Acoustic Observation of Living Organisms Reveals the Upper Limit of the Oxygen Minimum Zone

Background

Oxygen minimum zones (OMZs) are expanding in the World Ocean as a result of climate change and direct anthropogenic influence. OMZ expansion greatly affects biogeochemical processes and marine life, especially by constraining the vertical habitat of most marine organisms. Currently, monitoring the variability of the upper limit of the OMZs relies on time intensive sampling protocols, causing poor spatial resolution.

Methodology/Principal Findings

Using routine underwater acoustic observations of the vertical distribution of marine organisms, we propose a new method that allows determination of the upper limit of the OMZ with a high precision. Applied in the eastern South-Pacific, this original sampling technique provides high-resolution information on the depth of the upper OMZ allowing documentation of mesoscale and submesoscale features (e.g., eddies and filaments) that structure the upper ocean and the marine ecosystems. We also use this information to estimate the habitable volume for the world''s most exploited fish, the Peruvian anchovy (Engraulis ringens).

Conclusions/Significance

This opportunistic method could be implemented on any vessel geared with multi-frequency echosounders to perform comprehensive high-resolution monitoring of the upper limit of the OMZ. Our approach is a novel way of studying the impact of physical processes on marine life and extracting valid information about the pelagic habitat and its spatial structure, a crucial aspect of Ecosystem-based Fisheries Management in the current context of climate change.     

Quantifying the interplay between environmental and social effects on aggregated-fish dynamics

Demonstrating and quantifying the respective roles of social interactions and external stimuli governing fish dynamics is key to understanding fish spatial distribution. If seminal studies have contributed to our understanding of fish spatial organization in schools, little experimental information is available on fish in their natural environment, where aggregations often occur in the presence of spatial heterogeneities. Here, we applied novel modeling approaches coupled to accurate acoustic tracking for studying the dynamics of a group of gregarious fish in a heterogeneous environment. To this purpose, we acoustically tracked with submeter resolution the positions of twelve small pelagic fish (Selar crumenophthalmus) in the presence of an anchored floating object, constituting a point of attraction for several fish species. We constructed a field-based model for aggregated-fish dynamics, deriving effective interactions for both social and external stimuli from experiments. We tuned the model parameters that best fit the experimental data and quantified the importance of social interactions in the aggregation, providing an explanation for the spatial structure of fish aggregations found around floating objects. Our results can be generalized to other gregarious species and contexts as long as it is possible to observe the fine-scale movements of a subset of individuals.     

Piscivore diet response to a collapse in pelagic prey populations

Pelagic fish populations in the upper San Francisco Estuary have experienced significant declines since the turn of the century; a pattern known as the pelagic organism decline (POD). This study investigated food habits of piscivorous fishes over two consecutive fall seasons following the decline of pelagic fish prey. Specifically, this study addressed the contribution of pelagic versus benthic prey to piscivorous fish diets, including the frequency of predation on special-status pelagic species, and the spatial variability in prey consumption. The piscivore community was dominated by Striped Bass and also included small numbers of Sacramento Pikeminnow and Largemouth Bass. Overall, pelagic prey items contributed less than 10% of the diet by weight in both years, whereas pre-POD studies gleaned from the literature found contributions of 39–100%, suggesting a major switch from pelagic to benthic prey resources. Between-year variation in piscivore diets reflected differences in environmental conditions associated with variation in freshwater outflow. No special status fish species were detected in any of the piscivore stomachs examined. The consequences of this pelagic to benthic diet shift warrants further investigation to understand its ecological relevance.     

Mapping abundance distribution of small pelagic species applying hydroacoustics and Co-Kriging techniques

Hydroacoustic technology provides ground tools for the estimation of abundance and spatial distribution of pelagic species. The final products of such surveys, the interpolated choropleth maps, are based on a Geostatistical analysis of the acoustic measurements to minimise, as much as possible, the interpolation error, and to quantify uncertainty. The current study is based on fisheries acoustic measurements and satellite images covering the sea area of Thermaikos Gulf over the years 1996, 1997 and 1998. Spatial interpolations describing the abundance and distribution of small pelagic species in the research area, as well as sea surface temperature (SST), Chlorophyll-a content (SSC) and average depth, were produced, based on Ordinary and Universal Kriging and Co-Kriging Geostatistical methods. The results of the Geostatistical analysis showed that the Co-Kriging spatial interpolation method produced the best results regarding fish abundance when SST and average depth variables were included in the model. The latter indicates that there is an existing spatial cross-correlation between fish abundance and the environmental variables. Consequently, the potential reduction of the overall error in the estimation process, as presented in this study, is very significant, particularly with regard to error reduction in stock assessment and management. Guest editor: V. D. Valavanis Essential Fish Habitat Mapping in the Mediterranean     

