Making water flow: a comparison of the hydrodynamic characteristics of 12 different benthic biological flumes

Flume tanks are becoming increasingly important research tools in aquatic ecology, to link biological to hydrodynamical processes. There is no such thing as a “standard flume tank”, and no flume tank is suitable for every type of research question. A series of experiments has been carried out to characterise and compare the hydrodynamic characteristics of 12 different flume tanks that are designed specifically for biological research. These facilities are part of the EU network BioFlow. The flumes could be divided into four basic design types: straight, racetrack, annular and field flumes. In each facility, two vertical velocity profiles were measured: one at 0.05 m s⁻¹ and one at 0.25 m s⁻¹. In those flumes equipped with Acoustic Doppler Velocimeters (ADV), time series were also recorded for each velocity at two heights above the bottom: 0.05 m and 20% of the water depth. From these measurements turbulence characteristics, such as TKE and Reynolds stress, were derived, and autocorrelation spectra of the horizontal along-stream velocity component were plotted. The flume measurements were compared to two sets of velocity profiles measured in the field.Despite the fact that some flumes were relatively small, turbulence was fully developed in all channels. Straight and racetrack flumes generally produced boundary layers with a clearly definable logarithmic layer, similar to measurements in the field taken under steady flow conditions. The two annular flumes produced relatively thin boundary layers, presumably due to secondary flows developing in the curved channels. The profiles in the field flumes also differed considerably from the expected log profile. This may either have been due the construction of the flume, or due to unsteady conditions during measurement. Constraints imposed by the different flume designs on the suitability for different types of boundary layer research, as well as scaling issues are discussed.     

Monitoring of marine benthic communities and taxonomic resolution: an approach through diverse habitats and substrates along the Southern Iberian coastline

Studies conducted along the southern Iberian coastline validate macrobenthic community analyses at taxonomic levels higher than that of species. Twelve studies on littoral benthic communities, carried out by the same research team, were selected spanning both a variety of sampling strategies (spatial, temporal, spatio-temporal) and substrate/habitat types (sediment, rock, algae). In order to establish differences between the results obtained at the taxonomic levels of species, family and order, similarities among stations were calculated using Spearman’s coefficient for ranges. A subset of three studies was selected to investigate possible differences in ‘best-explaining’ environmental variables with taxonomic level. The environmental variables selected at species level were the same as those found at levels of family and order. It is concluded that studies at the different levels of taxonomic resolution (species, family, order) lead to similar results both with regard to relative community distributions and the environmental variables associated with these. The importance of this result for monitoring similar benthic communities is discussed.     

Dispersal frequency affects local biomass production by controlling local diversity

Dispersal is a major factor regulating the number of coexisting species, but the relationship between species diversity and ecosystem processes has mainly been analysed for communities closed to dispersal. We experimentally investigated how initial local diversity and dispersal frequency affect local diversity and biomass production in open benthic microalgal metacommunities. Final local species richness and local biomass production were strongly influenced by dispersal frequency but not by initial local diversity. Both final local richness and final local biomass showed a hump-shaped pattern with increasing dispersal frequency, with a maximum at intermediate dispersal frequencies. Consequently, final local biomass increased linearly with increasing final richness. We conclude that the general relationship between richness and ecosystem functioning remains valid in open systems, but the maintenance of ecosystem processes significantly depends on the effects of dispersal on species richness and local interactions.     

Fluorometric estimation of surface associated microbial abundance

Surface associated microbes have historically been difficult to accurately and effectively enumerate. In the current study, we propose a rapid and simple method for estimating abundance of surface associated microbial cells by fluorescence of SYBRGreen stained bacteria and in vivo chlorophyll a fluorescence of benthic diatoms in 24 and 48-well microtiter plates. The effectiveness of this high-throughput technique is demonstrated by assessing sensitivity of a clinical strain of Vibrio cholerae, a benthic bacterial isolate and the benthic microalgae Cylindrotheca closterium to three antibiotics — tylosin, lincomycin and ciproflaxacin. We report on the significant linear relationships between spectral chl a fluorescence and cell abundance and between microalgal growth rates derived from cell counts and fluorescence. Additionally, we provide a simplified and improved method for preparation of a silica gel matrix (SGM), which is an ideal plating media for fluorescence applications. These findings indicate that spectrofluorometry is an inexpensive tool for rapidly estimating abundance of surface associated microbiota and can be employed for assessing antibiotic sensitivity.     

