A study of the effect of physical and chemical stressors on biological integrity within the San Diego hydrologic region

Environmental agencies across the United States have searched for adequate methods to assess anthropogenic impacts on the environment. Biological assessments, which compare the taxonomic composition of an aquatic assemblage to relevant biocriteria, have surfaced as an effective method to assess the ecological integrity of US waterbodies. In this study, bioassessment data were collected and analyzed in conjunction with physical habitat and chemical stressor data for streams and rivers within the San Diego basin from 1998 through 2005. Physical stressors such as sediment loading, riparian destruction, and in-stream habitat homogenization affect many locations in the region. However, physical habitat measures alone were found to frequently overestimate the biological integrity of streams in the region. Many sites within the San Diego Basin, although unaffected by physical stressors, continue to exhibit low biological integrity scores. Sites with low biological integrity tend to possess higher specific conductance and salinity compared to sites with high biological integrity. We suggest that one possible reason for these differences is the source water used for municipal purposes.     

Methods development and use of macroinvertebrates as indicators of ecological conditions for streams in the Mid-Atlantic Highlands Region

The Mid-Atlantic Highlands Assessment (MAHA) included the sampling of macroinvertebrates from 424 wadeable stream sites to determine status and trends, biological conditions, and water quality in first through third order streams in the Mid-Atlantic Highlands Region (MAHR) of the United States in 1993–1995. We identified reference and impaired sites using water chemistry and habitat criteria and evaluated a set of candidate macroinvertebrate metrics using a stepwise process. This process examined several metric characteristics, including ability of metrics to discriminate reference and impaired sites, relative scope of impairment, correlations with chemical and habitat indicators of stream disturbance, redundancy with other metrics, and within-year variability. Metrics that performed well were compared with metrics currently being used by three states in the region: Pennsylvania, Virginia, and West Virginia. Some of the metrics used by these states did not perform well when evaluated using regional data, while other metrics used by all three states in some form, specifically number of taxa, number of EPT taxa, and Hilsenhoff Biotic Index, performed well overall. Reasons for discrepancies between state and regional evaluations of metrics are explored. We also provide a set of metrics that, when used in combination, may provide a useful assessment of stream conditions in the MAHR.     

Environmental Monitoring and Assessment of a Great River Ecosystem: The Upper Missouri River Pilot

Most Great River ecosystems (GREs) are extensively modified and are not receiving adequate protection to prevent further habitat degradation and loss of biotic integrity. In the United States, ecological monitoring and assessment of GREs has lagged behind streams and estuaries, and the management of GREs is hampered by the lack of unbiased data at appropriate spatial scales. Properties of GREs that make them challenging to monitor and assess include difficult sample logistics and high habitat diversity. The U.S. Environmental Protection Agency’s Environmental Monitoring and Assessment Program (EMAP) has developed a comprehensive, regional-scale, survey-based monitoring approach to assessment of streams and estuaries, but has not yet conducted research on applying these tools to GRE monitoring. In this paper we present an overview of an EMAP research project on the Upper Missouri River (UMR). We summarize the assessment objectives for the study, the design for selecting sample locations, the indicators measured at these sites and the tools used to analyze data. We present an example of the type of statements that can be made with EMAP monitoring data. With modification, the set of methodologies developed by EMAP may be well suited for assessment of GREs in general.     

Assessing the ecological condition of streams in a southeastern Brazilian basin using a probabilistic monitoring design

Prompt assessment and management actions are required if we are to reduce the current rapid loss of habitat and biodiversity worldwide. Statistically valid quantification of the biota and habitat condition in water bodies are prerequisites for rigorous assessment of aquatic biodiversity and habitat. We assessed the ecological condition of streams in a southeastern Brazilian basin. We quantified the percentage of stream length in good, fair, and poor ecological condition according to benthic macroinvertebrate assemblage. We assessed the risk of finding degraded ecological condition associated with degraded aquatic riparian physical habitat condition, watershed condition, and water quality. We describe field sampling and implementation issues encountered in our survey and discuss design options to remedy them. Survey sample sites were selected using a spatially balanced, stratified random design, which enabled us to put confidence bounds on the ecological condition estimates derived from the stream survey. The benthic condition index indicated that 62 % of stream length in the basin was in poor ecological condition, and 13 % of stream length was in fair condition. The risk of finding degraded biological condition when the riparian vegetation and forests in upstream catchments were degraded was 2.5 and 4 times higher, compared to streams rated as good for the same stressors. We demonstrated that the GRTS statistical sampling method can be used routinely in Brazilian rain forests and other South American regions with similar conditions. This survey establishes an initial baseline for monitoring the condition and trends of streams in the region.     

