Conservation and management applications of the REEF volunteer fish monitoring program

The REEF Fish Survey Project is a volunteer fish monitoring program developed by the Reef Environmental Education Foundation (REEF). REEF volunteers collect fish distribution and abundance data using a standardized visual method during regular diving and snorkeling activities. Survey data are recorded on preprinted data sheets that are returned to REEF and optically digitized. Data are housed in a publicly accessible database on REEF's Web site (http: //www.reef.org). Since the project's inception in 1993, over 40,000 surveys have been conducted in the coastal waters of North America, tropical western Atlantic, Gulf of California and Hawaii. The Fish Survey Project has been incorporated into existing monitoring programs through partnerships with government agencies, scientists, conservation organizations, and private institutions. REEF's partners benefit from the educational value and increased stewardship resulting from volunteer data collection. Applications of the data include an evaluation of fish/habitat interactions in the Florida Keys National Marine Sanctuary, the development of a multi-species trend analysis method to identify sites of management concern, assessment of the current distribution of species, status reports on fish assemblages of marine parks, and the evaluation of no-take zones in the Florida Keys. REEF's collaboration with a variety of partners, combined with the Fish Survey Project's standardized census method and database management system, has resulted in a successful citizen science monitoring program.     

Assessing the Effects of Non-Point Source Pollution on American Samoa’s Coral Reef Communities

Surveys were completed on Tutuila Island, American Samoa, to characterize reef development and assess the impacts of non-point source pollution on adjacent coral reefs at six sites. Multivariate analyses of benthic and coral community data found similar modern reef development at three locations; Aoa, Alofau, and Leone. These sites are situated in isolated bays with gentle sloping foundations. Aoa reefs had the highest estimates of crustose coralline algae cover and coral species richness, while Leone and Alofau showed high abundances of macroalgae and Porites corals. Aoa has the largest reef flat between watershed discharge and the reef slope, and the lowest human population density. Masefau and Fagaalu have a different geomorphology consisting of cemented staghorn coral fragments and steep slopes, however, benthic and coral communities were not similar. Benthic data suggest Fagaalu is heavily impacted compared with all other sites. Reef communities were assessed as bio-criteria indicators for waterbody health, using the EPA aquatic life use support designations of (1) fully supportive, (2) partially supportive, and (3) non-supportive for aquatic life. All sites resulted in a partially supportive ranking except Fagaalu, which was non-supportive. The results of this rapid assessment based upon relative benthic community measures are less desirable than long-term dataset analyses from monitoring programs, however it fills an important role for regulatory agencies required to report annual waterbody assessments. Future monitoring sites should be established to increase the number of replicates within each geological and physical setting to allow for meaningful comparisons along a gradient of hypothesized pollution levels.     

Biological community structure on patch reefs in Biscayne National Park, FL, USA

Coral reef ecosystem management benefits from continual quantitative assessment of the resources being managed, plus assessment of factors that affect distribution patterns of organisms in the ecosystem. In this study, we investigate the relationships among physical, benthic, and fish variables in an effort to help explain the distribution patterns of organisms on patch reefs within Biscayne National Park, FL, USA. We visited a total of 196 randomly selected sampling stations on 12 shallow (<10 m) patch reefs and measured physical variables (e.g., substratum rugosity, substratum type) and benthic and fish community variables. We also incorporated data on substratum rugosity collected remotely via airborne laser surveying (Experimental Advanced Airborne Research Lidar—EAARL). Across all stations, only weak relationships were found between physical, benthic cover, and fish assemblage variables. Much of the variance was attributable to a “reef effect,” meaning that community structure and organism abundances were more variable at stations among reefs than within reefs. However, when the reef effect was accounted for and removed statistically, patterns were detected. Within reefs, juvenile scarids were most abundant at stations with high coverage of the fleshy macroalgae Dictyota spp., and the calcified alga Halimeda tuna was most abundant at stations with low EAARL rugosity. Explanations for the overwhelming importance of “reef” in explaining variance in our dataset could include the stochastic arrangement of organisms on patch reefs related to variable larval recruitment in space and time and/or strong historical effects due to patchy disturbances (e.g., hurricanes, fishing), as well as legacy effects of prior residents (“priority” effects).     

