The clogging of coarse gravel river beds by fine sediment

Laboratory investigations were carried out to examine the clogging process in coarse gravel river beds. Field samples taken from the Langeten river in Switzerland show that the intruded fine particles of the flow are deposited in the top layer of the river bed. For lower discharges the decrease of the hydraulic conductivity depends mainly on the dimensionless shear stress of the flow, the concentration of the suspended load, the hydraulic gradient between river and groundwater and the grain-size distribution of the river bed. However, when the armour layer breaks up during high discharges and the whole river bed is mobilized, the deposited fines are flushed downstream and a new layer with an initial maximum hydraulic conductivity is formed. The relationship between the dimensionless shear stress and the hydraulics conductivity is discussed. Changes in the nature of the catchment area or in the river itself which can accelerate the clogging process in the affected river are also discussed.     

Hydrodynamic and Sediment Responses of Open Channels to Exposed Pipe Encasements

The effects of exposed pipe encasements on the local variation of hydrodynamic and sediment conditions in a river channel are examined. Laboratory experiments are performed to assess the response of water level, flow regime and bed deformation to several representative types of concrete encasements. The experimental conditions considered are: three types of exposed pipe encasements exposed on the bed, including trapezoidal shape, circular-arc shape and polygonal shape, and three sets of discharges, including annual discharge, once-in-3-year flood, and once-in-50-year flood. Our experiments show that: (1) the amount of backwater definitely depends on the encasement geometric shape and the background discharge; (2) smaller discharges generally tend to induce local scour of river bed downstream of the encasement, and the order of sensitivity of bed deformation to the encasement geometric shape is trapezoidal > circular-arc > polygonal; (3) comparatively speaking, the polygonal encasement may be considered as a suitable protective structure for pipelines across alluvial rivers, with relatively modest effects on the local hydrodynamic conditions and bed stabilization.     

Effects of Heterogeneity on Spread and Persistence in Rivers

The question how aquatic populations persist in rivers when individuals are constantly lost due to downstream drift has been termed the “drift paradox.” Recent modeling approaches have revealed diffusion-mediated persistence as a solution. We study logistically growing populations with and without a benthic stage and consider spatially varying growth rates. We use idealized hydrodynamic equations to link river cross-sectional area to flow speed and assume heterogeneity in the form of alternating patches, i.e., piecewise constant conditions. We derive implicit formulae for the persistence boundary and for the dispersion relation of the wave speed. We explicitly discuss the influence of flow speed, cross-sectional area and benthic stage on both persistence and upstream invasion speed.     

Bacteria in the cold deep-sea benthic boundary layer and sediment-water interface of the NE Atlantic

This is a short review of the current understanding of the role of microorganisms in the biogeochemistry in the deep-sea benthic boundary layer (BBL) and sediment-water interface (SWI) of the NE Atlantic, the gaps in our knowledge and some suggestions of future directions. The BBL is the layer of water, often tens of meters thick, adjacent to the sea bed and with homogenous properties of temperature and salinity, which sometimes contains resuspended detrital particles. The SWI is the bioreactive interface between the water column and the upper 1 cm of sediment and can include a large layer of detrital material composed of aggregates that have sedimented from the upper mixed layer of the ocean. This material is biologically transformed, over a wide range of time scales, eventually forming the sedimentary record. To understand the microbial ecology of deep-sea bacteria, we need to appreciate the food supply in the upper ocean, its packaging, passage and transformation during the delivery to the sea bed, the seasonality of variability of the supply and the environmental conditions under which the deep-sea bacteria grow. We also need to put into a microbial context recent geochemical findings of vast reservoirs of intrinsically labile organic material sorped onto sediments. These may well become desorped, and once again available to microorganisms, during resuspension events caused by deep ocean currents. As biotechnologists apply their tools in the deep oceans in search of unique bacteria, an increasing knowledge and understanding of the natural processes undertaken and environmental conditions experienced by deep-sea bacteria will facilitate this exploitation.     

