A multi-assemblage,multi-metric biological condition index for eastern Amazonia streams

Multimetric indices (MMIs) are widely used for assessing ecosystem condition and they have been developed for a variety of biological assemblages. However, when multiple assemblages are assessed at sites, the assessment results may differ because of differing physiological sensitivities to particular stressor gradients, different organism size and guilds, and the effects of different scales of disturbances on the assemblages. Those differences create problems for managers seeking to avoid type-1 and type-2 statistical errors. To alleviate those problems, we used an anthropogenic disturbance index for selecting and weighting metrics, modeled metrics against natural variability to reduce the natural variability in metrics, and developed an MMI based on both fish and aquatic insect metrics. We evaluated eight different ways of calibrating and combining candidate metrics and found that MMIs with unweighted and modeled aquatic insect and fish metrics were the preferred MMI options.     

Response of fish-based metrics to anthropogenic pressures in temperate rocky reefs

The increasing degradation of marine ecosystems as a result of increasing impact caused by anthropogenic pressures, urges for well-founded knowledge to develop efficient tools to appraise the quality status of fish assemblages, as required by the “Marine Strategy Framework Directive”. This study analyzed the structural and functional response of rocky fish assemblages to several pressures on the Portuguese coast, i.e. fishing, sewage discharges, port activities and thermal effluent, by selecting fish-based metrics that best distinguished disturbed from control areas. One of the novel aspects of this research is the integrated assessment made through the analysis of several metrics representing numerous attributes of fish assemblages (namely diversity, abundance, trophic structure, mobility, resilience, habitat association, nursery function), which contrasts with the most commonly used approaches that in general focus on fish species/families. PERMANOVA results showed significant differences on metrics composition for all pressures with the exception of the thermal effluent. Moreover, two major patterns of stress were identified: (1) selective pressure, which affects differentially the fish assemblages (fishing); (2) broad-range pressure, which affects the entire fish assemblage with metrics of several attributes (e.g. structure, resilience, trophic guilds, nursery function) responding to its presence (sewage discharges, port activities). Taking into account the sensitivity results (discriminant analysis and Mann–Whitney test), biological meaning and redundancy with other metrics (Spearman correlations), the following metrics were selected as the most suitable to detect changes on temperate reef fish assemblages: “density of generalist individuals”, “density of territorial individuals”, “density of large individuals with medium to high commercial value (>20 cm)”, “density of juveniles” and metrics relative to trophic guild (except zooplanktivores). Since metrics grouped species that have some degree of functional overlap, the present approach was useful to understand human-induced changes at the assemblage level, contributing for the future use of marine fishes as biological indicators.     

人为干扰对溪流鱼类功能多样性及其纵向梯度格局的影响

溪流鱼类多样性沿着河流纵向梯度的空间分布规律已得到大量报道, 但这些研究大多聚焦基于物种组成的分类α多样性, 而有关分类β多样性和功能多样性的纵向梯度分布规律及其对人类干扰的响应研究较少。本文以青弋江上游3条人为干扰程度不同的河源溪流为研究区域, 比较研究了人为干扰对溪流鱼类功能α和β多样性及其纵向梯度分布格局的影响。结果显示, 人类干扰改变了河源溪流鱼类功能多样性的纵向梯度格局——由线性变化变为二项式分布。此外, 我们发现, 人为干扰导致土著种被本地入侵种取代, 且较强的土地利用和水污染排放可能增大环境的不连续性, 而群落周转和嵌套变化往往取决于环境的变化。尽管功能β多样性由嵌套成分主导, 但周转成分占比相对于人为干扰较小的溪流而言明显增加。人为干扰显著改变了受干扰溪流鱼类的物种组成和功能多样性, 且功能多样性的纵向梯度格局在不同的多样性指标上存在差异。本研究强调, 在评估人为干扰下多样性的变化时, 需要从多方面考虑, 包括空间尺度和多样性指标等。     

A fish index of biotic integrity for South Dakota's Northern Glaciated Plains Ecoregion