Underwater acoustics in marine fisheries and fisheries research

Underwater acoustics enables the detection and precise location of fish and is therefore a prerequisite for effective fishing methods such as pelagic trawling and purse seining. The application of acoustic instruments to detect fish and monitor gear performance in modern commercial fisheries is outlined. The latest developments in obtaining information such as bottom roughness and determining such characteristics of fish detected as size and species are presented.Echo integration is now widely used to estimate the abundance of commercially important fish stocks. The principles of the method are outlined briefly, and special emphasis is put on such effects of fish behaviour as the dramatic influence of fish orientation on its backscattering cross section, the possible effects of vessel avoidance, and the uncertainties connected with spatial variability.The use of acoustic tags, echosounders and sonar to study and quantify fish behaviour and distribution is outlined, with particular attention to new developments that provide detailed information on fish behaviour and distribution in relation to environmental parameters.Future developments and improvements in the application of underwater acoustics to commercial fisheries and fisheries research are suggested     

Lake responses to long‐term disturbances and management practices

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Lake size and fish diversity determine resource use and trophic position of a top predator in high‐latitude lakes

Prey preference of top predators and energy flow across habitat boundaries are of fundamental importance for structure and function of aquatic and terrestrial ecosystems, as they may have strong effects on production, species diversity, and food‐web stability. In lakes, littoral and pelagic food‐web compartments are typically coupled and controlled by generalist fish top predators. However, the extent and determinants of such coupling remains a topical area of ecological research and is largely unknown in oligotrophic high‐latitude lakes. We analyzed food‐web structure and resource use by a generalist top predator, the Arctic charr Salvelinus alpinus (L.), in 17 oligotrophic subarctic lakes covering a marked gradient in size (0.5–1084 km²) and fish species richness (2–13 species). We expected top predators to shift from littoral to pelagic energy sources with increasing lake size, as the availability of pelagic prey resources and the competition for littoral prey are both likely to be higher in large lakes with multispecies fish communities. We also expected top predators to occupy a higher trophic position in lakes with greater fish species richness due to potential substitution of intermediate consumers (prey fish) and increased piscivory by top predators. Based on stable carbon and nitrogen isotope analyses, the mean reliance of Arctic charr on littoral energy sources showed a significant negative relationship with lake surface area, whereas the mean trophic position of Arctic charr, reflecting the lake food‐chain length, increased with fish species richness. These results were supported by stomach contents data demonstrating a shift of Arctic charr from an invertebrate‐dominated diet to piscivory on pelagic fish. Our study highlights that, because they determine the main energy source (littoral vs. pelagic) and the trophic position of generalist top predators, ecosystem size and fish diversity are particularly important factors influencing function and structure of food webs in high‐latitude lakes.     

Bottom-up regulation of a pelagic community through spatial aggregations

The importance of spatial pattern in ecosystems has long been recognized. However, incorporating patchiness into our understanding of forces regulating ecosystems has proved challenging. We used a combination of continuously sampling moored sensors, complemented by shipboard sampling, to measure the temporal variation, abundance and vertical distribution of four trophic levels in Hawaii's near shore pelagic ecosystem. Using an analysis approach from trophic dynamics, we found that the frequency and intensity of spatial aggregations-rather than total biomass-in each step of a food chain involving phytoplankton, copepods, mesopelagic micronekton and spinner dolphins (Stenella longirostris) were the most significant predictors of variation in adjacent trophic levels. Patches of organisms had impacts disproportionate to the biomass of organisms within them. Our results are in accordance with resource limitation-mediated by patch dynamics-regulating structure at each trophic step in this ecosystem, as well as the foraging behaviour of the top predator. Because of their high degree of heterogeneity, ecosystem-level effects of patchiness such as this may be common in many pelagic marine systems.     