Hydro-morphologically related variance in benthic drift and its importance for numerical habitat modelling

Numerical fish-habitat modelling on various scales is considered to be state of the art in river management. However, most of the concepts applied use steady-state hydraulic parameters such as flow velocity and water depth. Herein we present analysis and discussion of the possibility of including a drift-feeding parameter (SI_F) into habitat evaluations based on multiplying suitability indices. “Sources” and “sinks” of benthic drift were identified according to both the zero-crossing and hydraulic-threshold methods in an alpine gravel-bed river. Minor differences could be determined between the two methods in a well-developed riffle–pool section. Macroinvertebrates, used for simulating benthic drift, were collected by multi-habitat sampling and appraised according to their critical threshold (τ _cr) for motion on the bed surface and sinking velocity (v _s). The findings of the calculation of drift rates using one- (1D) and two-dimensional (2D) hydrodynamic numerical models highlight a specification of best feeding position for drift-feeding fish (i.e. brown trout, grayling) considering the SI_F parameter. Riffle–pool sequences are characteristic of pristine alpine streams; our findings underline their importance as production (riffles) and consumption areas (pools) in terms of holistic river function. Moreover, the results indicate that (artificial) lateral obstruction (e.g. dams) may lead to a reduced transport rate of benthic organisms due to low bottom shear stress (<0.25 N m⁻²). Thus, deposition of drifting macroinvertebrates occurs in backwaters, with downstream impacts on benthic and fish communities.     

The benthic boundary layer approach and its application to Lake Päijänne,Finland

Resuspension of bottom sediments is the net result of a wide variety of different fluid mechanical processes with characteristic time and length scales that extend over six orders of magnitude. The sum of these effects is most heavily concentrated in a layer adjacent to the bottom called the benthic boundary layer (BBL). The physics of BBL must be understood before improved solutions to the resuspension problem are possible. Traditionally in lakes, sedimentation and resuspension have been modelled with the aid of equations which ignore the time and space variations of near bottom processes. This can lead to wrong estimates of material transport. With the exception of few recent studies, benthic boundary layer approach has been mainly applied to marine environments. The instrumentation has been a major problem for development of the theory and its applications, but during recent years some new instruments have been giving promising results. This paper discusses the applicability of the theory in Finnish lakes and presents results from Lake Päijänne.     

Colonization dynamics of river benthos in response to local changes in bed characteristics

1. The effects of small-scale variation in the nature of a river bed upon the colonization dynamics of benthic invertebrates were explored through a series of microhabitat implants placed in a small river in southern Ontario. The implants presented variations in the levels of four microhabitat features: substrate particle size, current regime, added food and light. The sixteen possible combinations of these variables were replicated five times, for a total of eighty implants.
2. After 14 days of exposure, some of the controlled variables had been modified and a number of other variables (sand, fine (FPOM) and coarse (CPOM) particulate organic matter) had been added by the river.
3. Benthic diversity differed among the implants, with sand and CPOM accounting for 15.5% of the variation. Benthic density was more uniform and was weakly related only to added food. Application of the CANOCO program to the data set suggested that, in general, the environmental variables manipulated in this study were not the key factors influencing colonization, although they may have been important in non-linear combination.
4. A number of important positive associations were evident among colonizing species, some of which are thought to reflect those of predator and prey.
5. Control of colonization appears to be through multiple factors (abiotic, biotic, autochthonous, allochthonous) that differ in nature according to species, and which underline the complexity of selection responses of individual taxa to local variations in bed structure. Researchers must acknowledge this multifactorial organization and dynamic nature if workable models of lotic community structure and development are to be forthcoming.     

Colonization dynamics of river benthos in response to local changes in bed characteristics

1. The effects of small-scale variation in the nature of a river bed upon the colonization dynamics of benthic invertebrates were explored through a series of microhabitat implants placed in a small river in southern Ontario. The implants presented variations in the levels of four microhabitat features: substrate particle size, current regime, added food and light. The sixteen possible combinations of these variables were replicated five times, for a total of eighty implants.
2. After 14 days of exposure, some of the controlled variables had been modified and a number of other variables (sand, fine (FPOM) and coarse (CPOM) particulate organic matter) had been added by the river.
3. Benthic diversity differed among the implants, with sand and CPOM accounting for 15.5% of the variation. Benthic density was more uniform and was weakly related only to added food. Application of the CANOCO program to the data set suggested that, in general, the environmental variables manipulated in this study were not the key factors influencing colonization, although they may have been important in non-linear combination.
4. A number of important positive associations were evident among colonizing species, some of which are thought to reflect those of predator and prey.
5. Control of colonization appears to be through multiple factors (abiotic, biotic, autochthonous, allochthonous) that differ in nature according to species, and which underline the complexity of selection responses of individual taxa to local variations in bed structure. Researchers must acknowledge this multifactorial organization and dynamic nature if workable models of lotic community structure and development are to be forthcoming.     

La Formation du Faou (Dévonien inférieur du finistère):Nouvelles observations biostratigraphiques et mise en évidence d'une écozone

enDetailed biostratigraphic analysis of a section in the Faou Formation (Lower Devonian, western Armorican Massif) provides new data about the vertical distribution of benthic faunas in this lithostratigraphic unit. A new interpretation of the Siegenian-Emsian boundary is proposed and a Leptaenopyxis kerfornei Ecozone is recognized. The repetition of this ecozone in the succession, with the presence of brachiopods in life position, shows that the hydrodynamic flow, the nature and the volume of the deposits were irregular during the sedimentation of the Faou Formation.     

