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Hydrology and Earth System Sciences An interactive open-access journal of the European Geosciences Union
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HESS | Articles | Volume 22, issue 12
Hydrol. Earth Syst. Sci., 22, 6163-6185, 2018
© Author(s) 2018. This work is distributed under
the Creative Commons Attribution 4.0 License.
Hydrol. Earth Syst. Sci., 22, 6163-6185, 2018
© Author(s) 2018. This work is distributed under
the Creative Commons Attribution 4.0 License.

Review article 30 Nov 2018

Review article | 30 Nov 2018

Toward a conceptual framework of hyporheic exchange across spatial scales

Toward a conceptual framework
Chiara Magliozzi1, Robert C. Grabowski1, Aaron I. Packman2, and Stefan Krause3 Chiara Magliozzi et al.
  • 1School of Water, Energy and Environment, Cranfield University, Cranfield, Bedfordshire, MK43 0AL, UK
  • 2Department of Civil and Environmental Engineering, Northwestern University, Evanston, Illinois, USA
  • 3School of Geography, Earth and Environmental Sciences, University of Birmingham, Birmingham, Edgbaston, B15 2TT, UK
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Rivers are not isolated systems but interact continuously with groundwater from their confined headwaters to their wide lowland floodplains. In the last few decades, research on the hyporheic zone (HZ) has increased appreciation of the hydrological importance and ecological significance of connected river and groundwater systems. While recent studies have investigated hydrological, biogeochemical and ecohydrological processes in the HZ at bedform and reach scales, a comprehensive understanding of process-based interactions between factors operating at different spatial and temporal scales driving hyporheic exchange flows (HEFs) at reach scale and larger is still missing. Therefore, this review summarizes the factors and processes at catchment, valley, and reach scales that interact to control spatial and temporal variations in hyporheic exchange flows. By using a multi-scale perspective, this review connects field observations and modelling studies to identify the process driving patterns and dynamics of HEF. Finally, the influence of process interactions over multiple spatial scales is illustrated in a case study, supported by new GIS analyses, which highlights the importance of valley-scale factors to the expression of HEF at the reach scale. This conceptual framework will aid the development of approaches to interpret hyporheic exchange across scales, infer scaling relationships, and inform catchment management decisions.

1 Introduction
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Hyporheic zones (HZs) are unique components of river systems that underpin fundamental stream ecosystem functions (Boulton et al.1998; Brunke and Gonser1997; Harvey and Gooseff2015; Krause et al.2011a; Merill and Tonjes2014; Orghidan1959; Ward2016). At the interface between rivers and aquifers, hyporheic zones are the expression of vertical and lateral connection of rivers with floodplains and the underlying aquifers and are defined by the interchange of surface and ground waters through hyporheic exchange flows (HEFs) (Elliott and Brooks1997; Malard et al.2002).

HEF plays a significant role in biogeochemical cycling (e.g. carbon and nutrient availability and transformation), ecological food webs, and habitat for diverse organisms (Boulton et al.1998; Brunke and Gonser1997; Krause et al.2011a). HEF is driven by potential and kinetic energy gradients near the streambed that change hydraulic head and force surface water to flow into, through, and out of the bed (Boano et al.2014; Cardenas et al.2004; Elliott and Brooks1997). Both hydrostatic (i.e. elevation head) and hydrodynamic (i.e. velocity head) forces of the hydraulic head contribute to HEF variations within rivers and floodplains (Boano et al.2014; Harvey and Gooseff2015). Turbulence (i.e. gravel bed substrate) and biological processes (i.e. bioturbation) also can drive HEFs, but are less studied in steams and rivers (Boano et al.2014). The hierarchical and heterogeneous nature of river and floodplain systems creates complex spatial and temporal patterns of exchange flows (Cardenas2008; Wörman et al.2007).

Catchment and river characteristics vary markedly along river networks affecting the groundwater and surface water flows that drive HEF. These variations include (i) the differences in hydraulic potential created by topography-driven groundwater flows (i.e. discharge patterns follow topographic lows) and the temporal and spatial scales of the stream system from upstream to downstream, vertically and laterally, i.e. flood spates, overbank flows, etc. (Minshall et al.1985; Newbold et al.1981, 1982); (ii) continental groundwater flows and local discharge areas on rivers depend on both large- and small-scale topography as demonstrated by spectral analysis (Marklund et al.2008; Wörman et al.2006, 2007); and (iii) complex geomorphological structures (armouring, bedforms, bars and other lateral variability within channels, braiding, meanders, floodplain deposits etc.). Therefore, understanding and predicting HEF dynamics requires consideration of the hydrological, topographical, hydrogeological, anthropogenic, and ecological processes operating across a spectrum of spatial and temporal scales (Ward2016).