Ecosystem goods and services in streams are impaired when their biotic communities are degraded by anthropogenic stressors. An index of biotic integrity (IBI) translates community structure into a standardized ecoregion-specific stream health score. Documenting stream health is especially important in the Northern Glaciated Plains (NGP) Ecoregion, which is undergoing rapid landscape alterations through increased agriculture production. Our objectives were to develop a fish IBI and validate candidate reference sites for NGP wadeable perennial streams. Fish were sampled from 54 sites (consisting of reference sites, known-condition least and most disturbed sites, and random sites) during summers 2006–2011. Candidate metrics were sorted into nine metric classes based on attributes of fish assemblage form and function. Metric values were screened using metric range, signal-to-noise ratios, responsiveness to disturbance, and redundancy tests until each metric class contained only those metrics most responsive to anthropogenic stressors. The final IBI consisted of six metrics that were reflective of prairie stream fish assemblages, and differentiated between known-condition least and most disturbed sites. The mean reference sampling site IBI scores were found to be similar to both least and most disturbed sites (Mann–Whitney U-test; P < 0.05). Twelve reference site scores were below the NGP's median (69), whereas the other 11 sites were above the median and were representative of least disturbed conditions. We now have developed a standardized bioassessment tool for evaluating stream health, as well as a baseline for long-term monitoring in a dynamic ecoregion.     

Resilience of fishes and invertebrates to prolonged drought in two California streams

Long-term data are needed to assess spatial and temporal variability of communities and their resilience to natural and anthropogenic disturbances, particularly in climatic regions marked by high interannual variability (e.g. mediterranean-climate). A long-term study at four sites on two streams in mediterranean-climate California (annual sampling over 20  yr) allowed us to quantify the influence of a 5-yr prolonged drought on stream invertebrate and fish communities. Invertebrate community composition did not show recovery following drought. The primary environmental factors influencing community composition, identified through principle components and multiple correspondence analyses were precipitation and flow permanence. Invertebrate taxon richness and abundance exhibited few responses (some site specific) and recovered quickly. Native fish abundance was lowest during the drought period and highest during the wet years that occurred at the end of the study period. Importantly, the prolonged drought facilitated the establishment and success of the invasive green sunfish (Centrarchidae: Lepomis cyanellus ) that was then resilient to subsequent large flow events. There was high spatial synchrony in the temporal changes among all four sites, and three distinct periods were identified: early drought, late drought, and post-drought years. However, we still found differences among sites along the flow permanence gradient from temporary to perennial in the response to drought of both invertebrate and fish assemblages likely as a result of changes in substrate, vegetation, and other habitat characteristics. The observed lack of resilience and negative impacts to biodiversity due to prolonged drought associated with long-term habitat changes is important because hydroclimatic extremes are predicted to increase in frequency and magnitude with global climate change.     

Effects of coalbed natural gas development on fish assemblages in tributary streams of the Powder and Tongue rivers

1. Extraction of coalbed natural gas (CBNG) often results in disposal of large quantities of CBNG product water, which may affect aquatic ecosystems. We evaluated the effects of CBNG development on fish assemblages in tributary streams of the Powder and Tongue rivers. We used treatment and control, impact versus reference sites comparisons, surveys of CBNG product‐water streams and in situ fish survival approaches to determine if CBNG development affected fish assemblages. 2. Several of our results suggested that CBNG development did not affect fish assemblages. Species richness and index of biotic integrity (IBI) scores were similar in streams with and streams without CBNG development, and overall biotic integrity was not related to the number or density of CBNG wells. Fish occurred in one stream that was composed largely or entirely of CBNG product water. Sentinel fish survived in cages at treatment sites where no or few fish were captured, suggesting that factors such as lack of stream connectivity rather than water quality limited fish abundance at these sites. Fish species richness did not differ significantly from 1994 to 2006 in comparisons of CBNG‐developed and undeveloped streams. Biotic integrity declined from 1994 to 2006; however, declines occurred at both impact and reference sites, possibly because of long‐term drought. 3. Some evidence suggested that CBNG development negatively affected fish assemblages, or may do so over time. Specific conductivity was on average higher in treatment streams and was negatively related to biotic integrity. Four IBI species richness metrics were negatively correlated with the number or density of CBNG wells in the catchment above sampling sites. Bicarbonate, one of the primary ions in product water, was significantly higher in developed streams and may have limited abundance of longnose dace (Rhinichthys cataractae). Total dissolved solids, alkalinity, magnesium and sulphate were significantly higher in developed streams. 4. Biological monitoring conducted before the development of CBNG, and continuing through the life of development and reclamation, together with data on the quantity, quality and fate of CBNG product water will allow robust assessment of potential effects of future CBNG development worldwide.     

