assessment's Biogeography

Team (BT) has been conducting research in Puerto Rico and the US Virgin Islands since 2000 and 2001, respectively. It is critical, with recent changes in management at both locations (e.g. implementation of MPAs) as well as proposed changes (e.g. zoning to manage multiple human uses) that action is taken now to accurately describe and characterize the fish/macro-invertebrate populations in these areas. It is also important that BT work closely with the individuals responsible for recommending and implementing these management strategies. Recognizing this, BT has been collaborating with partners at the University of Puerto Rico, National Park Service, US Geological Survey and the Virgin Islands Department of Planning and Natural Resources.

To quantify patterns of spatial distribution and make meaningful interpretations, we must first have knowledge of the underlying variables determining species distribution. The basis for this work therefore, is the nearshore benthic habitats maps (less than 100 ft depth) created by NOAA's Biogeography Program in 2001 and NOS' bathymetry models. Using ArcView GIS software, the digitized habitat maps are stratified to select sampling stations. Sites are randomly selected within these strata to ensure coverage of the entire study region and not just a particular reef or seagrass area. At each site, fish, macro-invertebrates, and associated water quality and habitat information is then quantified following standardized protocols. By relating the data collected in the field back to the habitat maps and bathymetric models, BT is able to model and map species level and community level information. These protocols are standardized throughout the US Caribbean to enable quantification and comparison of reef fish abundance and distribution trends between locations. Armed with the knowledge of where "hot spots" of species richness and diversity are likely to occur in the seascape, the BT is in a unique position to answer questions about the efficacy of marine zoning strategies (e.g. placement of no fishing, anchoring, or snorkeling locations), and what locations are most suitable for establishing MPAs. Knowledge of the current status of fish/macro-invertebrate communities coupled with longer term monitoring will enable evaluation of management efficacy, thus it is essential to future management actions.

The intent of this work is five fold: 1) To spatially characterize and monitor the distribution, abundance, and size of both reef fishes and macro-invertebrates (conch, lobster, Diadema); 2) To relate this information to in-situ data collected on associated benthic composition parameters; 3) To use this information to establish the knowledge base necessary for enacting management decisions in a spatial setting; 4) To establish the efficacy of those management decisions; and 5) To work with the National Coral Reef Monitoring Program to develop data collection standards and easily implemented methodologies for transference to other agencies and to work toward standardizing data collection throughout the US states and territories. Toward this end, the Center for Coastal Monitoring and Assessment's Biogeography Branch (BB) has been conducting research in Puerto Rico and the US Virgin Islands since 2000 and 2001, respectively. It is critical, with recent changes in management at both locations (e.g. implementation of MPAs) as well as proposed changes (e.g. zoning to manage multiple human uses) that action is taken now to accurately describe and characterize the fish/macro-invertebrate populations in these areas. It is also important that BB work closely with the individuals responsible for recommending and implementing these management strategies. Recognizing this, BB has been collaborating with partners at the University of Puerto Rico, National Park Service, US Geological Survey and the Virgin Islands Department of Planning and Natural Resources.

To quantify patterns of spatial distribution and make meaningful interpretations, we must first have knowledge of the underlying variables determining species distribution. The basis for this work therefore, is the nearshore benthic habitats maps (less than 100 ft depth) created by NOAA's Biogeography Program in 2001 and NOS' bathymetry models. Using ArcView GIS software, the digitized habitat maps are stratified to select sampling stations. Sites are randomly selected within these strata to ensure coverage of the entire study region and not just a particular reef or seagrass area. At each site, fish, macro-invertebrates, and benthic composition information is then quantified following standardized protocols. By relating the data collected in the field back to the habitat maps and bathymetric models, BB is able to model and map species level and community level information. These protocols are standardized throughout the US Caribbean to enable quantification and comparison of reef fish abundance and distribution trends between locations. Armed with the knowledge of where "hot spots" of species richness and diversity are likely to occur in the seascape, the BB is in a unique position to answer questions about the efficacy of marine zoning strategies (e.g. placement of no fishing, anchoring, or snorkeling locations), and what locations are most suitable for establishing MPAs. Knowledge of the current status of fish/macro-invertebrate communities coupled with longer term monitoring will enable evaluation of management efficacy, thus it is essential to future management actions. In October 2010, the regular St. Croix survey area was extended eastward and southward to encompass a more extensive area of East End Marine Park. The purpose of this modification was to collect information on the distribution and diversity of marine communities across the zones in the southern half of EEMP where presently very little information is available. The survey techniques used are compatible with those used for the northern portion of EEMP and neighboring Buck Island Reef National Monument to facilitate comparative analyses. In water surveys collected data on federally listed Acropora species, Nassau grouper and other fauna of special concern (i.e. conch, sea urchins, lobster and the invasive lionfish).