Previous work has identified multi-scale processes affecting HEF, but has focused primarily on individual processes and controls within river corridors (Boano et al.2014; Harvey and Gooseff2015; Ward2016). Existing information has not been sufficiently synthesized to assess the multiple factors and characteristics that control HEF at catchment scales across geographic regions (Table S1, S2, S3 in the Supplement). Similarly, earlier reviews have furthered our understanding of the ecological and functional significance of HZs (Boulton et al.1998; Brunke and Gonser1997; Krause et al.2011a), the range of mechanisms and biogeochemical implications that influence HEF (Boano et al.2014; Dent et al.2001; Merill and Tonjes2014), and the perspectives on and challenges to interdisciplinary river research (Datry et al.2017; Harvey and Gooseff2015; Ward2016). Despite this intensive investigation of HEF processes, there has been little investigation of hyporheic processes at the catchment scale rather than at individual geomorphic units (Harvey and Gooseff2015; Krause et al.2011a; Ward2016). Recently, Ward (2016) recognized that hyporheic science is still facing the challenge of enabling cross-site comparisons of findings. One of the reasons is the absence of conceptual frameworks to translate patterns of hyporheic flows across scales, enable multi-scale assessment of process controls, and enable identification of common variables.

Therefore, this paper reviews the state of knowledge of HEF: drivers of HEF and process interactions. For the drivers of HEF, Sects. 37 discuss five main drivers, hydrological, topographical, hydrogeological, ecological, and anthropogenic, and how spatial and temporal variability in these drivers controls HEF. In the context of multi-scale interactions, Sect. 8 discusses how these drivers interact to create spatial and temporal heterogeneity in HEF direction and magnitude. Both sections highlight knowledge gaps that are important in terms of fundamental understanding and management of hyporheic zones. The review follows a hierarchical spatial approach, from reaches to catchment, and provides a structure upon which to explore the individual and interaction effects of factors on HEF and to upscale and downscale across spatially and temporally variable hyporheic processes (Figs. 1, 2).

Figure 1Illustration of catchment complexity: scales and features that influence hyporheic exchange flows. Spatial changes in surface topography, land use and vegetation drive geomorphological and hydrological changes at valley and reach scale. At catchment scale, variations in surface topography shape valleys and channel types. Feature 1 refers to confined valleys characterized by straight channels, meandered and braided, and the following floodplain features: scour holes and gravel splays (a). The straight channel presents in-channel cascades (b) and geomorphic features. Feature 2 refers to braided channel morphology with multi-thread channels, an undulating floodplain of bars and islands. In-channel geomorphic units are several types of bars (e), such as mid and lateral bars, and vegetated islands (f). Feature 3 represents a sinuous–meandering floodplain with occasional oxbow lakes and backwater swamps (m, n, k) and in the channel: longitudinal bar (c), transverse bar (d), counterpoint bar  (h), pond-riffle (i), point bar (l), chute channel (j). Feature 4 indicates an anabranching valley with multi-thread channels including abandoned channels (o) and backwater swamps (p). The channel can be quite deep and includes islands covered with vegetation.


Figure 2Conceptual diagram of the key drivers of the hyporheic exchange across scales. This diagram can be read from the centre to the outer part and vice versa, as indicated by the black arrows. Dashed lines represent hidden boundaries between scales. Colour gradient, from light to dark, follows the hierarchical approach of this review from the channel scale to the reach scale to the catchment scale.


2 Concepts and terminology
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The term “hyporheic zone” has been defined variously in the literature, and some confusion still exists within the wider research community about the extent and nature of the HZ. To help facilitate the integration and presentation of results from a large number of studies spanning a range of disciplines in this review, we use a simplified and standardized terminology for the HZ and HEFs.

Herein, we follow the “flexible” definition of HZ, as reported by Ward (2016): “…saturated subsurface including flow paths that originate from and return to surface water where interactions occur within a temporal scale relevant to the process of interest, and processes of interest occur continuously from the stream-subsurface interface to the hyporheic-groundwater continuum.” In terms of hyporheic exchange, we recognize that a continuum of hyporheic flow paths is associated with different hydrologic residence times (Boano et al.2014; Cardenas2008; Wörman et al.2007).

In the context of multi-scale exchange, HEF is related to large-scale groundwater–surface-water exchange (GSE), but the terms are not synonymous (Ward2016). HEF is an interchange between surface and subsurface waters occurring over short timescales (i.e. minutes to weeks), whereas GSE flows occur at much larger spatial scales and with considerably longer timescales for flows to return to the stream (i.e. months to millennia) (Toth1980). Consequently, this review considers large-scale GSE in addition to HEF. At the scale of HEF, GSE can be considered as a unidirectional exchange (i.e. losing causes the river to recharge the aquifer, and gaining causes the aquifer to discharge into the river). HEF and GSE can act in opposite directions (Cardenas and Wilson2006; Stonedahl et al.2012). For example, a reach under losing conditions due to groundwater recharge can have superimposed HEFs occurring simultaneously (Fox et al.2014; Stonedahl et al.2012).

Additionally, we refer to hyporheic “extent” when the HZ expands or contracts in the horizontal (“lateral extent”) or vertical (“vertical extent”) directions, respectively, and use the term “bank storage exchange” for the case where lateral HEF between the river and floodplain is induced by the rise and fall of river water levels (Cranswick and Cook2015; Pinder and Sauer1971). Finally, vegetation (i.e. vegetation density, riparian, and in-channel vegetation) is considered in this review as the main ecological factor that influences HEF (Corenblit et al.2007; Heppell et al.2009). Although not reported in this paper, we acknowledge that other ecological factors such as hyporheic freshwater invertebrates and biofilm have a major role in interacting with HEF (Peralta-Maraver et al.2018).