Drivers and stressors of freshwater biodiversity patterns across different ecosystems and scales: a review

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Warming shifts top-down and bottom-up control of pond food web structure and function

The effects of global and local environmental changes are transmitted through networks of interacting organisms to shape the structure of communities and the dynamics of ecosystems. We tested the impact of elevated temperature on the top-down and bottom-up forces structuring experimental freshwater pond food webs in western Canada over 16 months. Experimental warming was crossed with treatments manipulating the presence of planktivorous fish and eutrophication through enhanced nutrient supply. We found that higher temperatures produced top-heavy food webs with lower biomass of benthic and pelagic producers, equivalent biomass of zooplankton, zoobenthos and pelagic bacteria, and more pelagic viruses. Eutrophication increased the biomass of all organisms studied, while fish had cascading positive effects on periphyton, phytoplankton and bacteria, and reduced biomass of invertebrates. Surprisingly, virus biomass was reduced in the presence of fish, suggesting the possibility for complex mechanisms of top-down control of the lytic cycle. Warming reduced the effects of eutrophication on periphyton, and magnified the already strong effects of fish on phytoplankton and bacteria. Warming, fish and nutrients all increased whole-system rates of net production despite their distinct impacts on the distribution of biomass between producers and consumers, plankton and benthos, and microbes and macrobes. Our results indicate that warming exerts a host of indirect effects on aquatic food webs mediated through shifts in the magnitudes of top-down and bottom-up forcing.     

A new approach to species distributional indicators for the Marine Strategy Framework Directive (MSFD)

We propose alternative fish-populations spatial indicators for use in the Marine Strategy Framework Directive (MSFD). Following Commission Decision 2010/477, we have applied two different spatial indicators to three fish populations with “slow type” life-history traits, i.e. slow growing like Helicolenus dactylopterus, or large bodied like Merluccius merluccius and Lophius budegassa. We tested their efficiency separately and combined. One of these indicators, the presence/absence of the population in sampling squares, had already been applied during the initial assessment of the MSFD in Spain. Another indicator, the geographical spread, is proposed here as a new monitoring tool for the MSFD in Spanish waters. The results demonstrate for the three populations analyzed that neither indicator was sufficient alone to describe the population spatial pattern or its evolution. Thus, the approach to implementing the MSFD indicated in Commission Decision 2010/477 is not sufficient to provide integrated information about the spatial behavior of the fish populations analyzed. Although numerical targets or threshold values cannot be set, directional targets could be proposed, based on the results of both indicators, if evaluation of them is extended to more species and more geographical areas. The analysis could be extended to other “slow type” populations within the fish community and also to different ecoregions. We propose an approach including the estimation of two different indicators to monitoring both the area occupied and the geographical spread of fish populations within communities, interpreting them together to generate a more complete picture of the spatial patterns of those populations. In spite of the difficulties in fixing numerical targets or thresholds, or in distinguishing between environmentally and human driven changes in the population spatial distributions, this approach helps to summarize fish spatial behavior. It improves information from the indicators applied alone and reduces the requirement for a large number of maps (except for some particular event or population). The proposed indicators can be readily used by managers and politicians.     

The use of stable isotopes to trace small-scale movements by small fish species

Valuable biological information can be obtained by monitoring the movement of organisms. However, the choice of monitoring method becomes highly restricted when following small organisms (<100 mm), especially in aquatic ecosystems. Stable isotopes are being increasingly used in this respect but rarely at the local spatial scale, i.e. 10–1000 s of metres. We sought to identify movement of small fishes between a main river channel and its tributary. Little overlap in isotope baseline was detected between the two channels despite some temporal variability in δ¹⁵N of baseline indicator organisms in the main river. The individuals of two small cyprinid fish species (Leuciscus souffia and Alburnoides bipunctatus) of all the size classes (40–100 mm) caught within the tributary showed considerable heterogeneity in δ¹⁵N values. Classification and discriminant analysis on isotope-derived data distinguished two significantly different groups. Moreover, this result was supported by further sampling of fish caught in the main river (in May and December 2006). Alternative hypotheses, such as dietary differences, biological factors, temporal shifts and spatial differences in diet, did not explain δ¹⁵N variability. This application of stable isotopes at a relatively small spatial and temporal scales further demonstrates its potential as a tool for ecologists.     