The National Oceanic and Atmospheric Administration’s (NOAA) Biogeography Branch, in consultation with NOAA’s Office of Response and Restoration (OR&R) and other local and regional experts, is conducting an ecological characterization of the marine ecosystem around Vieques Island, Puerto Rico. The assessment will support effective management and conservation of marine resources in Vieques as a whole. To date a spatially comprehensive assessment of coral reef and hardbottom habitat around Vieques has been lacking. To fill this gap, the Biogeography Branch is expanding long term monitoring efforts to Vieques to collect detailed information about the benthic habitats, fish, and invertebrate communities. Spatially comprehensive information on reefs and hardbottom is vital to future management of the marine resources around Vieques. The collected data will be used to quantify the abundance and spatial distribution of fish, corals, and benthic invertebrates on hardbottom habitats around Vieques. Further, with regular monitoring, changes in the composition and condition of Vieques reefs over time can be detected.

Data is collected using established protocols and monitoring efforts consistent with NOAA's National Coral Reef Monitoring Program and the Biogeography Branch's long-term monitoring efforts in southwest Puerto Rico and the US Virgin Islands since 2000 and 2001, respectively. The intent of this work is: 1) To spatially characterize and monitor the distribution, abundance, and size of both reef fishes and macro-invertebrates (conch, lobster, Diadema); 2) To relate this information to in-situ data collected on associated benthic composition parameters; and 3) To use this information to establish the knowledge base necessary for enacting management decisions in a spatial setting. It is critical, with recent changes in land and maritime use in Vieques (i.e., transfer of former Navy lands to the Fish and Wildlife Service, the Municipality in Vieques, and the Puerto Rico Conservation Trust) that action is taken now to accurately describe and characterize the fish/macro-invertebrate populations in these areas.

To quantify patterns of spatial distribution and make meaningful interpretations, we must first have knowledge of the underlying variables determining species distribution. The basis for this work, is the nearshore benthic habitats maps (less than 100 ft depth) created by NOAA's Biogeography Program in 2001 and NOS' bathymetry models. Using ArcView GIS software, the digitized habitat maps are used to select reef/hardbottom habitat that is further stratified by proximity to former land use and geographic side of the island (i.e., north vs. south) to select sampling stations. Sites are randomly selected within these strata to ensure coverage of the entire study region and not just a particular reef. At each site, fish, macro-invertebrates, and benthic composition information is then quantified following standardized protocols. By relating the data collected in the field back to the habitat maps and bathymetric models, the Biogeography Branch is able to model and map species level and community level information. These protocols are standardized throughout the US Caribbean to enable quantification and comparison of reef fish abundance and distribution trends between Vieques and the other locations. Knowledge of the current status of fish/macro-invertebrate communities coupled with longer term monitoring will enable evaluation of management efficacy, thus it is essential to future management actions.