Relative roles of stream flow and sedimentary conditions in controlling hyporheic exchange

Hyporheic exchange is often controlled by subsurface advection driven by the interaction of the stream with sedimentary pore water. The nature and magnitude of the induced exchange flow is dependent on the characteristics of both the stream flow and the sediment bed. Fundamental hydrodynamic theory can be applied to determine general relationships between stream characteristics, sediment characteristics, and hyporheic exchange rates. When the stream bed is fine enough to allow application of Darcy's Law, as with sand beds, the induced advective exchange can be calculated from fundamental hydrodynamic principles. Comparison with a wide range of experimental results demonstrates the predictive capability of this theory. Coarser sediments such as gravels are more complex because they admit turbulent interactions between the stream and subsurface flows, which can produce considerable exchange even when the bed surface is flat and no flows are induced by the bed topography. Even for this case, however, scaling arguments can still be used to determine how exchange rates vary with stream and sedimentary conditions. Evaluation of laboratory flume experiments for a wide range of stream conditions, bed sediment types including sand and gravel, and bed geometries demonstrates that exchange scales with the permeability of the bed sediments and the square of the stream velocity. These relationships occur due to fundamental hydrodynamic processes, and were observed to hold over almost five orders of magnitude of exchange flux. Such scaling relationships are very useful in practice because they can be used to extend observed hyporheic exchange rates to different flow conditions and to uniquely identify the role of sedimentary conditions in controlling exchange flux.     

Staining kinetics in single cells. Part I. Influence of convective diffusion on the staining rate

The staining kinetics of single cells have been investigated using a perfusion cuvette in combination with a computer controlled microscope spectrometer. The physicochemical hydrodynamics of staining are characterized. Using a steady-state laminar flow parallel to the cell surface a hydrodynamic and a diffusional boundary layer are observed which are determined by the flow rate. The thickness of the diffusional boundary layer revealed by experimental data is in agreement with theoretically calculated values. At certain well-defined hydrodynamic conditions convective diffusion has no further effect on the staining rate.     

Morphological adaptations of benthic invertebrates to stream flow — An old question studied by means of a new technique (Laser Doppler Anemometry)

Summary The generally accepted concept that dorsoventral flatness and/or small size of benthic stream invertebrates staying on the surface of the bottom substratum allows a current-sheltered life in the boundary layer (Ambühl 1959) is checked by means of the new technique of Laser Doppler Anemometry (LDA). With LDA measurement of flow can be done nearly punctually without any mechanical disturbance. Mapping the current velocities around the body of Ecdyonurus cf. venosus (Insecta, Ephemeroptera) and Ancylus fluviatilis (Gastropoda) gives evidence that boundary layer separation occurs above the animals' bodies. Our results indicate that the velocities around the body of benthic stream invertebrates and probably the forces acting on them are much more complicate than is suggested by the currently accepted boundary layer concept.     

Local disturbance history affects patchiness of benthic river algae

1. Recent research has shown that high‐flow events in streams leave a small‐scale mosaic of bed patches that have experienced scouring, sediment deposition (fill), or remained stable. Few studies have investigated if this ‘local disturbance history’ contributes to the patchy distribution of benthic organisms in streams and rivers. 2. In the present research, we demonstrate that local disturbance history in a mid‐sized river can have both short‐ and long‐term effects on epilithic algae. Chains buried vertically in the substratum of the river bed (236 in a 800‐m reach) indicated that two floods (return periods ≤1 year) caused a mosaic of bed patches with different disturbance histories. Once after the first and twice after the second flood, we sampled epilithic algae (mainly diatoms) in replicate patches that had been scoured, filled, or remained stable during the respective event. Algal biomass and cell density per substratum area were determined. 3. Three months after the first flood, algal biomass, total diatom density, diatom taxon richness, and densities of six of nine most common taxa were highest in fill patches. Six days after the second flood, biomass was highest in stable patches, indicating a refugium function of these patches. The refugium patches consisted of average‐sized stones, in contrast to previous studies of flood refugia for benthic algae in which these refugia were always large and/or immobile substrata. Four weeks after the second flood, diatoms tended to be most abundant in scour patches. With one exception, these differences between patch types could not be attributed to differences in local near‐bed current velocity or water depth. 4. The effects of disturbance history were more complex than a simple refugium function of stable patches because algal patterns changed with time since the last disturbance, possibly depending on the successional state of the algal mats.     