Effects of invasive macrophyte on trophic diversity and position of secondary consumers

Invasive species are one of the widespread stressors of aquatic ecosystems. Several studies document food web effects of invasive fish, but little information is available on the effects of invasive macrophytes. We studied differences in food chain length as well as trophic position and trophic diversity of fish and odonates in lakes dominated by native plants or invasive Eurasian watermilfoil. Trophic position and food chain length were determined using baseline-adjusted δ¹⁵N isotope signatures. Trophic diversity, or isotope niche width, was estimated from convex hull area analysis. Results show that trophic position of secondary consumers was not affected by the invasive macrophyte, whereas trophic diversity was greater in watermilfoil-dominated lakes. The direction of isotopic niche expansion was different in fish and odonates, suggesting potential decoupling in predator–prey interactions. This study shows that dominant non-native macrophytes may cause significant changes in food web structure of invaded ecosystems. Trophic diversity may be a more sensitive indicator of environmental stress than trophic position and has the potential to be used for assessment of invasive species impacts and restoration success.     

An application of Social Values for Ecosystem Services (SolVES) to three national forests in Colorado and Wyoming

Despite widespread recognition that social-value information is needed to inform stakeholders and decision makers regarding trade-offs in environmental management, it too often remains absent from ecosystem service assessments. Although quantitative indicators of social values need to be explicitly accounted for in the decision-making process, they need not be monetary. Ongoing efforts to map such values demonstrate how they can also be made spatially explicit and relatable to underlying ecological information. We originally developed Social Values for Ecosystem Services (SolVES) as a tool to assess, map, and quantify nonmarket values perceived by various groups of ecosystem stakeholders. With SolVES 2.0 we have extended the functionality by integrating SolVES with Maxent maximum entropy modeling software to generate more complete social-value maps from available value and preference survey data and to produce more robust models describing the relationship between social values and ecosystems. The current study has two objectives: (1) evaluate how effectively the value index, a quantitative, nonmonetary social-value indicator calculated by SolVES, reproduces results from more common statistical methods of social-survey data analysis and (2) examine how the spatial results produced by SolVES provide additional information that could be used by managers and stakeholders to better understand more complex relationships among stakeholder values, attitudes, and preferences. To achieve these objectives, we applied SolVES to value and preference survey data collected for three national forests, the Pike and San Isabel in Colorado and the Bridger–Teton and the Shoshone in Wyoming. Value index results were generally consistent with results found through more common statistical analyses of the survey data such as frequency, discriminant function, and correlation analyses. In addition, spatial analysis of the social-value maps produced by SolVES provided information that was useful for explaining relationships between stakeholder values and forest uses. Our results suggest that SolVES can effectively reproduce information derived from traditional statistical analyses while adding spatially explicit, social-value information that can contribute to integrated resource assessment, planning, and management of forests and other ecosystems.     

Novel application of a quantitative spatial comparison tool to species distribution data

Comparing geographically referenced maps has become an important aspect of spatial ecology (e.g. assessing change in distribution over time). Whilst humans are adept at recognising and extracting structure from maps (i.e. identifying spatial patterns), quantifying these structures can be difficult. Here, we show how the Structural Similarity (SSIM) index, a spatial comparison method adapted from techniques developed in computer science to determine the quality of image compression, can be used to extract additional information from spatial ecological data. We enhance the SSIM index to incorporate uncertainty from the underlying spatial models, and provide a software algorithm to correct for internal edge effects so that loss of spatial information from the map comparison is limited. The SSIM index uses a spatially-local window to calculate statistics based on local mean, variance, and covariance between the maps being compared. A number of statistics can be calculated using the SSIM index, ranging from a single summary statistic to quantify similarities between two maps, to maps of similarities in mean, variance, and covariance that can provide additional insight into underlying biological processes. We demonstrate the applicability of the SSIM approach using a case study of sperm whales in the Mediterranean Sea and identify areas where local-scale differences in space-use between groups and singleton whales occur. We show how novel insights into spatial structure can be extracted, which could not be obtained by visual inspection or cell-by-cell subtraction. As an approach, SSIM is applicable to a broad range of spatial ecological data, providing a novel, implementable tool for map comparison.     