This project was funded for two years by CRCP (FY13-14) and built upon one year of pilot work conducted in FY12 funded by NMFS-SEFSC and SERO as an NRC postdoctoral research fellowship (Huntington). The goals of the project were to characterize natural, robust Acropora cervicornis populations in different regions, including various aspects of A.cervicornis condition, function (growth and tissue condition), and resident fish assemblages. To this end, we conducted surveys at sites in four regions (i.e., Dry Tortugas, Southeast Florida, Belize, USVI) designed to span the range of natural A.cervicornis density present each region. In addition, we conducted similar surveys within restored populations of A.cervicornis at two sites in Puerto Rico with high density restored A.cervicornis populations. Lastly, we undertook three hypothesis-driven studies in the Dry Tortugas region only, to investigate the potential for positive feedbacks between the sheltering reef fish community and high density stands of A. cervicornis. A macroagal bioassay was used to determine the relative bioavailability of nutrients in the water surrounding high density versus low density stands of A. cervicornis. Wild tissue collections of A. cervicornis occurred at these same sites to compare nutrient concentration and zooxanthellae density within colonies. Lastly, a transplant experiment was conducted at these sites to see if higher coral condition could be induced in coral fragments transplanted from a single (sparse) colony into the high density A. cervicornis site compared to the sparse site.

These data were collected 2011-2012 from select locations on St. Thomas, St. Croix, and St. John (U.S. VI) in order to 1) to spatially characterize and monitor the distribution, abundance, and size of both reef fishes and macro-invertebrates (conch, lobster, Diadema); 2) to relate this information to in situ data collected on water quality and associated habitat parameters; 3) to use this information to establish the knowledge base necessary for enacting management decisions in a spatial setting; 4) to establish the efficacy of those management decisions; 5) to work with the National Coral Reef Monitoring Program to develop data collection standards and easily implemented methodologies for transference to other agencies and to work toward standardizing data collection throughout the U.S. states and territories; and to 6) conduct a baseline characterization of fish and benthic communities.

This work was variously conducted in collaboration with the Virgin Islands Department of Planning and Natural Resources, the Nature Conservancy, the University of Miami, the U.S. Department of Interior National Park Service and the University of the Virgin Islands.

These data include benthic habitat data (benthic coverage type, species, percent cover), reef fish survey data (habitat and species), and macroinvertebrate counts with included metadata in FGDC (Federal Geographic Data Committee) format. Data are in ASCII, Microsoft EXCEL, and .csv format and are in individual subfolders by year and island location.