Contemplating the Assessment of Great River Ecosystems

The science and practice of assessing the status and trends of ecological conditions in great rivers have not kept pace with perturbation wrought on these systems. Participants at a symposium sponsored by the U.S. Environmental Protection Agency (USEPA) and the Council of State Governments concluded that useful and efficient assessments of great river ecosystems require thoughtful alignment of sampling designs, spatial and temporal scales, indicators, management needs, and ecosystem characteristics. Site-specific physical, chemical, and biological data long accumulated by monitoring programs have value but fail to provide the integrated system-wide perspective required for adaptive management and the Clean Water Act. Use of existing data may be limited by methodological incompatibilities, access difficulties, and the exclusive applicability of data to specific habitats or sites. The transition from site-specific to system-wide assessments benefits from research being done by USEPA's Environmental Monitoring and Assessment Program (EMAP) and other programs that use probability surveys and biological indicators. Indicators of various taxa (in particular fish, algae, and benthic invertebrates) have been successfully developed for great rivers. However, optimizing the information these ecological indicators convey to managers and the public is the subject of ongoing research.     

Designing a Spatially Balanced, Randomized Site Selection Process for Regional Stream Surveys: The EMAP Mid-Atlantic Pilot Study

In 1993, the U.S. Environmental Protection Agency (EPA), as part of the Environmental Monitoring and Assessment Program (EMAP), initiated a sample survey of streams in the mid-Atlantic. A major objective of the survey was to quantify ecological condition in wadeable streams across the region. To accomplish this goal, we selected 615 stream sites using a randomized sampling design with some restrictions. The design utilized the digitized stream network taken from 1:100,000-scale USGS topographic maps as the sample frame. Using a GIS, first- through third-order (wadeable) stream segments in the sample frame were randomly laid out in a line and sampled at fixed intervals after a random start. We used a variable probability approach so that roughly equal numbers of first-, second-, and third-order stream sites would appear in the sample. The sample design allows inference from the sample data to the status of the entire 230,400 km of wadeable stream length in the mid-Atlantic study area. Of this mapped stream length, 10% was not in the target population because no stream channel existed (4%), the stream channel was dry (5%), or the stream was not wadeable (1%). We were unable to collect field data from another 10% of the mapped stream length due to lack of access (mostly landowner denials). Thus, the field data we collected at 509 sites allows inference to the ecological condition for 184,600 km of the mapped stream length in the region.     

Integrated response plot designs for indicators of desertification

The improvement of land management practices on lands susceptible to desertification requires information on the status and condition of the existing resources as well as any change occurring in the resource condition over time. The Environmental Monitoring and Assessment Program (EMAP) of the U.S. Environmental Protection Agency has developed a statistical survey design for monitoring the condition of ecological resources on large spatial scales. EMAP-Rangelands used a uniformity sampling study in 1993 to evaluate response plot designs for three categories of indicators (soils, vegetation, and spectral reflectance) to be used for monitoring ecological condition of a site. The response plot design study was developed to integrate on-site measurements for the three indicator categories. The study was conducted on the Colorado Plateau in southern Utah in three rangeland resource classes (grassland, desertscrub, and conifer woodland) of differing productivity levels in an attempt to develop a common plot design for all three resource classes. Basic measurement units were developed to facilitate integration of data collection. Preliminary spatial analysis of the sampling study found considerable differences in variation patterns among the study sites and measurement categories for the indicator classes used by EMAP-Rangelands. Evidence of substantial trends in the indicator measurements on monitoring sites relative to regional trends leads to the conclusion that nonstationary spatial models for biological processes on a monitoring site may be needed to fulfill the requirements for developing plot designs and indicator criteria.The U.S. Environmental Protection Agency, through the Office of Research and Development, funded the research described here. This paper has been subjected to the Agency's peer and administrative review and has been approved as an EPA publication. The U.S. Government has the right to retain a nonexclusive, royalty-free license in and to any copyright covering this article.     