Heavy metals fractionation in surface sediments of Gowatr bay-Iran

Establishing the effectiveness of habitat features to act as surrogate measures of diversity and abundance of juvenile reef fish provides information that is critical to coral reef management. When accurately set on a broader spatial context, microhabitat information becomes more meaningful and its management application becomes more explicit. The goal of the study is to identify coral reef areas potentially important to juvenile fishes in Ngederrak Reef, Republic of Palau, across different spatial scales. To achieve this, the study requires the accomplishment of the following tasks: (1) structurally differentiate the general microhabitat types using acoustics; (2) quantify microhabitat association with juvenile reef fish community structure; and (3) conduct spatial analysis of the reef-wide data and locate areas optimal for juvenile reef fish settlement. The results strongly suggest the importance of branching structures in determining species count and abundance of juvenile reef fish at the outer reef slope of Ngederrak Reef. In the acoustic map, the accurate delineation of these features allowed us to identify reef areas with the highest potential to harbor a rich aggregation of juvenile reef fish. Using a developed spatial analysis tool that ranks pixel groups based on user-defined parameters, the reef area near the Western channel of Ngederrak is predicted to have the most robust aggregation of juvenile reef fish. The results have important implications not only in management, but also in modeling the impacts of habitat loss on reef fish community. At least for Ngederrak Reef, the results advanced the utility of acoustic systems in predicting spatial distribution of juvenile fish.     

Characterizing Coral Condition Using Estimates of Three-dimensional Colony Surface Area

Coral reefs provide shoreline protection, biological diversity, fishery harvests, and tourism, all values that stem from the physically-complex coral infrastructure. Stony corals (scleractinians) construct and maintain the reef through deposition of calcium carbonate. Therefore, assessment of coral reefs requires at least some measurement endpoints that reflect the biological and physical condition of stony corals. Most monitoring programs portray coral quantity as live coral cover, which is the two-dimensional proportion of coral surface to sea floor viewed from above (planar view). The absence of the third dimension, however, limits our ability to characterize coral reef value, physiology, health and sustainability. A three-dimensional (3D) approach more realistically characterizes coral structure available as community habitat and, when combined with estimates of live coral tissue, quantifies the amount of living coral available for photosynthesis, growth and reproduction. A rapid coral survey procedure that coupled 3D coral quantification with more traditional survey measurements was developed and tested in the field. The survey procedure relied on only three underwater observations – species identification, colony size, and proportion of live tissue – made on each colony in the transect. These observations generated a variety of metrics, including several based on 3D colony surface area, that are relevant to reef management.     

Probability sampling of stony coral populations in the Florida Keys

Principles of probability survey design were applied to guide large-scale sampling of populations of stony corals and associated benthic taxa in the Florida Keys coral reef ecosystem. The survey employed a two-stage stratified random sampling design that partitioned the 251-km(2) domain by reef habitat types, geographic regions, and management zones. Estimates of the coefficient of variation (ratio of standard error to the mean) for stony coral population density and abundance ranged from 7% to 12% for four of six principal species. These levels of survey precision are among the highest reported for comparable surveys of marine species. Relatively precise estimates were also obtained for octocoral density, sponge frequency of occurrence, and benthic cover of algae and invertebrates. Probabilistic survey design techniques provided a robust framework for estimating population-level metrics and optimizing sampling efficiency.     

Review of the effects of in-stream pipeline crossing construction on aquatic ecosystems and examination of Canadian methodologies for impact assessment

Pipeline crossing construction alters river and stream channels, hence may have detrimental effects on aquatic ecosystems. This review examines the effects of crossing construction on fish and fish habitat in rivers and streams, and recommends an approach to monitoring and assessment of impacts associated with these activities. Pipeline crossing construction is shown to not only compromise the integrity of the physical and chemical nature of fish habitat, but also to affect biological habitat (e.g., benthic invertebrates and invertebrate drift), and fish behavior and physiology. Indicators of effect include: water quality (total suspended solids TSS), physical habitat (substrate particle size, channel morphology), benthic invertebrate community structure and drift (abundance, species composition, diversity, standing crop), and fish behavior and physiology (hierarchy, feeding, respiration rate, loss of equilibrium, blood hematocrit and leukocrit levels, heart rate and stroke volume). The Before-After-Control-Impact (BACI) approach, which is often applied in Environmental Effects Monitoring (EEM), is recommended as a basis for impact assessment, as is consideration of site-specific sensitivities, assessment of significance, and cumulative effects.     