Reef fish populations are a conspicuous and essential component of USVI coral reef ecosystems. Yet despite their importance, striking population and community level changes have occurred in the recent past due to fishing pressure and habitat degradation. The monitoring methodologies described in this document are necessary for understanding how natural and anthropogenic stressors are changing reef fish populations and communities and will be critical for their sustainable management. A collaborative research effort between the NOAA’s National Centers for Coastal Ocean Science, Center for Coastal Monitoring and Assessment’s Biogeography Branch (BB) and the National Park Service (NPS) has been used to inventory and assess reef fish populations in reef and reef-associated habitats in the northeast region of St. Croix from 2001-2011. The survey method previously used has been refined to enable broader region-wide coverage at the scale of the USVI yet maintains high precision at the Marine Protected Area (MPA) spatial level. Region-wide population metric estimates are required to effectively manage reef fisheries but are also imperative for spatial management and understanding ecosystem-level processes. For example, the ability to place protected fish resources in the context of the greater region not only allows for the evaluation of management actions but it also provides the ability to determine the ecological role of an MPA in the greater ecosystem. The monitoring method previously used by the Biogeography Branch and other partners in St. Croix and other regions within the USVI and Puerto Rico will be used to characterize and establish baseline data for future monitoring. St. Croix was chosen to serve as the first area to implement the protocol and to evaluate the logistics necessary to implement a long term monitoring program. Characterization and monitoring of fish communities requires a quantitative measure of the spatial distribution and variation of those communities. These measures will enable managers to make targeted management decisions (e.g. where to allow mooring or where to allow recreational activities such as snorkeling and SCUBA diving). Additionally, the spatial setting, both within and outside protected regions allows managers to assess the impact, if any, of a change in regulation such as the prohibition of fishing. It also enables analysis of any differential effect (i.e. the effect may be the same throughout the region or it may be more effective toward an edge or center of a management area). To quantify patterns of spatial distribution and make meaningful interpretations, we must first have knowledge of the underlying variables determining species distribution. The basis for this work therefore, is the nearshore benthic habitats maps (less than 100 ft depth) created by NOAA's Biogeography Program in 2001 and NOS' bathymetry models. The sampling domain includes all hardbottom habitats around St. Croix at depths less than 30m. The benthic habitat map and a habitat classification scheme were used to create a sample frame constructed with 50 x 50 m grids. Grids were stratified based on three variables: Hardbottom habitat type, depth zone, and region/management area. Habitat within these grids was stratified into 5 habitat categories (scattered coral/ rock, pavement, bedrock, patch reef and linear reef) each with two depth classifications (shallow (0-11.9 m) and deep (12- 30m)). Further stratification was assigned based on management zones and region of the island. There are three managed areas in St. Croix. Two federal marine protected areas are managed by the Department of Interior’s National Park Service: Buck Island Reef National Monument and Salt River Bay National Historical Park and Ecological Reserve. The St. Croix East End Marine Park is a territorial marine protected area managed by the USVI Department of Planning and Natural Resources. Other strata include specific regions of St. Croix: North, East, West, and South shores. Overall there were 70 possible strata: 5 habitat types, 2 depth zones and 8 management areas/regions. The monitoring objectives of this protocol are to determine status, trends, and variability in exploited reef fish species and communities within the USVI region and inside vs. outside different management zones, using measures such as relative abundance (density), spatial distribution, size structure and diversity. The survey design is optimized for nine economically and ecologically important species in the USVI: blue tang (Acanthurus coeruleus). queen triggerfish (Balistes vetula), coney (Cephalopholis fulva), red hind (Epinephelus guttatus), foureye butterflyfish (Chaetodon capistratus), French grunt (Haemulon flavolineatum), yellowtail snapper (Ocyurus chrysurus), stoplight parrotfish (Sparisoma viride) and threespot damselfish (Stegast... Visit https://dataone.org/datasets/%7BD10A9143-FDD1-4698-BEE0-2A49ECCE908F%7D for complete metadata about this dataset.

The project originated from an ongoing collaboration between USDA (U.S. Department of Agriculture) and NOAA on the U.S. Coral Reef Task Force. The Conservation Effects Assessment Project (CEAP) was developed in 2003 by the USDA as a multi-agency effort to quantify the environmental benefits of conservation practices applied by private landowners. Ten Special Emphasis Watersheds (SEW) were identified throughout the U.S. to address specific resource concerns such as animal feeding operations, water use, drainage management and wildlife habitat restoration. The Jobos Bay watershed was selected by CEAP partners as the first tropical CEAP SEW with the goal of identifying innovative conservation practices that will enhance the health of coral reef ecosystems. The project’s general approach includes describing the baseline conditions in Jobos Bay, implementing agricultural conservation practices on the watershed and measuring the response in Jobos Bay’s water quality, biogeochemistry, benthic habitats and marine biota. It is anticipated that relatively short term changes will be measured in water quality and marine sediments; while long-term changes in higher trophic levels, such as fishes, may be detected in out-years. The baseline biological monitoring was conducted in June 2009 by the Center for Coastal Monitoring and Assessment's Biogeography Branch. Biogeography Branch staff used monitoring protocols developed under NOAA’s Caribbean Coral Reef Ecosystem Monitoring Project, which have been used since 2001 to monitor fish and benthic habitats in Puerto Rico and the U.S. Virgin Islands. These protocols are standardized throughout the US Caribbean to enable quantification and comparison of reef fish abundance and distribution trends between locations. Specific objectives were: (1) to spatially characterize and monitor the distribution, abundance, and size of both reef fishes and macro-invertebrates (conch, lobster and sea urchin), (2) to relate this information to in situ data collected on associated benthic composition parameters, (3) to use this information to establish the knowledge base necessary for enacting management decisions in a spatial setting, and (4) to establish the efficacy of those management decisions. Using ArcView GIS software, nearshore benthic habitat maps created by NOAA’s BB in 2001 were stratified to select sampling stations. Sites were randomly selected within these strata to ensure coverage of the entire study region and not just a particular reef or seagrass area. At each site, fish, macro-invertebrates, and benthic composition information were then quantified following standardized protocols. By relating the data collected in the field back to the habitat maps and bathymetric models, BB is able to model and map species level and community level information.