Macroinvertebrate-based multimetric predictive models for evaluating the human impact on biotic condition of Bolivian streams

We developed and validated a single multimetric index based on predictive models that could evaluate anthropogenic disturbances in streams of three disparate ecoregions of Bolivia. To do so, we examined 45 candidate metrics reflecting different aspects of macroinvertebrate assemblage structure and function gleaned from available literature and for their potential to indicate degradation. More importantly, we integrated functional trait metrics to improve the sensitivity of our index. To quantify possible deviation from reference conditions, we first established and validated statistical models describing metric responses to natural environmental differences in the absence of any significant anthropogenic disturbance. We considered that the residual distributions of these models described the response range of each metric, independently of natural environmental influence. After testing the sensitivity of these residuals to a gradient of anthropogenic disturbance, we retained eight metrics that were used in the final assemblage index, four metrics based on richness and composition and four metrics based on biological traits. Our index performed well in discriminating between reference and disturbed sites, giving a significant negative linear response to a gradient of physical and chemical anthropogenic disturbances. After employing a probability survey design and sampling a relatively small number of sites throughout all major ecoregions of Bolivia, we believe our methodology can be used to develop a monitoring tool to evaluate status and trends in biological condition for streams of the entire country despite its complex and heterogeneous geology and climate.     

Spatial and temporal patterns in fish assemblages of upper coastal plain streams, Mississippi, USA

We assessed spatial, seasonal, and annual variation in fish assemblages over 17 months in three small- to medium-sized, incised streams characteristic of northwestern Mississippi streams. We sampled 17 962 fish representing 52 species and compared assemblages within and among streams. Although annual and seasonal variability in assemblage structure was high, fish assemblages maintained characteristics unique to each stream. High variability in fish catch-per-unit-effort (CPUE) was exemplified in one site where total CPUE increased an order of magnitude from July 1993 to 1994. Species turnover and percent dissimilarity were often higher seasonally than annually, consistent with a period of change in spring to early summer and a return to similar species compositions between summers. Temporal variability was also high at the individual species level, and no species were classified as 'stable'. We found little evidence for correlation between changes in fish assemblage structure and measured habitat conditions. The fish characteristics fit the profile of 'colonizing assemblages', which probably resulted from both natural and anthropogenic causes. Flashy hydrographs , created in part by stream channelization and incision and watershed deforestation, may play a large role in structuring these fish assemblages. Extreme interannual variability in assemblages in the absence of detectable habitat change has important implications for the statistical power of fish monitoring programs designed to detect trends in fish assemblages over time.     

Uncertainty associated with river health assessment in a varying environment: The case of a predictive fish-based index in France

Sensitive biological measures of river ecosystem quality are needed to assess, maintain or restore ecological conditions of water bodies. Since our understanding of these complex systems is imperfect, decision-making requires recognizing uncertainty. In this study, a new predictive multi-metric index based on fish functional traits was developed to assess French rivers. Information on fish assemblage structure, local environment and human-induced disturbances of 1654 French river sites was compiled. A Bayesian framework was used to predict theoretical metric values in absence of human pressure and to estimate the uncertainty associated with these predictions. The uncertainty associated with the index score gives the confidence associated with the evaluation of site ecological conditions.Among the 228 potential metrics tested, only 11 were retained for the index computation. The final index is independent from natural variability and sensitive to human-induced disturbances. In particular, it is affected by the accumulation of different degradations and specific degradations including hydrological perturbations. Predictive uncertainty is globally lower for IPR+ than for underlying metrics.This new methodology seems appropriate to develop bio-indication tools accounting for uncertainty related to reference condition definition and could be extended to other biological groups and areas. Our results support the use of multi-metric indexes to assess rivers and strengthen the idea that examination of uncertainty could contribute greatly to the improvement of the assessment power of bio-indicators.     

