Rivers are important ecosystems under continuous anthropogenic stresses. The hyporheic zone is a ubiquitous, reactive interface between the main channel and its surrounding sediments along the river network. We elaborate on the main physical, biological, and biogeochemical drivers and processes within the hyporheic zone that have been studied by multiple scientific disciplines for almost half a century. These previous efforts have shown that the hyporheic zone is a modulator for most metabolic stream processes and serves as a refuge and habitat for a diverse range of aquatic organisms. It also exerts a major control on river water quality by increasing the contact time with reactive environments, which in turn results in retention and transformation of nutrients, trace organic compounds, fine suspended particles, and microplastics, among others. The paper showcases the critical importance of hyporheic zones, both from a scientific and an applied perspective, and their role in ecosystem services to answer the question of the manuscript title. It identifies major research gaps in our understanding of hyporheic processes. In conclusion, we highlight the potential of hyporheic restoration to efficiently manage and reactivate ecosystem functions and services in river corridors.

Coupled groundwater flow and heat transport within hyporheic zones extensively affect water, energy, and solute exchange with surrounding sediments. The local and cumulative implications of this tightly coupled process strongly depend on characteristics of drivers (i.e., discharge and temperature of the water column) and modulators (i.e., hydraulic and thermal properties of the sediment). With this in mind, we perform a systematic numerical analysis of hyporheic responses to understand how the temporal variability of river discharge and temperature affect flow and heat transport within hyporheic zones. We identify typical time series of river discharge and temperature from gauging stations along the headwater region of Mississippi River Basin, which are characterized by different degrees of flow alteration, to drive a physics‐based model of the hyporheic exchange process. Our modeling results indicate that coupled groundwater flow and heat transport significantly affects the dynamic response of hyporheic zones, resulting in substantial differences in exchange rates and characteristic time scales of hyporheic exchange processes. We also find that the hyporheic zone dampens river temperature fluctuations increasingly with higher frequency of temperature fluctuations. This dampening effect depends on the system transport time scale and characteristics of river discharge and temperature variability. Furthermore, our results reveal that the flow alteration reduces the potential of hyporheic zones to act as a temperature buffer and hinders denitrification within hyporheic zones. These results have significant implications for understanding the drivers of local variability in hyporheic exchange and the implications for the development of thermal refugia and ecosystem functioning in hyporheic zones.

Channel discharge, geomorphological setting, and regional groundwater flow determine the spatiotemporal variability of bedform‐induced hyporheic exchange and the emergence of biogeochemical hot spots and hot moments that it drives. Of particular interest, and significantly understudied, is the role that dynamically changing discharge has on the hyporheic exchange process and how regional groundwater flow modulates the effects of transience. In this study, we use a reduced‐complexity model to systematically explore the bedform‐induced hyporheic responses to dynamically changing discharge events in systems with different bedform geometries exposed to varying degrees of groundwater flow (under both upwelling and downwelling conditions). With this in mind, we define metrics to quantify the effects of transience: spatial extent of the hyporheic zone, net hyporheic flux, mean residence time, and denitrification efficiency. We find that regional groundwater flow and geomorphological settings greatly modulate the temporal evolution of bedform‐induced hyporheic responses driven by a single‐peak discharge event. Effects of transience diminish with increasing groundwater upwelling or downwelling fluxes, decreasing bedform aspect ratios, and decreasing channel slopes. Additionally, we notice that increasing discharge intensities can reduce the modulating impacts of regional groundwater flow on the effects of transience but hardly overcomes the geomorphological controls. These findings highlight the necessities of evaluating hyporheic exchange processes in a more comprehensive framework.

A flume experimental design to test effects of hyporheic exchange and bacterial diversity on the fate of micropollutants in rivers.

Hyporheic exchange is a crucial control of the type and rates of streambed biogeochemical processes, including metabolism, respiration, nutrient turnover, and the transformation of pollutants. Previous work has shown that increasing discharge during an individual peak flow event strengthens biogeochemical turnover by enhancing the exchange of water and dissolved solutes. However, due to the nonsteady nature of the exchange process, successive peak flow events do not exhibit proportional variations in residence time and turnover, and in some cases, can reduce the hyporheic zones' biogeochemical potential. Here, we used a process‐based model to explore the role of successive peak flow events on the flow and transport characteristics of bedform‐induced hyporheic exchange. We conducted a systematic analysis of the impacts of the events' magnitude, duration, and time between peaks in the hyporheic zone's fluxes, penetration, and residence times. The relative contribution of each event to the transport of solutes across the sediment‐water interface was inferred from transport simulations of a conservative solute. In addition to temporal variations in the hyporheic flow field, our results demonstrate that the separation between two events determines the temporal evolution of residence time and that event time lags longer than the memory of the system result in successive events that can be treated independently. This study highlights the importance of discharge variability in the dynamics of hyporheic exchange and its potential implications for biogeochemical transformations and fate of contaminants along river corridors.