The Role of Biological Indicators in a State Water Quality Management Process

State water quality agencies are custodians of water quality management programs under the Clean Water Act of which the protection and restoration of biological integrity in surface waters is an integral goal. However, an inappropriate reliance on chemical/physical stressor and exposure data or administrative indicators in place of the direct measurement of ecological response has led to an incomplete foundation for water resource management. As point sources have declined in significance, the consequences of this flawed foundation for dealing with the major limitations to biological integrity (nonpoint sources, habitat degradation) have become more apparent. The use of biocriteria in Ohio, for example, resulted in the identification of 50% more impairment than a water chemistry approach alone and other inconsistencies of a flawed monitoring foundation are illustrated in the national 305(b) report statistics on waters monitored, aquatic life use attainment, and habitat degradation. Biological criteria (biocriteria) incorporates the broader concept of water resource integrity to supplement the roles of chemical and toxicological approaches and reduces the likelihood of making overly optimistic estimates of aquatic life condition. A carefully conceived ambient monitoring approach comprised of biological, chemical, and physical measures ensures all relevant stressors to water resource integrity are identified and that the efficacy of administrative actions can be directly measured with environmental results. New multimetric indices, such as the IBI, ICI, and BIBI represent a significant advancement in aquatic resource characterization that have allowed the inclusion of biological information into many States water quality management programs. Ohio adopted numerical biocriteria in the Ohio water quality standards regulations in May 1990 and, through multiple aquatic life uses that reflect a continuum of biological condition, represents a tiered approach to water resource management. Biocriteria provide the impetus and opportunity to recognize and account for natural, ecological variability in the environment, something which previously was been lacking in state water quality management programs. The upper Great Miami River in Ohio illustrates a case study where bioassessment data documented the efficacy of efforts to permit, fund, and construct municipal treatment systems in restoring aquatic life. In contrast, in the Mahoning River similar administrative actions were inadequate to restore aquatic life in an environment with severe sediment contamination and impacts from combined sewer overflows. A biocriteria-based goal of restoring 75% of aquatic life uses by the year 2000 in Ohio has led to the use of biological data to identify trends and forecast the status and the causes and sources of impairment to Ohio streams, an effort that should affect the strategic focus of our water resource management efforts. A biocriteria-based approach has profoundly influenced strategic planning and priority setting, water quality based permitting, water quality standards, basic monitoring and reporting, nonpoint source assessment, and problem discovery within Ohio EPA.     

Using Information on Spatial Variability of Small Estuaries in Designing Large-Scale Estuarine Monitoring Programs

In the early 1990s, EPA's Environmental Monitoring and Assessment Program (EMAP) documented the ecological condition of the overall population of small estuaries along the mid-Atlantic coast of the United States. However, the Program did not provide detailed information on the condition of individual estuaries less than 260 km² in surface area, a group of estuaries of concern to environmental managers. To address the needs of environmental managers, when EMAP returned to the region in summer 1997, it included a study of the spatial variability of ecological indicators within individual small estuaries. At 127 probability-based sites in 10 estuaries, EMAP measured a variety of parameters of water quality and sediments, including dissolved oxygen (DO), nutrients, grain size of sediments, contaminants in sediments, and community structures of benthic macroinvertebrates. From this information the ecological condition (e.g., percent area with DO concentrations below 5mg L^–1) for each estuary, along with 90% confidence interval, was determined. The width of the confidence interval was then recalculated for sample sizes ranging from two stations to the total number of stations sampled in that estuary. Confidence interval widths were then plotted against sample size. These plots can be useful in designing future regional monitoring programs with a goal of describing conditions in individual systems as well as broad geographic regions. Results illustrate that beyond five stations per estuary, the reduction in the width of the confidence interval with increasing sampling intensity is relatively small; however, individual program managers need to determine "how small is small enough."     

