Scour holes and ripples occur below the hydraulic smooth to rough transition of movable beds

© 2017 The Authors. Scour holes often form in shallow flows over sand on the beach and in morphodynamic scale experiments of river reaches, deltas and estuarine landscapes. The scour holes are on average 2cm deep and 5cm long, regardless of the flow depth and appear to occur under similar conditions as current ripples: at low boundary Reynolds numbers, in fine sand and under relatively low sediment mobility. In landscape experiments, where the flow is only about 1cm deep, such scours may be unrealistically large and have unnatural effects on channel formation, bar pattern and stratigraphy. This study tests the hypotheses that both scours and ripples occur in the same conditions and that the roughness added by sediment saltation explains the difference between the ripple–dune transition and the clear-water hydraulic smooth to rough transition. About 500 experiments are presented with a range of sediment types, sediment mobility and obstructions to provoke scour holes, or removal thereof to assess scour hole persistence. Most experiments confirm that ripples and scour holes both form in the ripple stability field in two different bedform stability diagrams. The experiments also show that scours can be provoked by perturbations even below generalized sediment motion. Moreover, the hydraulic smooth to rough transition modified with saltation roughness depending on sediment mobility was similar in magnitude and in slope to ripple–dune transitions. Given uncertainties in saltation relations, the smooth to rough transitions modified for movable beds are empirically equivalent to the ripple–dune transitions. These results are in agreement with the hypothesis that scours form by turbulence caused by localized flow separation under low boundary Reynolds numbers, and do not form under generalized flow separation over coarser particles and intense sediment saltation. Furthermore, this suggests that ripples are a superposition of two independent forms: periodic bedforms occurring in smooth and rough conditions plus aperiodic scours occurring only in hydraulic smooth conditions

Morphological effects of vegetation on the tidal-fluvial transition in Holocene estuaries

Vegetation enhances bank stability and sedimentation to such an extent that it can modify river patterns, but how these processes manifest themselves in full-scale estuarine settings is poorly understood. On the one hand, tidal flats accrete faster in the presence of vegetation, reducing the flood storage and ebb dominance over time. On the other hand flow-focusing effects of a tidal floodplain elevated by mud and vegetation could lead to channel concentration and incision. Here we study isolated and combined effects of mud and tidal marsh vegetation on estuary dimensions. A 2-D hydromorphodynamic estuary model was developed, which was coupled to a vegetation model and used to simulate 100 years of morphological development. Vegetation settlement, growth and mortality were determined by the hydromorphodynamics. Eco-engineering effects of vegetation on the physical system are here limited to hydraulic resistance, which affects erosion and sedimentation pattern through the flow field. We investigated how vegetation, combined with mud, affects the average elevation of tidal flats and controls the system-scale planform. Modelling with vegetation only results in a pattern with the largest vegetation extent in the mixed-energy zone of the estuary, which is generally shallower. Here vegetation can cover more than 50 % of the estuary width while it remains below 10 %–20 % in the outer, tide-dominated zone. This modelled distribution of vegetation along the estuary shows general agreement with trends in natural estuaries observed by aerial image analysis. Without mud, the modelled vegetation has a limited effect on morphology, again peaking in the mixed-energy zone. Numerical modelling with mud only shows that the presence of mud leads to stabilisation and accretion of the intertidal area and a slight infill of the mixed-energy zone. Combined modelling of mud and vegetation leads to mutual enhancement with mud causing new colonisation areas and vegetation stabilising the mud. This occurs in particular in a zone previously described as the bedload convergence zone. While vegetation focusses the flow into the channels such that mud sedimentation in intertidal side channels is prevented on a timescale of decades, the filling of intertidal area and the resulting reduction in tidal prism may cause the infilling of estuaries over centuries

The effects of network topology, climate variability and shocks on the evolution and resilience of a food trade network.

Future climate change will impose increased variability on food production and food trading networks. However, the effect of climate variability and sudden shocks on resource availability through trade and its subsequent effect on population growth is largely unknown. Here we study the effect of resource variability and network topology on access to resources and population growth, using a model of population growth limited by resource availability in a trading network. Resources are redistributed in the network based on supply and the distance between nodes (i.e. cities or countries). Resources at nodes vary over time with wave parameters that mimic changes in biomass production arising from known climate variability. Random perturbations to resources are applied to study resilience of individual nodes and the system as a whole. The model demonstrates that redistribution of resources increases the maximum population that can be supported (carrying capacity) by the network. Fluctuations in carrying capacity depend on the amplitude and frequency of resource variability: fluctuations become larger for increasing amplitude and decreasing frequency. Our study shows that topology is the key factor determining the carrying capacity of a node. In larger networks the carrying capacity increases and the distribution of resources in the network becomes more equal. The most central nodes achieve a higher carrying capacity than nodes with a lower centrality. Moreover, central nodes are less susceptible to long-term resource variability and shocks. These insights can be used to understand how worldwide equitable access to resources can be maintained under increasing climate variability