Spatial heterogeneity of spring phytoplankton in a large tropical reservoir: could mass effect homogenize the heterogeneity by species sorting?

Dredging Austrian Danube harbours becomes necessary to keep the navigation channel free from bed sediment and to insure safe navigation, especially after major floods. In most cases, the excavated substrate is deposited in the free-flowing river section in the vicinity of the mouth of a harbour. The effects of harbour dredging on the biota need to be studied to minimize possible outcomes that may endanger the ecological status of the river system in order to implement the aims of the European Water Framework Directive. This study presents the first quantitative information on the colonisation of benthic invertebrates with respect to Danube harbours. One sampling at Linz Harbour was conducted before dredging and four samplings were carried out after dredging. Four transects were documented in the affected river section. The study used an air-lift sampler and a grab sampler to investigate if and to what extent the benthic invertebrate community is disturbed. It found that the sediment dredging heavily affected the benthic invertebrates (decline of 82% of biomass), while the dumping of the material had no effects on the benthic Danube biota. As a rough estimate (conferring to a simple trend line analysis) the harbour bottom fauna would recover after 235 days.     

Modeling of transient flow through a viscoelastic preparative chromatography packing

The common method for purification of macromolecular bioproducts is preparative packed‐bed chromatography using polymer‐based, compressible, viscoelastic resins. Because of a downstream processing bottleneck, the chromatography equipment is often operated at its hydrodynamic limit. In this case, the resins may exhibit a complex behavior which results in compression–relaxation hystereses. Up to now, no modeling approach of transient flow through a chromatography packing has been made considering the viscoelasticity of the resins. The aim of the present work was to develop a novel model and compare model calculations with experimental data of two agarose‐based resins. Fluid flow and bed permeability were modeled by Darcy's law and the Kozeny–Carman equation, respectively. Fluid flow was coupled to solid matrix stress via an axial force balance and a continuity equation of a deformable packing. Viscoelasticity was considered according to a Kelvin–Voigt material. The coupled equations were solved with a finite difference scheme using a deformable mesh. The model boundary conditions were preset transient pressure drop functions which resemble simulated load/elution/equilibration cycles. Calculations using a homogeneous model (assuming constant variables along the column height) gave a fair agreement with experimental data with regard to predicted flow rate, bed height, and compression–relaxation hysteresis for symmetric as well as asymmetric pressure drop functions. Calculations using an inhomogeneous model gave profiles of the bed porosity as a function of the bed height. In addition, the influence of medium wall support and intraparticle porosity was illustrated. The inhomogeneous model provides insights that so far are not easily experimentally accessible. © 2013 American Institute of Chemical Engineers Biotechnol. Prog., 29:958–967, 2013     

Larval settlement in benthic environments: the effects of velocity and bed element geometry

1. Fluid‐mediated transport can play a key role in determining patterns of distribution and abundance for many benthic invertebrates. One critical challenge in understanding this process is to determine how flow patterns affect larval settlement, especially in those benthic environments where near‐bed flows interact with irregular bed topography to create complex variations in habitat suitability and settlement probability. 2. Boundary‐layer separation over topographical projections on an irregular bed can create two distinct regions of near‐bed flow (i.e., accelerating flow over the forebody and a zone dominated by slower eddies over the aftbody) that may have different effects on larval settlement. 3. We manipulated the flow over a convex roughness element (i.e., hemicylinder) in a flume and examined how the settlement of larvae of the black fly Simulium tribulatum varied with changes in near‐bed velocity and location over the substrate. Larval settlement rate was standardised to correct for variations in larval supply (i.e., among‐trial differences in the concentration of larvae in suspension). 4. Our analyses showed that position on the hemicylinder and near‐bed velocity both affected settlement rate, with a strong interaction effect. In particular, the observed relationship between settlement rate and velocity was negative on the substrate’s forebody and positive on the aftbody. We explore these results by considering potential physical and behavioural mechanisms affecting larval settlement. 5. The presence of a positive relationship between flow and settlement rate in the aftbody may allow settlement on bed elements in habitat where preferred fast‐flow conditions are present, but where settlement would otherwise by hydrodynamically limited. Thus, greater attention to settlement mechanisms in more realistic, topographically complex environments can not only help explain distribution patterns within substrates, but also among substrates and across habitats.     