Towards a protocol for stream macroinvertebrate sampling in China

Standard protocols are critical for maximizing data comparability and aggregation in national monitoring programs, and taxa richness is a common indicator of site condition and biological diversity. There are two general approaches for sampling stream macroinvertebrate assemblages: targeted richest habitat and site wide. At seven sites, we compared three methods: Ontario Benthic Biomonitoring Network (OBBN), Environmental Monitoring and Assessment Program (EMAP), and Rapid Bioassessment Protocol (RBP). The OBBN method produced a biased sample at a site with a single small riffle, the RBP method produced the most total taxa, and the EMAP method produced the most taxa at four sites and the most individuals at six sites. The RBP method produced asymptotes for percent tolerant individuals, percent chironomid individuals, and Hilsenhoff Biotic Index score after five to ten stations. The EMAP method produced asymptotes for those metrics after 10 to 20 stations per site. The EMAP method typically required half the number of stations as the RBP method to obtain 70–90% of true taxa richness as estimated by the Jaccard coefficient. We conclude that the EMAP method is preferable because of its greater precision in taxa richness estimates.     

Towards generalised reference condition models for environmental assessment: a case study on rivers in Atlantic Canada

Evaluation of the ecological status of river sites in Canada is supported by building models using the reference condition approach. However, geography, data scarcity and inter-operability constraints have frustrated attempts to monitor national-scale status and trends. This issue is particularly true in Atlantic Canada, where no ecological assessment system is currently available. Here, we present a reference condition model based on the River Invertebrate Prediction and Classification System approach with regional-scale applicability. To achieve this, we used biological monitoring data collected from wadeable streams across Atlantic Canada together with freely available, nationally consistent geographic information system (GIS) environmental data layers. For the first time, we demonstrated that it is possible to use data generated from different studies, even when collected using different sampling methods, to generate a robust predictive model. This model was successfully generated and tested using GIS-based rather than local habitat variables and showed improved performance when compared to a null model. In addition, ecological quality ratio data derived from the model responded to observed stressors in a test dataset. Implications for future large-scale implementation of river biomonitoring using a standardised approach with global application are presented.     

Assessment of wadeable stream resources in the driftless area ecoregion in Western Wisconsin using a probabilistic sampling design

The Wisconsin Department of Natural Resources (WDNR), with support from the U.S. EPA, conducted an assessment of wadeable streams in the Driftless Area ecoregion in western Wisconsin using a probabilistic sampling design. This ecoregion encompasses 20% of Wisconsin’s land area and contains 8,800 miles of perennial streams. Randomly-selected stream sites (n = 60) equally distributed among stream orders 1–4 were sampled. Watershed land use, riparian and in-stream habitat, water chemistry, macroinvertebrate, and fish assemblage data were collected at each true random site and an associated “modified-random” site on each stream that was accessed via a road crossing nearest to the true random site. Targeted least-disturbed reference sites (n = 22) were also sampled to develop reference conditions for various physical, chemical, and biological measures. Cumulative distribution function plots of various measures collected at the true random sites evaluated with reference condition thresholds, indicate that high proportions of the random sites (and by inference the entire Driftless Area wadeable stream population) show some level of degradation. Study results show no statistically significant differences between the true random and modified-random sample sites for any of the nine physical habitat, 11 water chemistry, seven macroinvertebrate, or eight fish metrics analyzed. In Wisconsin’s Driftless Area, 79% of wadeable stream lengths were accessible via road crossings. While further evaluation of the statistical rigor of using a modified-random sampling design is warranted, sampling randomly-selected stream sites accessed via the nearest road crossing may provide a more economical way to apply probabilistic sampling in stream monitoring programs.     

A native species-based index of biological integrity for Hawaiian stream environments

Based upon ecological data provided by a 6-year study of native species assemblage structure and function in near-pristine Limahuli Stream (Kauai), The Hawaii Stream Index of Biological Integrity (HS-IBI) incorporates 11 metrics covering five ecological categories (taxonomic richness, sensitive species, reproductive capacity, trophic–habitat capacity, and tolerance capacity). The HS-IBI was shown to effectively distinguish stream biological condition on a continuum from undisturbed (near-pristine) to severely impaired in sampling of 39 sites (6 estuarine reaches) on 18 Hawaiian streams located on all major islands. A significant relationship was validated between relative levels of human impact occurring within-watersheds (determined through use of a landscape indicator) and IBI ratings with metrics responding predictably to gradients of human influence. For management interpretation of HS-IBI results, a framework comprised of five “integrity classes” (excellent–good–fair–poor–impaired) is provided which can be used to operationalize HS-IBI results obtained through standardized sampling of stream sites that “…translates into a verbal and visual portrait of biological condition.” Through its focus on native species, the HS-IBI incorporates evolutionary and biogeographic variation for the region with biological expectations based upon reference condition benchmarks established in near-pristine stream environments where ecological functioning is naturally self-sustaining and resilient to normal environmental variation. The methods and tools described in this study are appropriate for application in all perennial streams in Hawaii and may be adapted for use in streams on other tropical Pacific islands where native species assemblages persist in near-pristine stream environments.     