Rapid survey protocol that provides dynamic information on reef condition to managers of the Great Barrier Reef

Managing to support coral reef resilience as the climate changes requires strategic and responsive actions that reduce anthropogenic stress. Managers can only target and tailor these actions if they regularly receive information on system condition and impact severity. In large coral reef areas like the Great Barrier Reef Marine Park (GBRMP), acquiring condition and impact data with good spatial and temporal coverage requires using a large network of observers. Here, we describe the result of ~10 years of evolving and refining participatory monitoring programs used in the GBR that have rangers, tourism operators and members of the public as observers. Participants complete Reef Health and Impact Surveys (RHIS) using a protocol that meets coral reef managers’ needs for up-to-date information on the following: benthic community composition, reef condition and impacts including coral diseases, damage, predation and the presence of rubbish. Training programs ensure that the information gathered is sufficiently precise to inform management decisions. Participants regularly report because the demands of the survey methodology have been matched to their time availability. Undertaking the RHIS protocol we describe involves three ~20 min surveys at each site. Participants enter data into an online data management system that can create reports for managers and participants within minutes of data being submitted. Since 2009, 211 participants have completed a total of more than 10,415 surveys at more than 625 different reefs. The two-way exchange of information between managers and participants increases the capacity to manage reefs adaptively, meets education and outreach objectives and can increase stewardship. The general approach used and the survey methodology are both sufficiently adaptable to be used in all reef regions.     

Artificial Reefs of Southeast Asia - Do They Enhance or Degrade the Marine Environment?

Artificial reefs are seen as effective tools to enhance the marine environment and increase productivity, particularly fish biomass and abundance. Many Southeast Asian countries have implemented artificial reef programmes. When effectively managed, artificial reefs enhance habitats and biological productivity. Management includes proper planning on the use and configuration of materials, site selection, and regulatory control of fisheries harvest. Without planning and long-term management, artificial reefs fail and become nothing more than pollutants that contribute to the further degradation of the marine environment.     

Temporal variation in a coral reef community at Pattaya Bay,Gulf of Thailand

Changes in the fringing coral reef community of a small island (Ko Nok) at Pattaya Bay, Gulf of Thailand, were examined at the beginning and at the end of a 3-year period using 7m×7m permanent quadrats for benthic organisms, and visual census along 100m transects for fish. The coral community was dominated by Porites lutea in terms of colony number and areal cover throughout the period. Variations in the community structure parameters on opposite sides of the island indicated increasing dissimilarity with time. Little variation in live coral cover was noted, but colony number and species diversity declined on both sides. The abundance of edible fish species dropped while that of non-edible species increased over the 3-year period, indicating selective removal of the former category through fishing. Impacts from both human and natural influences are implicated in these changes.     

Development and application of a video-mosaic survey technology to document the status of coral reef communities

The recent decline in the condition of coral reef communities worldwide has fueled the need to develop innovative assessment tools to document coral abundance and distribution rapidly and effectively. While most monitoring programs rely primarily on data collected in situ by trained divers, digital photographs and video are used increasingly to extract ecological indicators, provide a permanent visual record of reef condition, and reduce the time that divers spend underwater. In this study, we describe the development and application of a video-based reef survey methodology based on an algorithm for image registration and the estimation of image motion and camera trajectory. This technology was used to construct two-dimensional, spatially accurate, high-resolution mosaics of the reef benthos at a scale of up to 400 m². The mosaics were analyzed to estimate the size and percent cover of reef organisms and these ecological indicators of reef condition were compared to similar measurements collected by divers to evaluate the potential of the mosaics as monitoring tools. The ecological indicators collected by trained divers compared favorably with those measured directly from the video mosaics. Five out of the eight categories chosen (hard corals, octocorals, Palythoa, algal turf, and sand) showed no significant differences in percent cover based on survey method. Moreover, no significant differences based on survey method were found in the size of coral colonies. Lastly, the capability to extract the same reef location from mosaics collected at different times proved to be an important tool for documenting change in coral abundance as the removal of even small colonies (<10 cm in diameter) was easily documented. The two-dimensional video mosaics constructed in this study can provide repeatable, accurate measurements on the reef-plot scale that can complement measurements on the colony-scale made by divers and surveys conducted at regional scales using remote sensing tools.     