Extensive gaps and biases in our knowledge of a well‐known fauna: implications for integrating biological traits into macroecology

Aim Ecologists seeking to describe patterns at ever larger scales require compilations of data on the global abundance and distribution of species. Comparable compilations of biological data are needed to elucidate the mechanisms behind these patterns, but have received far less attention. We assess the availability of biological data across an entire assemblage: the well‐documented demersal marine fauna of the United Kingdom. We also test whether data availability for a species depends on its taxonomic group, maximum body size, the number of times it has been recorded in a global biogeographic database, or its commercial and conservation importance. Location Seas of the United Kingdom. Methods We defined a demersal marine fauna of 973 species from 15 phyla and 40 classes using five extensive surveys around the British Isles. We then quantified the availability of data on eight key biological traits (termed biological knowledge) for each species from online databases. Relationships between biological knowledge and our predictors were tested with generalized linear models. Results Full data on eight fundamental biological traits exist for only 9% (n= 88) of the UK demersal marine fauna, and 20% of species completely lack data. Clear trends in our knowledge exist: fish (median biological knowledge score = six traits) are much better known than invertebrates (one trait). Biological knowledge increases with biogeographic knowledge and (to a lesser extent) with body size, and is greater in species that are commercially exploited or of conservation concern. Main conclusions Our analysis reveals deep ignorance of the basic biology of a well‐studied fauna, highlighting the need for far greater efforts to compile biological trait data. Clear biases in our knowledge, relating to how well sampled or ‘important’ species are suggests that caution is required in extrapolating small subsets of biologically well‐known species to ecosystem‐level studies.     

Diversity and geographic distribution of benthic foraminifera: a molecular perspective

The diversity and distribution of modern benthic foraminifera has been extensively studied in order to aid the paleoecological interpretation of their fossil record. Traditionally, foraminiferal species are identified based on morphological characters of their organic, agglutinated or calcareous tests. Recently, however, new molecular techniques based on analysis of DNA sequences have been introduced to study the genetic variation in foraminifera. Although the number of species for which DNA sequence data exist is still very limited, it appears that morphology-based studies largely underestimated foraminiferal diversity. Here, we present two examples of the use of DNA sequences to examine the diversity of benthic foraminifera. The first case deals with molecular and morphological variations in the well-known and common calcareous genus Ammonia. The second case presents molecular diversity in the poorly documented group of monothalamous (single-chambered) foraminifera. Both examples perfectly illustrate high cryptic diversity revealed in almost all molecular studies. Molecular results also confirm that the majority of foraminiferal species have a restricted geographic distribution and that globally distributed species are rare. This is in opposition to the theory that biogeography has no impact on the diversity of small-sized eukaryotes. At least in the case of foraminifera, size does not seem to have a main impact on dispersal capacities. However, the factors responsible for the dispersal of foraminiferal species and the extension of their geographic ranges remain largely unknown. Special Issue: Protist diversity and geographic distribution. Guest editor: W. Foissner.     

Seasonal and spatial variation in the diet of brown trout (Salmo trutta L.) in the subarctic River Laxá, north-east Iceland

This study examines seasonal and spatial patterns in the diet composition, stomach fullness and condition of a landlocked population of brown trout (2.5–61.3 cm) in the lake-fed River Laxá in NE-Iceland. The stomach contents consisted predominantly of benthic invertebrates, such as blackfly larvae Simulium vittatum (58%), chironomids (24%) and the freshwater snail Radix peregra (7%). The seasonal and spatial patterns of S. vittatum in the stomach contents were consistent with published studies on the life cycle and production of S. vittatum in the River Laxá. Close to the Lake Myvatn outlet (0–16 km), S. vittatum constituted 63% of the stomach content volume, and exhibited two peaks (i.e., generations) in its seasonal contribution to the stomach contents, whereas further downstream (16–35 km) S. vittatum constituted 45% of the volume and showed only clear evidence of one generation. Seasonal fluctuations in S. vittatum availability appear to affect the stomach fullness and the condition factor of the trout, especially close to the lake outlet where the fluctuations are pronounced.     