The Long-Term Monitoring at the East and West Flower Garden Banks National Marine Sanctuary 2002-2006 data include biological and oceanographic measurements collected to satisfy the MMS and NOAA contracts 1435-01-02-CT-85088 and 1435-01-04-CT-33137 through the monitoring year 2006. The Flower Garden Banks are located in the northwest Gulf of Mexico and are unique within the region. The Flower Garden Banks are coral reefs with biological assemblages typical of Caribbean coral reefs, including approximately 23 Caribbean scleractinian coral species, a low abundance and diversity of sponges, and reef fishes. These data are the result of yearly monitoring events and are used for comparison purposes required to complete technical reports and presentations. Statistical analyses, photographs, and videography are not included in this submission. On the East and West Flower Garden Banks there are 100 m by 100m study sites within which monitoring is conducted every year. The data included in this submission are from these study sites and include the following: (1) random transect benthic cover data obtained using videography (2002-2006), still photographs (2002-2003) and linear point intercept observer data (2002-2003). Random transect data include the proportional cover of benthic components including coral species, sponges, algae, and other groups. (2) Sclerochronology data are taken during odd years to look at short-term (10 years) change in coral growth rates. (3) Photographs of marked Diploria strigosa colony margins are taken annually to track lateral growth or recession of colony margins over time. Data within this dataset start with comparisons between 2001 and 2002. (4) Repetitive 8m2 quadrat planimetry data follow specific coral colonies over time. Coral colonies are traced each year to measure lateral growth, loss, and/or replacement within a continuously monitored 8m2 area. Data within this dataset start with comparisons between 2001 and 2002. (5) Abiotic water quality parameters are recorded on a continual basis using YSI datasondes. Data include temperature, specific conductivity, dissolved oxygen concentration, dissolved oxygen charge, pressure, depth, pH, pHmV, par1, par2, turbidity, and salinity. Additionally, HoboTemp thermographs are used as a back-up to record temperature. On YSI datasonde changeout cruises water samples are taken at surface, mid-water and at the benthos for nutrient and cholorphyll analysis. (6) Fish population surveys are completed to monitor fish species abundance and size from year to year.

Benthic data collection for the National Coral Reef Ecosystem Monitoring Program (NCRMP) consists of two survey types: the Line Point-Intercept (LPI) method and the Coral Demographic method. The LPI method provides a measure of percent cover of biotic and abiotic components of the benthos in a stratified random sampling design in hardbottom and coral reef habitats. LPI surveys are concurrent with and along the same transect as fish surveys. The coral demographics protocol provide more detailed and species-specific insight (‘signal magnitude’) for coral populations than is provided by percent cover. Demographic surveys are conducted at a subset of fish/Line Point-Intercept sample sites, along the same transect as fish surveys. Data provided in this data set were collected around Puerto Rico as part of NOAA National Centers for Coastal Ocean Science (NCCOS)-led missions in collaboration with partners at the University of Puerto Rico, HJR Reefscaping, Ecoelectrica, Puerto Rico Department of Natural and Environmental Resources (Departamento de Recursos Naturales y Ambientales), the University of the Virgin Islands and U.S. Department of Fish and Wildlife.