Community structure and coral status across reef fishing intensity gradients in Palk Bay reef,southeast coast of India

Coral reef fishes are exploited without the knowledge of their sustainability and their possible effect in altering the community structure of a coral reef ecosystem. Alteration of the community structure could cause a decline in the health of coral reefs and its services. We documented the coral community structure, status of live corals and reef fish assemblages in Palk Bay at the reef fishing hotspots and its nearby reef area with minimum fishing pressure and compared it with a control reef area where reef fishing was banned for more than two decades. The comparison was based on the percent cover of different forms of live corals, their diversity and the density and diversity of reef fishes. The reef fish stock in the reef fishing hotspots and its neighbouring reef was lower by 61 and 38 %, respectively compared to the control reef. The herbivore fish Scarus ghobban and Siganus javus were exploited at a rate of 250 and 105 kg month^?1 fishermen^?1, respectively, relatively high comparing the small reef area. Live and dead corals colonized by turf algae were predominant in both the reef fishing hotspots and its nearby coral ecosystems. The percent cover of healthy live corals and live corals colonized by turf algae was <10 and >80 %, respectively, in the intensively fished coral ecosystems. The corals were less diverse and the massive Porites and Favia colonies were abundant in the intensive reef fishing sites. Results of this study suggest that the impact of reef fish exploitation was not solely restricted to the intensively fished reefs, but also to the nearby reefs which play a critical role in the resilience of degraded reef ecosystems.     

Effect of diel period and season on seining effort required to detect changes in Lake Erie beach fish assemblages

Using beach seining data from Lake Erie beaches, we examined the effect of diel period and season on two common study objectives considered sensitive to sampling effort: (1) has fish assemblage composition changed between two sampling time periods?, and (2) how many samples are necessary to provide a representative sample of the fish assemblage? Across a range of effect sizes and power levels, sample sizes were estimated for species richness, total fish abundance, round goby (Neogobius melanostomus) abundance and emerald shiner (Notropis atherinoides) abundance. For most sampling periods and effect sizes, several hundred to several thousand seine hauls were estimated to be required for detecting large-scale (e.g. basin-wide) changes in round goby and emerald shiner abundance. Depending on the indicator of interest, night seining (either spring or fall) was interpreted as the most efficient approach. For both seasons, sampling effort beyond 40 to 50 night seine hauls results in few additional species being detected. Both species accumulation curves and estimated sample sizes indicate that less effort is required to detect species richness changes than fish abundance. For most effect sizes and power levels, estimates of the number of seine hauls required to detect changes in fish abundance are unrealistically large for most monitoring programs. More practical monitoring strategies could be achieved by adopting alternative indicators (e.g. guilds), a more liberal significance level (p=0.1), a paired-site sampling design, or including reference sites.     

Development and implementation of coral reef biocriteria in U.S. jurisdictions

Coral reefs worldwide are declining at an alarming rate and are under continuous threat from both natural and anthropogenic environmental stressors. Warmer sea temperatures attributed to global climate change and numerous human activities at local scales place these valuable ecosystems at risk. Reefs provide numerous services, including shoreline protection, fishing, tourism and biological diversity, which are lost through physical damage, overfishing, and pollution. Pollution can be controlled under provisions of the Clean Water Act, but these options have not been fully employed to protect coral reefs. No U.S. jurisdiction has implemented coral reef biocriteria, which are narrative or quantitative water quality standards based on the condition of a biological resource or assemblage. The President’s Ocean Action Plan directs the U.S. Environmental Protection Agency (EPA) to develop biological assessment methods and biological criteria for evaluating and maintaining the health of coral reef ecosystems. EPA has formed the Coral Reef Biocriteria Working Group (CRBWG) to foster development of coral reef biocriteria through focused research, evaluation and communication among Agency partners and U.S. jurisdictions. Ongoing CRBWG activities include development and evaluation of a rapid bioassessment protocol for application in biocriteria programs; development of a survey design and monitoring strategy for the U.S. Virgin Islands; comprehensive reviews of biocriteria approaches proposed by states and territories; and assembly of data from a variety of monitoring programs for additional metrics. Guidance documents are being prepared to assist U.S. jurisdictions in reaching protective and defensible biocriteria.     