Acridids as indicators of disturbance in dry deciduous forest of West Bengal in India

Acridid communities are sensitive to anthropogenic disturbance and the community structure of acridids plays vital role in functioning the forest ecosystem. They are potentially useful bioindicators for conservation planning and habitat disturbances. Acridid assemblages of three different habitat types based on degree of disturbance as follows five natural sites, five moderately disturbed sites and five highly disturbed sites in Chaupahari forest, West Bengal, India were studied. Diversity, abundance, equitability and species richness of acridid were observed in respect to undisturbed and disturbed habitats. The species richness and diversity of the sites tracked the intensity of disturbance, the greatest value being associated with the natural site followed by the moderately disturbed site and highly disturbed site. The highest species richness and diversity index indicate the suitable habitat for acridid population. Statistical analysis infers that different species show different behavior and the sites are also different in relation to different habitat types.     

Seeking functional homogeneity: A framework for definition and classification of fish assemblage types to support assessment tools on temperate reefs

Due to their important role in the ecosystem and high economic value, there is a need to assess the effect of anthropogenic impacts on marine fish assemblages. However, this can only be achieved if variations due to natural causes are known. Moreover, while most assessment tools rely on functional traits, bottom-up habitat classification frameworks tend to use species composition. The present study proposes an innovative framework to define fish assemblage types through metric pairwise constrained k-means (MPCK-means) clustering of sites based on functional guild categories and univariate metrics, an approach that takes into account within-site variability due to the sampling method and natural causes. This was followed by a label-based ensemble clustering approach, which finds patterns that minimise information loss when integrating clustering results from individual metrics. In order to test the method, fish assemblages on 14 nearshore rocky reefs along the Portuguese coast were sampled. The final typology configuration achieved through ensemble clustering consisted of three assemblage types and maintained an average normalised mutual information of 0.605 with the individual clustering results. Nested PERMANOVA found differences among types and the most variable metrics in the face of natural variation were identified. Ultimately, a k-nearest neighbours classifier is proposed to label new sites, based only on environmental variables that are unlikely to be directly affected by the presence of anthropogenic impacts. Optimal performance for the classification model was achieved with inverse distance-weighted voting of the 4 nearest neighbours with an average classification accuracy of 96.08%.     

Ecological assessment of running waters: Do macrophytes,macroinvertebrates, diatoms and fish show similar responses to human pressures?

This study aimed to compare the intensity and the sensitivity of the responses of four river biological quality elements (BQEs) – macrophytes, fish, diatoms and macroinvertebrates – to human pressures excluding natural variations in stream ecosystem functioning. Biological, water quality and hydro-morphological data were compiled for 290 French river sites.Out of the 93 metrics tested, 51 covering the four BQEs responded significantly to global degradation. The responses to specific pressures were consistent with the BQEs’ ecological and biological characteristics. For the four BQEs, metrics responded strongly to water quality degradations. Like fish, macroinvertebrate metrics were very sensitive to morphological degradations such as the presence of an impoundment, while diatom and macrophyte metrics did not show strong responses to these changes. Among the four BQEs’ metrics, fish metrics responded the strongest to hydrological perturbations. Although a high proportion of the metrics responded only to high levels of human-induced degradations, trait-based metrics seemed the most sensitive and responded to lower levels of pressure. Global and water quality degradations of the river appear to be better detected by BQE metrics than channel morphological and hydrological degradations. Our results highlight the different impacts of human-induced pressures on the four BQE metrics and the challenging task of assessing the effect of single pressures when most of sites are multi-impacted.     