Simulating the recovery of suspended sediment transport and river-bed stability in response to dam removal on the Elwha River,Washington

U.S. Department of the Interior is planning to remove two high dams (30 and 60 m) from the Elwha River, which will allow the river to erode sediment deposits in the reservoirs, and ultimately restore the river ecosystem. Fluvial sediment transport and deposition paradoxically represent ecological disturbance and restoration. A one-dimensional, movable boundary sediment-transport model was applied at a daily time step to simulate changes in river-bed elevations and particle-size distributions and concentrations of suspended sediment. The simulations included a three-year dam removal period and a four-year recovery period. Simulated concentrations of suspended sediment recover rapidly during the recovery period. Simulated bed elevation and particle-size distributions are stable for much of the river during the recovery period, but high flows periodically disturb the river bed, causing changes in river-bed elevation and particle-size distribution, especially during autumn, when summer/autumn chinook salmon are incubating in redds. Although the river bed will become increasingly stable after dam removal, episodic high flows will interrupt recovery trends. Productivity and diversity of the ecosystem may be lower because of excess sediment immediately after dam removal but should increase during recovery above current levels as the river. Monitoring of the recovery of the Elwha River ecosystem can target ecologically significant physical parameters indicating the transition from a sediment transport-limited state to a supply-limited state.     

Effect of benthic boundary layer transport on the productivity of Mono Lake, California

The significance of the transport of nutrient-rich hypolimnetic water via the benthic boundary layer (BBL) to the productivity of Mono Lake was studied using a coupled hydrodynamic and ecological model validated against field data. The coupled model enabled us to differentiate between the role of biotic components and hydrodynamic forcing on the internal recycling of nutrients necessary to sustain primary productivity. A 4-year period (1991–1994) was simulated in which recycled nutrients from zooplankton excretion and bacterially-mediated mineralization exceeded sediment fluxes as the dominant source for primary productivity. Model outputs indicated that BBL transport was responsible for a 53% increase in the flux of hypolimnetic ammonium to the photic zone during stratification with an increase in primary production of 6% and secondary production of 5%. Although the estimated impact of BBL transport on the productivity of Mono Lake was not large, significant nutrient fluxes were simulated during periods when BBL transport was most active.     

Two-zone model for stream and river ecosystems

A mechanistic two-zone model is developed to represent the food web dynamics of stream and river ecosystems by considering the benthic and nonbenthic (or water-column) zones as two separate, but interacting biotopes. Flow processes, solar radiation, and temperature are the dynamic external environmental drivers. State variables are defined to represent the hierarchical levels of detritus, limiting nutrient, vegetation, and invertebrates. The fish trophic level is included as a constant input parameter. Model parameters, constants, and boundary conditions are defined based on watershed as well as channel hydrology, stream geomorphology, and biological activities. Recent advances in ecological science and engineering are used in representing important biogeochemical processes. In particular, the turbulent diffusion, as well as sloughing or detachment, processes are defined based on these recent advancements. The two-zone model was evaluated for a gravel bed prealpine Swiss stream named River Necker with data for the study period of January 1992 through December 1994. The model was able to capture the general trends and magnitudes of the food web state variables. A comprehensive relative sensitivity analysis with five moment-based measures found that approximately 5% of the model parameters were important in predicting benthic vegetation. Results of sensitivity analysis guided the model calibration. Simulated benthic vegetation with the calibrated model, which was obtained by adjusting only four parameters, corresponded with observed data. Hydrology-dependent sloughing and detachment were dominant in determining the response of benthic vegetation and invertebrates. The proposed two-zone food web model is a potentially useful research tool for stream and river ecosystems.     

Short-term responses of macroinvertebrate drift following experimental sediment flushing in a Japanese headwater channel

We examined short-term responses of macroinvertebrate drift associated with experimental sediment flushing in a headwater. Increases in the drifting abundances of Ephemeroptera and Plecoptera coincided with increases in bed load yield rather than peaks in discharge or suspended sediment concentrations. The approach and arrival of a sediment wave may provide a physical cue that initiates the escape of benthic macroinvertebrates. Because fine bed load sediments, with diameters <4 mm, tended to accumulate on and in the substrate matrix, such sedimentation affected the benthic macroinvertebrates residing on and in the substrate, increasing the number of macroinvertebrates in the drift. Therefore, the decreases observed in the densities of most macroinvertebrate taxa following sediment flushing were probably associated with sediment deposition and the resulting escape of macroinvertebrates from benthic habitats. The magnitudes of the decreases in macroinvertebrate density were lower at sites located 200 m downstream from the sediment sources than at sites located 20 m downstream. The results from this experimental flushing study suggest that bed load movement and resulting sediment accumulation alter macroinvertebrate drift patterns and cause decreases in the abundances of benthic macroinvertebrates in headwater streams.