Using underwater cameras to assess the effects of snorkeler and SCUBA diver presence on coral reef fish abundance, family richness, and species composition

The results of underwater visual fish censuses (UVC) could be affected by fish changing their behavior in response to the snorkeler or diver conducting the survey. We used an underwater video camera to assess how fish abundance, family richness, and community composition were affected by the presence of snorkelers (n?=?12) and self-contained underwater breathing apparatus (SCUBA) divers (n?=?6) on a coral reef in Thailand. The total number of families, abundance of some fish families, and overall species composition showed significant differences before and during snorkeling disturbances. We did not detect significant and consistent changes to these parameters in the presence of a SCUBA diver; however, this could be a result of lower statistical power. We suggest that the use of a stationary video camera may help cross-check data that is collected through UVC to assess the true family composition and document the presence of rare and easily disturbed species.     

Ecosystem Responses to Extreme Natural Events: Impacts of Three Sequential Hurricanes in Fall 1999 on Sediment Quality and Condition of Benthic Fauna in the Neuse River Estuary, North Carolina

A study was conducted in November 1999 to assess sediment quality and condition of benthic fauna in the Neuse River Estuary (NRE), North Carolina, USA, following the passage of three Atlantic hurricanes during the two months prior. Samples for analysis of macroinfauna (>0.5 mm sieve size), chemical contamination of sediments, and other abiotic environmental variables (salinity, dissolved oxygen, pH, depth, sediment granulometry) were collected at 20 sites from the mouth of the Neuse River at Pamlico Sound to approximately 90 km upstream. Results were compared to those obtained from the same area in July 1998 using similar protocols. Depressed salinity, caused by extreme rainfall and associated high freshwater flow, persisted throughout much of the estuary, which had experienced periods of water-column stratification and hypoxia of underlying waters. Fifteen of the 20 sites, representing 299 km² (76% of the survey area), also showed signs of benthic stress based on a multi-metric benthic index of biotic integrity (B-IBI). Benthic impacts included reductions in the abundance, diversity, and numbers of species and shifts in taxonomic composition, with a notable increase in dominance of the opportunistic polychaete Mediomastus ambiseta as other former dominant species declined. There was no significant increase in the extent of chemical contamination compared to pre-hurricane conditions. Storm-related reductions in dissoved oxygen and salinity were the more likely causes of the observed benthic impacts, though it was not possible, based on these results, to separate storm effects from seasonal changes in the benthos and annual episodes of summer anoxia and hypoxia.     

Assessing the ecological effects of human impacts on coral reefs in Bocas del Toro,Panama

Environmental and biological reef monitoring was conducted in Almirante Bay (Bahía Almirante) in Bocas del Toro, Panama, to assess impacts from anthropogenic developments. An integrated monitoring investigated how seasonal temperature stress, turbidity, eutrophication and physical impacts threatened reef health and biodiversity throughout the region. Environmental parameters such as total suspended solids [TSS], carbon isotopes (δ¹³C), C/N ratios, chlorophyll a, irradiance, secchi depth, size fractions of the sediments and isotope composition of dissolved inorganic carbon [DIC] of the water were measured throughout the years 2010 and 2011 and were analysed in order to identify different impact sources. Compared to data from Collin et al. (Smithsonian Contributions to the Marine Sciences 38:324–334, 2009) chlorophyll a has doubled at sites close to the city and the port Almirante (from 0.46–0.49 to 0.78–0.97 μg l^?1) and suspension load increased, visible by a decrease in secchi depth values. Visibility decreased from 9-13 m down to 4 m at the bay inlet Boca del Drago, which is strongly exposed to river run off and dredging for the shipping traffic. Eutrophication and turbidity levels seemed to be the determining factor for the loss of hard coral diversity, most significant at chlorophyll a levels higher than 0.5 μg l^?1 and TSS levels higher than 4.7 mg l^?1. Hard coral cover within the bay has also declined, at some sites down to <10 % with extremely low diversities (7 hard coral species). The hard coral species Porites furcata dominated the reefs in highly impacted areas and showed a strong recovery after bleaching and a higher tolerance to turbidity and eutrophication compared to other hard coral species in the bay. Serious overfishing was detected in the region by a lack of adult and carnivorous fish species, such as grunts, snappers and groupers. Study sites less impacted by anthropogenic activities and/or those with local protection showed a higher hard coral cover and fish abundance; however, an overall loss of hard coral diversity was observed.     

