Pro+: Automated protrusion and critical shear stress estimates from 3D point clouds of gravel beds

The dimensionless critical shear stress (τ*c) needed for the onset of sediment motion is important for a range of studies from river restoration projects to landscape evolution calculations. Many studies simply assume a τ*c value within the large range of scatter observed in gravel-bedded rivers because direct field estimates are difficult to obtain. Informed choices of reach-scale τ*c values could instead be obtained from force balance calculations that include particle-scale bed structure and flow conditions. Particle-scale bed structure is also difficult to measure, precluding wide adoption of such force-balance τ*c values. Recent studies have demonstrated that bed grain size distributions (GSD) can be determined from detailed point clouds (e.g. using G3Point open-source software). We build on these point cloud methods to introduce Pro+, software that estimates particle-scale protrusion distributions and τ*c for each grain size and for the entire bed using a force-balance model. We validated G3Point and Pro+ using two laboratory flume experiments with different grain size distributions and bed topographies. Commonly used definitions of protrusion may not produce representative τ*c distributions, and Pro+ includes new protrusion definitions to better include flow and bed structure influences on particle mobility. The combined G3Point/Pro+ provided accurate grain size, protrusion and τ*c distributions with simple GSD calibration. The largest source of error in protrusion and τ*c distributions were from incorrect grain boundaries and grain locations in G3Point, and calibration of grain software beyond comparing GSD is likely needed. Pro+ can be coupled with grain identifying software and relatively easily obtainable data to provide informed estimates of τ*c. These could replace arbitrary choices of τ*c and potentially improve channel stability and sediment transport estimates

Spatial and Temporal Dynamics of Dissolved Oxygen Concentrations and Bioactivity in the Hyporheic Zone

Dissolved oxygen (DO) concentrations and consumption rates are primary indicators of heterotrophic respiration and redox conditions in the hyporheic zone (HZ). Due to the complexity of hyporheic flow and interactions between hyporheic hydraulics and the biogeochemical processes, a detailed, mechanistic, and predictive understanding of the biogeochemical activity in the HZ has not yet been developed. Previous studies of microbial activity in the HZ have treated the metabolic DO consumption rate constant (KDO) as a temporally fixed and spatially homogeneous property that is determined primarily by the concentration of bioavailable carbon. These studies have generally treated bioactivity as temporally steady state, failing to capture the temporal dynamics of a changeable system. We demonstrate that hyporheic hydraulics controls rate constants in a hyporheic system that is relatively abundant in bioavailable carbon, such that KDO is a linear function of the local downwelling flux. We further demonstrate that, for triangular dunes, the downwelling velocities are lognormally distributed, as are the KDO values. By comparing measured and modeled DO profiles, we demonstrate that treating KDO as a function of the downwelling flux yields a significant improvement in the accuracy of predicted DO profiles. Additionally, our results demonstrate the temporal effect of carbon consumption on microbial respiration rates

Hydropower reservoirs on the upper Mekong river modify nutrient bioavailability downstream

Hydropower development is the key strategy in many developing countries for energy supply, climate-change mitigation and economic development. However, it is commonly assumed that river dams retain nutrients and therefore reduce downstream primary productivity and fishery catches, compromising food security and causing trans-boundary disputes. Contrary to expectation, here we found that a cascade of reservoirs along the upper Mekong River increased downstream bioavailability of nitrogen and phosphorus. The dams caused phytoplankton density to increase with hydraulic residence time and stratification of the stagnant reservoirs caused hypoxia at depth. This allowed the release of bioavailable phosphorus from the sediment and an increase in dissolved inorganic nitrogen as well as a shift in nitrogen species from nitrate to ammonium, which were transported downstream by the discharge of water from the base of the dam. Our findings provide a new perspective on the environmental impacts of river dams on nutrient cycling and ecosystem functioning, with potential implications for sustainable development of hydropower worldwide

Interaction between river morphology and intra-gravel flow paths within the hyporheic zone /by Daniele Tonina.

Thesis (Ph. D.)--University of Idaho, 2005

Temperature and flow data from a sediment tank experiment and numerical Advection-Dispersion Model code

To test revised theory for estimating fluid fluxes from temperature time series, we employed laboratory measurements and numerical modeling. Temperature and flow measurements were taken from a 40 cm X 40 cm Plexiglas tank filled with water and send. Full details of the experiment apparatus and procedure are provided in the associated text. Here we provide the flow rate data from a tipping bucket record and temperature time series from the water above the sand, and 2.97 cm into the sand. In addition we provide the code for a numerical (forward-time central-space) advection-dispersion model using a simple sinusoidal upper boundary condition along with code using a fast Fourier Transform to extract system parameters