Seasonal variations in the physiological condition of the benthic amphipods Monoporeia affinis and Pontoporeia femorata in the Gulf of Riga (Baltic Sea)

Seasonal variations in the physiological condition of two benthic deposit-feeding amphipods were studied in two environmentally differing areas in the Gulf of Riga (Baltic Sea) with the purpose of estimating their role in benthic mineralisation. At the shallower (26 m) nearshore station, Monoporeia affinis exhibited low ammonia excretion rate (VNH ₄ ⁺ ) throughout the year. After intensive accumulation of lipids in spring, the lipid reserves of the individuals became rapidly depleted during autumn. Gravid females in winter-early spring showed exceedingly low lipid and triacylglycerol (TAG) levels compared to studies carried out in open-sea areas. Pontoporeia femorata studied at the deeper (43 m) offshore station exhibited a higher VNH ₄ ⁺ at all times with no significant seasonal variation. Lipid and TAG accumulated continuously until November, reaching higher levels than recorded previously for this species. Experiments showed that the temperature coefficient Q ₁₀ determined for VNH ₄ ⁺ is likely to depend on the recent feeding history of the amphipods. Mineralisation of nitrogen and carbon by the amphipod populations at the study sites was estimated to be 1.7-3.0 g C and 11.3-13.5 mmol NH ₄ ⁺ m^–2 yr^–1. Conclusively, both biotic and abiotic factors affect the condition of the amphipods, while the species also have genuine differences in their metabolic characteristics.     

Developing and applying a benthic index of estuarine condition for the Virginian Biogeographic Province

A benthic index of estuarine condition was constructed for the Virginian Biogeographic Province (from Cape Cod, Massachusetts, to the mouth of Chesapeake Bay, Virginia) with data collected during summers of 1990 through 1993 by the US EPA’s Environmental Monitoring and Assessment Program (EMAP). Forty-eight metrics, based on attributes of the macrobenthos, were considered for the index, including measures of biodiversity, community condition, individual health, functional organization, and taxonomic composition. Salinity was correlated significantly with some of the metrics. Therefore, some metrics were normalized for salinity. The data used to develop the index (the calibration data) included equal numbers of reference and degraded sites, distributed equally across three salinity zones (<5, 5–18, >18‰). An independent set of data was used for validation. Linear discriminant analysis identified combinations of metrics that could best discriminate reference from degraded sites. The targets for correct classification were 90% of the sites for the calibration data and 80% for the validation data. Six combinations of metrics were identified. The final index was based on the ecological interpretation and relevance of the individual metrics and the ability to meet the calibration and validation targets. The final index consisted of three metrics: a positive contribution from salinity-normalized Gleason’s D (a biodiversity metric), and negative contributions from two taxonomic composition metrics, abundances of spionid polychaetes and of salinity-normalized tubificid oligochaetes. The index correctly classified 87% of reference and 90% of degraded sites in the calibration data and 88% of reference and 81% of degraded sites in the validation data. The index correctly classified sites over the full range of salinity (tidal-fresh to marine waters) and across grain sizes (silt–clay to sand).     

Longitudinal patterns of phosphorus and phosphorus binding in sediment of a lowland lake–river system

In the Warnow River and its tributaries in North Germany, measurements were made to characterise the longitudinal patterns of nutrients in the riverbed and lake sediments. The sediment composition was analysed based on dry weight, organic matter, mean grain size and concentration of carbon, nitrogen, phosphorus, iron, aluminium and sulfur. Sediment phosphate was investigated in more detail by means of a sequential chemical extration. The phosphate was differently bound to the sediment particles in the upstream region than in the impounded section of the Warnow River and ist tributaries. Accumulation of fine sediment with high P-concentrations was recorded in the lake sediments and in the impounded section of the river. These impounded sections were the most important P-pool in the whole catchment area and played an important role in P-retention in the river system. Organic matter concentration, P-accumulation and P-binding in the sediment of the impounded section is corresponding with those of lake sediments. During the summer, anoxic P-release from the sediment in the impounded section was measured and calculated. The reductant-soluble fraction of the P-fractionation underestimated the release under anoxic condition. Adsorbed phosphorus and organic phosphate play an important role in P-release in the impounded part of the river.