The importance of considering spatial attributes in evaluating estuarine habitat condition: the South Carolina experience

The South Carolina Estuarine and Coastal Assessment Program (SCECAP) was initiated in 1999 to assess the condition of the state's coastal habitats using multiple measures of water quality, sediment quality, and biological condition. Sampling was subsequently expanded to include components required for the National Coastal Assessment (Coastal 2000) Program. Habitats are classified as either tidal creeks (<#60; 100 meters in width) or larger open water bodies. Approximately 30 sites are sampled within each habitat during the summer months using a probability-based random sampling design. Results obtained from the first two years of sampling documented significant differences in several water quality parameters (DO, salinity, pH, turbidity, fecal coliform bacteria, total nitrogen, TKN, total phosphorus) and biological measures (chlorophyll-a, finfish and crustacean abundance and biomass and a number of benthic species) between the tidal creek and open water habitats. These differences highlight the value of partitioning shallow water habitats separately from the larger open water bodies traditionally sampled in estuarine monitoring programs, especially since tidal creeks serve as critical nursery areas for many species. Based on the differences observed, there is a clear need to identify different physical and biological thresholds for evaluating the condition of each habitat type.     

The Variability of Estimates of Variance, and Its Effect on Power Analysis in Monitoring Design

Power analysis can be a valuable aid in the design of monitoringprograms. It requires an estimate of variance, which may come from a pilot study or an existing study in a similar habitat. For marine benthic infauna, natural variation in abundances canbe considerable, raising the question of reliability of varianceestimates. We used two existing monitoring programs to generatemultiple estimates of variance. These estimates were found to differ from nominated best estimates by 50% or more in 43% of cases, in turn leading to under or over-estimation of samplesize in the design of a notional monitoring program. The twostudies, from the same general area, using the same samplingmethods and spanning a similar time scale, gave estimatesvarying by more than an order of magnitude for 25% of taxa.We suggest that pilot studies for ecological monitoring programsof marine infauna should include at least two sampling times.     

Parasites of Fish as Indicators of Environmental Stress

During the 1994/1995 EMAP-Estauries program in the Carolinian Province we investigated the feasibility of using parasites of fish as response indicators. Parasites of fish are an indigenous component of healthy ecosystems. Within the EMAP-E design, the suite of environmental parameters which may affect parasite abundance, richness, prevalence, and diversity can be divided into three categories: 1) the physical and chemical characteristics of the water and sediment (including contaminants) external to the fish; 2) the internal environment defined by the physical condition (physiological) of individual fish; and 3) the presence and relative abundance of benthic macroinvertebrates, many of which serve as intermediate hosts. The biotic response of parasites to environmental stressors is also reflected in the health of fish. Parasite assemblages of silver perch Bairdiella chrysura respond to both natural and anthropogenic stressors. Our results showed that particular environmental stressors and specific parasites that respond include: temperature and monogeneans; contaminants and nematodes; low dissolved oxygen and protists; and salinity, together with a mixture of metal and organic contaminants and crustacea. Parasites of fish are useful biomarkers and appear to be more sensitive to environmental stressors than are the fish themselves. Parasite responses to selected environmental stressors may be used to discriminate polluted and unpolluted sites. The use of parasites of fish as biomarkers has relevant application to fisheries management and coastal monitoring programs.