Development of metrics based on fish body size and species traits to assess European coldwater streams

During the last decade multimetric indices (MMIs) have been greatly improved by the use of appropriate criteria to define reference conditions and by the use of statistical analysis to select a consistent set of metrics. Among the large number of MMIs developed to assess the ecological status of streams based on fish communities, the emphasis was mainly put on warmwater assemblages. When compared with warmwater fish assemblages, coldwater assemblages present depauperate faunas with a limited suit of traits. Thus, very often the number of metrics used to compute MMIs for coldwater streams is lower than for warmwaters. The objective of this study was to develop new metrics specific to European coldwater assemblages that integrate both the species traits and the body size of fish. Indeed, whereas the use of size or age classes has been highly advocated for developing MMIs, it remains largely underrepresented. Therefore, we used eight biological and ecological traits to characterize species and two size classes: small and large individuals. Among the 96 metrics tested, four were successfully related to environmental gradients and three displayed a significant response to anthropogenic pressures: the number of small rheophilous individuals, the number of small oxygen-intolerant individuals, and the number of small-habitat-intolerant individuals. These results demonstrate that metrics based on size classes could be used in the development of MMIs for coldwater streams and more generally for low-species rivers.     

Divergent reaction of fish metrics to human pressures in fish assemblage types in Europe

Using a large pan-European dataset, we compared least disturbed sites to sites impacted by human pressures across broad river types to assess which aspects of bio-ecological traits of the fish assemblage are most sensitive to alterations of the river ecosystem. To control for variation across river types and large-scale environmental gradients, we began by clustering the least disturbed sites (n = 716) into four homogenous fish assemblage types (FATs) differing by four fish metrics, i.e., lithophilic, rheophilic, omnivorous, and potamodromous fish. We predicted these FATs (headwater streams, medium gradient rivers, lowland rivers, and Mediterranean streams) using environmental variables, i.e., altitude, river slope, temperature, precipitation, latitude, and longitude for impacted sites in our dataset (n = 2,389). Using tests of sensitivity and intensity, 17 fish metrics showed a clear reaction to human pressures. However, 12 metrics responded exclusively within only one of the four FATs. Hence we observed a divergent reaction of fish metrics to human pressures in, e.g., headwater versus lowland rivers. Type-specific reactions are useful in customizing impact assessment for particular river types. It is of primary importance to understand the comparative sensitivity and efficiency of fish-based indicators of water quality for detecting human-induced degradation of river ecosystems.     

Identifying indicators and quantifying large-scale effects of dams on fishes

Although localized effects of individual dams on stream fish assemblages have been relatively well-studied, less is known about the effects of multiple dams within a stream network on fishes and the patterns that emerge when the combined effects of individual and multiple dams are viewed across entire river basins, ecoregions, and states. This study evaluated multiple stream network fragmentation metrics representing localized (e.g., distance-to-dams) and cumulative (e.g., total upstream reservoir storage) dam influences on streams in Michigan, Wisconsin, and Minnesota, developing an approach for identifying suitable fish indicators of dam effects. We used change point and correlation analyses to determine associations of stream fish catch per unit effort and various stream network fragmentation metrics with data from more than 2000 fish survey sites stratified by stream size, thermal regime, and ecoregion. Of the identified indicator species, predominantly warmwater, large river, and/or lentic species were positively associated with stream network fragmentation, whereas cold and coolwater lotic species were negatively associated with fragmentation. These results suggest a combination of downstream thermal effects and upstream influences from impoundments generated by dams. Variance partitioning analyses based on identified indicator species revealed greater upstream-dominated dam influences in headwaters than mid-sized streams, and a greater relative influence of dams vs. other non-dam anthropogenic influences in cold streams than warm streams. Overall, a combination of localized and cumulative fragmentation metrics, as well as upstream and downstream-oriented measures, were influential in indicator species responses, emphasizing the importance of selecting a diversity of fragmentation metrics when assessing effects of dams on stream fishes. Understanding multiple dam influences on stream fishes, including localized effects from individual dams and cumulative effects from all dams within a river basin, would provide useful information for a variety of management activities, including dam operation and dam removal prioritization. Dams significantly affect conservation and management options for stream fishes, with identification of multi-scale dam influences on fishes being critical to restoration and maintenance of aquatic biodiversity throughout the world.     