Empirical Assessment Tool for Bathymetry, Flow Velocity and Salinity in Estuaries Based on Tidal Amplitude and Remotely-Sensed Imagery

Hydromorphological data for many estuaries worldwide is scarce and usually limited to offshore tidal amplitude and remotely-sensed imagery. In many projects, information about morphology and intertidal area is needed to assess the effects of human interventions and rising sea-level on the natural depth distribution and on changing habitats. Habitat area depends on the spatial pattern of intertidal area, inundation time, peak flow velocities and salinity. While numerical models can reproduce these spatial patterns fairly well, their data need and computational costs are high and for each case a new model must be developed. Here, we present a Python tool that includes a comprehensive set of relations that predicts the hydrodynamics, bed elevation and the patterns of channels and bars in mere seconds. Predictions are based on a combination of empirical relations derived from natural estuaries, including a novel predictor for cross-sectional depth distributions, which is dependent on the along-channel width profile. Flow velocity, an important habitat characteristic, is calculated with a new correlation between depth below high water level and peak tidal flow velocity, which was based on spatial numerical modelling. Salinity is calculated from estuarine geometry and flow conditions. The tool only requires an along-channel width profile and tidal amplitude, making it useful for quick assessments, for example of potential habitat in ecology, when only remotely-sensed imagery is available

Novel Use of Cavity Ring-down Spectroscopy to Investigate Aquatic Carbon Cycling from Microbial to Ecosystem Scales

Development of cavity ring-down spectroscopy (CRDS) has enabled real-time monitoring of carbon stable isotope ratios of carbon dioxide and methane in air. Here we demonstrate that CRDS can be adapted to assess aquatic carbon cycling processes from microbial to ecosystem scales. We first measured in situ isotopologue concentrations of dissolved CO₂ (¹²CO₂ and ¹³CO₂) and CH₄ (¹²CH₄ and ¹³CH₄) with CRDS via a closed loop gas equilibration device during a survey along an estuary and during a 40 h time series in a mangrove creek (ecosystem scale). A similar system was also connected to an in situ benthic chamber in a seagrass bed (community scale). Finally, a pulse-chase isotope enrichment experiment was conducted by measuring real-time release of ¹³CO₂ after addition of ¹³C enriched phytoplankton to exposed intertidal sediments (microbial scale). Miller-Tans plots revealed complex transformation pathways and distinct isotopic source values of CO₂ and CH₄. Calculations of δ¹³C-DIC based on CRDS measured δ¹³C-CO₂ and published fractionation factors were in excellent agreement with measured δ¹³C-DIC using isotope ratio mass spectroscopy (IRMS). The portable CRDS instrumentation used here can obtain real-time, high precision, continuous greenhouse gas data in lakes, rivers, estuaries and marine waters with less effort than conventional laboratory-based techniques

Novel use of cavity ring-down spectroscopy to investigate aquatic carbon cycling from microbial to ecosystem scales

Development of cavity ring-down spectroscopy (CRDS) has enabled real-time monitoring of carbon stable isotope ratios of carbon dioxide and methane in air. Here we demonstrate that CRDS can be adapted to assess aquatic carbon cycling processes from microbial to ecosystem scales. We first measured in situ isotopologue concentrations of dissolved CO2 (12CO2 and 13CO2) and CH4 (12CH4 and 13CH4) with CRDS via a closed loop gas equilibration device during a survey along an estuary and during a 40 h time series in a mangrove creek (ecosystem scale). A similar system was also connected to an in situ benthic chamber in a seagrass bed (community scale). Finally, a pulse-chase isotope enrichment experiment was conducted by measuring real-time release of 13CO2 after addition of 13C enriched phytoplankton to exposed intertidal sediments (microbial scale). Miller-Tans plots revealed complex transformation pathways and distinct isotopic source values of CO2 and CH4. Calculations of δ13C-DIC based on CRDS measured δ13C-CO2 and published fractionation factors were in excellent agreement with measured δ13C-DIC using isotope ratio mass spectroscopy (IRMS). The portable CRDS instrumentation used here can obtain real-time, high precision, continuous greenhouse gas data in lakes, rivers, estuaries and marine waters with less effort than conventional laboratory-based techniques