Pilot-study on GIS-based risk modelling of a climate warming induced tertian malaria outbreak in Lower Saxony (Germany)

This project was designed to establish baseline aquatic biological community structure and physical habitat conditions in select wadeable streams within the California Central Valley. A secondary objective was to evaluate possible water quality differences between site types and seasons. Two agricultural and two urban streams were monitored in spring and fall for two consecutive years beginning in the fall of 2002. Bioassessment sampling was conducted according to modified US EPA methods. The study included physical habitat assessment, water and sediment chemical analysis and characterization of the benthic macroinvertebrate community at each site. Water samples were analyzed for selected organophosphate insecticides, pyrethroid insecticides and herbicides, while sediment samples were analyzed for pyrethroids only. All sites had substantial physical habitat and water quality impairments, and the absence of pollution intolerant macroinvertebrates and dominance of pollution tolerant macroinvertebrates were indications of biological impairment. Due to the limited amount of water quality and pesticide data collected, it was not possible to definitively demonstrate any cause and effect relationships between BMI community structure and water quality or pesticide concentrations. Though most physical habitat parameters were similar and EPA physical habitat scores revealed on no significant differences between urban and agricultural sites (P? = ?0.290), a significant difference was seen in substrate embeddedness (P? = ?0.020). Dominant taxon found at all sites were chironomids, amphipods, and oligochaetes. Benthic macroinvertebrate metrics were significantly different between both types of sites (P? = ?0.001) and seasons (P? = ?0.014). Chironomidae taxon and those of the functional feeding group scrapers were greater at urban sites, while those of the functional feeding group filterers were greater at agricultural sites. In addition, the metric groups Chironomidae, filterers, and predators were found in greater numbers in the spring than the fall.     

Physical integrity: the missing link in biological monitoring and TMDLs

The Clean Water Act mandates that the chemical, physical, and biological integrity of our nation’s waters be maintained and restored. Physical integrity has often been defined as physical habitat integrity, and as such, data collected during biological monitoring programs focus primarily on habitat quality. However, we argue that channel stability is a more appropriate measure of physical integrity and that channel stability is a foundational element of physical habitat integrity in low-gradient alluvial streams. We highlight assessment tools that could supplement stream assessments and the Total Maximum Daily Load stressor identification process: field surveys of bankfull cross-sections; longitudinal thalweg profiles; particle size distribution; and regionally calibrated, visual, stream stability assessments. Benefits of measuring channel stability include a more informed selection of reference or best attainable stream condition for an Index of Biotic Integrity, establishment of a baseline for monitoring changes in present and future condition, and indication of channel stability for investigations of chemical and biological impairments associated with sediment discontinuity and loss of habitat quality.     

A process for selecting indicators for monitoring conditions of rangeland health

This paper reports on a process for selecting a suite of indicators that, in combination, can be useful in assessing the ecological conditions of rangelands. Conceptual models that depict the structural and functional properties of ecological processes were used to show the linkages between ecological components and their importance in assessing the status and trends of ecological resources on a regional scale. Selection criteria were developed so that relationships could be assessed at different spatial scales using ground and aerial measurements. Parameters including responsiveness and sensitivity to change, quality assurance and control, temporal and spatial variability, cost-effectiveness and statistical design played an important role in determining how indicators were selected. A total of ten indicator categories were selected by a committee of scientists for evaluation in the program. A subset that included soil properties, vegetation composition and abundance, and spectral properties was selected for evaluation in a pilot test conducted in 1992 in the Colorado Plateau region of the southwestern United States. This work is part of a major effort being undertaken by the U.S. Environmental Protection Agency and its collaborators to assess the condition of rangelands (primarily comprised of arid, semi-arid and dry subhumid ecosystems) along with seven other ecosystem groups (forests, agricultural lands, wetlands, surface waters, landscapes, estuaries and Great Lakes) as part of a national Environmental Monitoring and Assessment Program (EMAP). The indicator selection process reported upon was developed to support EMAP's goal of providing long-term, policy-relevant research focusing on evaluating the ecological condition (or health) of regional and national resources.     