Benthic data collection for the National Coral Reef Ecosystem Monitoring Program (NCRMP) consists of two survey types: the Line Point-Intercept (LPI) method and the Coral Demographic method. The LPI method provides a measure of percent cover of biotic and abiotic components of the benthos in a stratified random sampling design in hardbottom and coral reef habitats. LPI surveys are concurrent with and along the same transect as fish surveys. The coral demographics protocol provide more detailed and species-specific insight (‘signal magnitude’) for coral populations than is provided by percent cover. Demographic surveys are conducted at a subset of fish/Line Point-Intercept sample sites, along the same transect as fish surveys. Data provided in this data set were collected around the U.S. Virgin Islands (USVI) as part of NOAA National Centers for Coastal Ocean Science (NCCOS)-led missions in collaboration with partners at the NOAA National Marine Fisheries Service (NMFS) Southeast Fisheries Science Center, the National Park Service, USVI Department of Planning and Natural Resources, University of the Virgin Islands, University of Miami, Nova Southeastern University, The Nature Conservancy, and U.S. Environmental Protection Agency.

To better understand the functional roles of parrotfishes on Caribbean coral reefs we documented abundance, habitat preferences, and diets of nine species of parrotfishes (Scarus coelestinus, Scarus coeruleus, Scarus guacamaia, Scarus taeniopterus, Scarus vetula, Sparisoma aurofrenatum, Sparisoma chrysopterum, Sparisoma rubripinne, Sparisoma viride) on three high-relief spur-and-groove reefs (Molasses, Carysfort, and Elbow) offshore of Key Largo in the Florida Keys National Marine Sanctuary. On each reef, we conducted fish surveys, behavioral observations, and benthic surveys in three habitat types: high-relief spur and groove (depth 2 - 6 m), low-relief carbonate platform/hardbottom (depth 4 - 12 m), and carbonate boulder/rubble fields (depth 4 - 9 m). In addition, fish surveys were also conducted on a fourth high-relief spur-and-groove reef (French). We estimated parrotfish abundance in each of the three habitat types in order to assess the relative abundance and biomass of different species and to quantify differences in habitat selection. To estimate parrotfish density, we conducted 20 to 30 minute timed swims while towing a GPS receiver on a float on the surface to calculate the amount of area sampled. During a swim the observer would swim parallel with the habitat type being sampled and count and estimate the size to the nearest cm of all parrotfishes greater than or equal to 15 cm in length that were encountered in a 5 m wide swath. To quantify parrotfish behavior, approximately six individuals of each species were observed at each site for 20 min each. Foraging behavior was recorded by a SCUBA diver while towing a GPS receiver (Garmin GPS 72) attached to a surface float, which obtained position fixes of the focal fish at 15 s intervals. Fish were followed from a close distance (~ 2 m when possible), and food items were identified to the lowest taxonomic level possible, with macroalgae and coral usually identified to genus or species. Many bites involved scraping or excavating substrate colonized by a multi-species assemblage of filamentous “turf” algae and crustose coralline algae (CCA). Thus, multiple species of filamentous algae, endolithic algae, and CCA could be harvested in a single bite, and it was impossible to determine the specific species of algae targeted. We also recorded the type of substrate targeted during each foraging bout, categorizing each substrate as one of the following: (1) dead coral, (2) coral pavement, (3) boulder, (4) rubble, or (5) ledge. Dead coral included both convex and concave surfaces on the vertical and horizontal planes of three dimensional coral skeletons (primarily dead Acropora palmata) that were attached to reef substrate. Coral pavement was carbonate reef with little topographic complexity (i.e., flat limestone pavement). Boulder was large remnants of dead mounding corals not clearly attached to the bottom and often partially buried in sand. Coral rubble consisted of small dead coral fragments (generally < 10 cm in any dimension) that could be moved with minimal force. Ledges consisted entirely of the undercut sides of large spurs in the high-relief spur and groove habitat. In order to quantify the relative abundance of different food types, we estimated the percent cover of algae, coral, and other sessile invertebrates on each of the five substrates commonly targeted by parrotfishes (dead coral, coral pavement, boulder, rubble, or ledge) in 0.5 m x 0.5 m photoquadrats. We photographed a total of 8 haphazardly selected quadrats dispersed throughout the study site for each substrate type at each of the three sites (N = 24 quadrats per substrate type, N = 120 quadrats total). Each photoquadrat was divided into sixteen 12 cm x 12 cm sections which were individually photographed, and percent cover was estimated from 9 stratified random points per section (N = 144 point per quadrat).