Inter-annual,Annual, and Seasonal Variation of P and N Retention in a Perennial and an Intermittent Stream

Headwater streams represent the key sites of nutrient retention, but little is known about temporal variation in this important process. We used monthly measurements over 2 years to examine variation in retention of soluble reactive phosphorus (SRP) and ammonium (NH₄⁺) in two Mediterranean headwater streams with contrasting hydrological regimes (that is, perennial versus intermittent). Differences in retention between streams were more evident for NH₄⁺, likely due to strong differences in the potential for nitrogen limitation. In both streams, nutrient-retention efficiency was negatively influenced by abrupt discharge changes, whereas gradual seasonal changes in SRP demand were partially controlled by riparian vegetation dynamics through changes in organic matter and light availability. Nutrient concentrations were below saturation in the two streams; however, SRP demand increased relative to NH₄⁺ demand in the intermittent stream as the potential for phosphorus limitation increased (that is, higher dissolved inorganic nitrogen:SRP ratio). Unexpectedly, variability in nutrient retention was not greater in the intermittent stream, suggesting high resilience of biological communities responsible for nutrient uptake. Within-stream variability of all retention metrics, however, increased with increasing time scale. A review of studies addressing temporal variation of nutrient retention at different time scales supports this finding, indicating increasing variability of nutrient retention with concomitant increases in the variability of environmental factors from the diurnal to the inter-annual scale. Overall, this study emphasizes the significance of local climate conditions in regulating nutrient retention and points to potential effects of changes in land use and climate regimes on the functioning of stream ecosystems.     

Modelling Stream-Fish Functional Traits in Reference Conditions: Regional and Local Environmental Correlates

Identifying the environmental gradients that control the functional structure of biological assemblages in reference conditions is fundamental to help river management and predict the consequences of anthropogenic stressors. Fish metrics (density of ecological guilds, and species richness) from 117 least disturbed stream reaches in several western Iberia river basins were modelled with generalized linear models in order to investigate the importance of regional- and local-scale abiotic gradients to variation in functional structure of fish assemblages. Functional patterns were primarily associated with regional features, such as catchment elevation and slope, rainfall, and drainage area. Spatial variations of fish guilds were thus associated with broad geographic gradients, showing (1) pronounced latitudinal patterns, affected mainly by climatic factors and topography, or (2) at the basin level, strong upstream-downstream patterns related to stream position in the longitudinal gradient. Maximum native species richness was observed in midsize streams in accordance with the river continuum concept. The findings of our study emphasized the need to use a multi-scale approach in order to fully assess the factors that govern the functional organization of biotic assemblages in ‘natural’ streams, as well as to improve biomonitoring and restoration of fluvial ecosystems.     

Development of dual fish multi-metric indices of biological condition for streams with characteristic thermal gradients and low species richness

Biological indicators based on fish assemblage characteristics are used to assess stream condition worldwide. Fish-based bioassessment poses challenges in Southern New England, the USA, due to the effects of within-watershed thermal gradients on fish assemblage types, low regional species richness, and lack of minimally disturbed sites. Dual multi-metric indices (MMI) of biological condition were developed for wadeable streams based on fish assemblage characteristics sampled across watershed landscapes with varying levels of human disturbance. A coldwater MMI was developed using streams with drainage area of ≤15 km², and a mixed-water MMI for streams with drainage areas of >15 km². For each MMI development, candidate metrics represented by ecological classes were sequentially tested by metric range, within-year precision, correlation with stream size, responsiveness to landscape-level human disturbances, and redundancy. Resultant coldwater and mixed-water MMI were composed of 5 and 7 metrics, respectively. Stream sites tended to score similarly when the two MMI were applied to transitional sites, i.e., drainage areas of 5–40 km². However, some sites received high scores from the mixed-water MMI and intermediate scores from the coldwater MMI. It was thus difficult to ascertain high-quality mixed-water streams from potential coldwater streams which currently support mixed-water assemblages due to ecological degradation. High-quality coldwater streams were restricted to stream sites with drainage areas ≤15 km². The newly developed fish-based MMI will serve as a useful management tool and the dual-MMI development approach may be applicable to other regions with thermal gradients that transition from coldwater to warmwater within watersheds.