Quantifying structural physical habitat attributes using LIDAR and hyperspectral imagery

Structural physical habitat attributes include indices of stream size, channel gradient, substrate size, habitat complexity, and riparian vegetation cover and structure. The Environmental Monitoring and Assessment Program (EMAP) is designed to assess the status and trends of ecological resources at different scales. High-resolution remote sensing provides unique capabilities in detecting a variety of features and indicators of environmental health and condition. LIDAR is an airborne scanning laser system that provides data on topography, channel dimensions (width, depth), slope, channel complexity (residual pools, volume, morphometric complexity, hydraulic roughness), riparian vegetation (height and density), dimensions of riparian zone, anthropogenic alterations and disturbances, and channel and riparian interaction. Hyperspectral aerial imagery offers the advantage of high spectral and spatial resolution allowing for the detection and identification of riparian vegetation and natural and anthropogenic features at a resolution not possible with satellite imagery. When combined, or fused, these technologies comprise a powerful geospatial data set for assessing and monitoring lentic and lotic environmental characteristics and condition.     

Development of a Provisional Physical Habitat Index for Maryland Freshwater Streams

Provisional physical habitat indices were developed and validatedfor Maryland Coastal and Non-Coastal Plain streams using variables (commonly called metrics) that best discriminated reference and degraded conditions based on biological, chemicaland land use data from the 1994–97 Maryland Biological Stream Survey (MBSS). These habitat indices contained variables that described structural, hydrological, vegetative and aesthetic components of stream habitat. Variables with the best discriminatory power for Coastal Plain streams were: instream habitat, velocity/depth diversity, pool/glide/eddy quality, embeddedness, maximum depth and aesthetic rating. Physical habitat variables with the best discriminatory power for Non-Coastal Plain sites were: instream habitat, velocity/depth diversity, riffle/run quality, embeddedness, number of rootwads and aesthetic rating. The overall classification efficiency forindex validation was 76% for both indices pooled over both strata. Scaled physical habitat index values (0–100) for bothstrata identified nearly twice as many good sites (31%) as very poor sites (16%). More than half the Maryland sites werein the poor to fair range (53%).     

Assessing Landscape Condition Relative to Water Resources in the Western United States: A Strategic Approach

The Environmental Monitoring and Assessment Program (EMAP) is proposing an ambitious agenda to assess the status of streams and estuaries in a 12-State area of the western United States by the end of 2003. Additionally, EMAP is proposing to access landscape conditions as they relate to stream and estuary conditions across the west. The goal of this landscape project is to develop a landscape model that can be used to identify the relative risks of streams and estuaries to potential declines due to watershed-scale, landscape conditions across the west. To do so, requires an understanding of quantitative relationships between landscape composition and pattern metrics and parameters of stream and estuary conditions. This paper describes a strategic approach for evaluating the degree to which landscape composition and pattern influence stream and estuary condition, and the development and implementation of a spatially-distributed, landscape analysis approach.     

Towards a Regional Index of Biological Integrity: the Example of Forested Riparian Ecosystems

Our premise is that measures of ecological indicators and habitat conditions will vary between reference standard sites and reference sites that are impacted, and that these measures can be applied consistently across a regional gradient in the form of a Regional Index of Biological Integrity (RIBI). Six principles are proposed to guide development of any RIBI: 1) biological communities with high integrity are the desired endpoints; 2) indicators can have a biological, physical, or chemical basis; 3) indicators should be tied to specific stressors that can be realistically managed; 4) linkages across geographic scales and ecosystems should be provided; 5) reference standards should be used to define target conditions; and 6) assessment protocols should be efficiently and rapidly applied. To illustrate how a RIBI might be developed, we show how four integrative bioindicators can be combined to develop a RIBI for forest riparian ecosystems in the Mid-Atlantic states: 1) macroinvertebrate communities, 2) amphibian communities, 3) avian communities, and 4) avain productivity, primarily for the Louisiana waterthrush (Seirius motacilla). By providing a reliable expression of environmental stress or change, a RIBI can help managers reach scientifically defensible decisions.