Ecological relationships between stream communities and spatial scale: implications for designing catchment-level monitoring programmes

1. Stream communities are structured by factors acting over multiple spatial and temporal scales. Identifying what factors are driving spatial patterns in stream communities is a central aim of ecology.
2. Here we used two large European data sets of fish, invertebrates, macrophytes, benthic diatoms and environmental data in two stream groups (lowland and mountain) to determine the importance of variables at different spatial scales (geographical, regional, local) on community structure.
3. Both geographical position and ecoregion were selected first in canonical correspondence analysis (CCA), clearly showing the broad spatial gradients covered in the data set. Secondary predictors (after accounting for spatial and/or ecoregion effects) were similar between stream groups and among the four organism groups. In particular, conductivity and N concentration were strong predictors reflecting catchment land use.
4. Using partial CCA, we assessed the individual importance of the three spatial scales on the community structure of the four organism groups in the two stream groups. The majority of among-site variability (22–29%) was accounted for by local scale variables (e.g. water chemistry and substratum type), with regional and spatial variables accounting 11–13% and 5–6%, respectively. Our findings indicate that the four organism groups are responding similarly to the different levels of spatial scale, implying much redundancy which should be consider when implementing studies of bioassessment.     

Characterizing fish–habitat associations in streams as the first step in ecological restoration

Abstract Habitat availability is often regarded as the primary factor that limits population and community recovery in degraded ecosystems, and physical habitat is thus often targeted in restoration. The identification of which habitat(s) to attempt to restore is a critical step in the restoration process, but one for which there is often a paucity of useful information. Here we examine the distribution of fish in three lowland streams in Victoria, Australia, that have been degraded by severe sedimentation. We aim to identify habitats that are associated with high abundances of native fish, and that thus might be appropriate to target in habitat restoration. Associations between native fish abundances and physical habitat characteristics were examined at three spatial scales (among streams, among sites and within sites) to determine the types of habitat to which fish respond, and the scales over which these responses occur. Of the four species of native fish found in the streams, three (Galaxias olidus Günther, Gadopsis marmoratus (Richardson) and Nanoperca australis Günther) showed significant habitat associations at small spatial scales (i.e. within sites). In particular, these species were generally found in deeper water, and in close proximity to cover (typically either coarse or fine woody debris or vegetation). Differences in habitat availability among sites and streams were less influential, except in the case of G. marmoratus, which was completely absent from both the ephemeral streams. Although our results suggest that these species collectively respond to habitat at several spatial scales, fish distributions were allied to the presence of habitat structure at the scale of metres, the smallest spatial scale examined. We hypothesize that fish abundances are currently limited by the low availability of habitat at these small spatial scales. It may therefore be possible to increase fish abundances in these creeks by augmenting the amount of available habitat via stream restoration.     

Diatom-Specific Highly Branched Isoprenoids as Biomarkers in Antarctic Consumers

The structure, functioning and dynamics of polar marine ecosystems are strongly influenced by the extent of sea ice. Ice algae and pelagic phytoplankton represent the primary sources of nutrition for higher trophic-level organisms in seasonally ice-covered areas, but their relative contributions to polar marine consumers remain largely unexplored. Here, we investigated the potential of diatom-specific lipid markers and highly branched isoprenoids (HBIs) for estimating the importance of these two carbon pools in an Antarctic pelagic ecosystem. Using GC-MS analysis, we studied HBI biomarkers in key marine species over three years in Adélie Land, Antarctica: euphausiids (ice krill Euphausia crystallorophias and Antarctic krill E. superba), fish (bald notothens Pagothenia borchgrevinki and Antarctic silverfish Pleuragramma antarcticum) and seabirds (Adélie penguins Pygoscelis adeliae, snow petrels Pagodroma nivea and cape petrels Daption capense). This study provides the first evidence of the incorporation of HBI lipids in Antarctic pelagic consumers. Specifically, a di-unsaturated HBI (diene) of sea ice origin was more abundant in ice-associated species than in pelagic species, whereas a tri-unsaturated HBI (triene) of phytoplanktonic origin was more abundant in pelagic species than in ice-associated species. Moreover, the relative abundances of diene and triene in seabird tissues and eggs were higher during a year of good sea ice conditions than in a year of poor ice conditions. In turn, the higher contribution of ice algal derived organic matter to the diet of seabirds was related to earlier breeding and higher breeding success. HBI biomarkers are a promising tool for estimating the contribution of organic matter derived from ice algae in pelagic consumers from Antarctica.