3 Hydrological drivers
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Hydrological drivers influence HEF by changing surface water and groundwater flow regimes and the distributions of hydraulic head. In this section, we provide a summary of how groundwater and river-level fluctuations control the spatial and temporal distribution of hydraulic heads to affect HZ and HEF paths at reach (Sect. 3.1), valley, and catchment scales (Sect. 3.2).

3.1 Groundwater and stream discharge at reach scale

HEF responds systematically to changes in hydrological conditions at the reach scale. Together, river flow regime and event-based fluctuations of groundwater levels control reach-scale hyporheic exchange by changing the distributions of hydraulic head (Boano et al.2014).

Several studies report that seasonal (i.e. spring–summer and summer–fall transition) and event-based changes in the gradient between river water and groundwater levels cause the HZ to expand or contract (Malzone et al.2015, 2016). In both losing and gaining flow conditions, the volume of the hyporheic zone contracts under a relatively small flux, while hyporheic residence times decrease moderately (Fox et al.2016). In particular, during gaining conditions, steep stream-ward hydrologic gradients limit the extent of the HZ (Cardenas2009; Fox et al.2014; Malcolm et al.2005; Storey et al.2003; Wondzell and Gooseff2013). Conversely, the extent of the HZ and the hyporheic residence time increase during floods (Drummond et al.2017; Swanson and Cardenas2010; Wondzell et al.2010; Zimmer and Lautz2014). This enlargement is caused by the increases in stream stage and velocity, which in turn increase the exchange rate during the flood and drive water farther from the channel (Bhaskar et al.2012; Malcolm et al.2004). Conversely, inconsistent patterns of HZ have been observed in response to changes to stream discharge (Ward et al.2013; Wondzell2006). In mountainous streams, the HZ has been found to expand in small streams at lower base flow discharge (Q<0.01 m3 s−1) compared to higher-discharge streams (Wondzell2011). This behaviour has been interpreted to result from increasing hydrostatic head gradients associated with flow around channel morphological elements at low flow, such as development of lateral channels and flow around bars (Wondzell2006).

Consistently with the above findings, HEF paths do not respond uniformly to stream discharge and groundwater flow at reach scale. Groundwater discharge reduces HEF flux and flow path residence time and length, while stream discharge alone does not significantly affect HEF length and residence time (Boano et al.2008; Cardenas and Wilson2007; Gomez-Velez et al.2015; Schmadel et al.2017). In spatially heterogeneous reach morphology, these responses are exacerbated by the presence of reach morphological features (Dudley-Southern and Binley2015; Zimmer and Lautz2014) (Fig. 4 in Schmadel et al.2017). Schmadel et al. (2017) observed that flow paths generated by large hydraulic gradients (i.e. bedforms) are less sensitive to changes in hydrological conditions than those generated by the larger context of the valley gradient (Schmadel et al.2017).

Such complex interactions between groundwater and river regimes generally makes it difficult to identify the dominant drivers of HEF without considering multiple spatial scales. To develop frameworks with improved spatio-temporal resolution of HEF, comprehensive understanding of the valley hydrological condition is required.

3.2 Reach-scale HEF in the context of the larger landscape

Interactions at the reach scale between the factors described in Sect. 3.1 often results in heterogeneous responses of HEF that require the consideration of processes at a larger scale (i.e. catchment).

HEF and residence time in river reaches are affected by the relationship between hillslope structure and hillslope water table (Godsey2014; Hoagland et al.2017; Jencso et al.2010; Torres et al.2015). To date, model simulations have shown that diel fluctuations of hillslope water tables affect both the length and the residence time of HEF. These fluctuations, which occur due to the temporal lag between stream and aquifer responses, produce a wide range of hydraulic gradients (Wondzell et al.2007, 2010) and affect HEF by several orders of magnitude. Longer hyporheic flow paths result in locations with larger hydraulic conductivity, large stream amplitude, and large hillslope amplitude with respect to the stream (Schmadel et al.2016, 2017).

Given the diverse geomorphology of river valleys and the seasonal responses of hillslope water table fluctuations to large-scale controls (e.g. precipitation), the relationship between dynamic hydrological valley conditions and HEF remains an area of active research (Bergstrom et al.2016; Jencso et al.2009; Nippgen et al.2015; Schmadel et al.2016, 2017; Wondzell and Gooseff2013). Recent studies have started to consider precipitation inputs to the catchment to enable cross-catchment comparisons of HEFs (Hoagland et al.2017; Jasechko et al.2016). The drivers discussed in Sect. 3.1 and 3.2 vary within and among catchments depending on catchment topography, geology, and finally geography (Hoagland et al.2017; Jasechko et al.2016). For example, steep headwater catchments respond rapidly to rainfall because of their small storage capacity (Gomi et al.2002; Penna et al.2016; Woods et al.1995). Rainfall is strongly correlated with seasonal groundwater fluctuations in catchments dominated by transmissive soils (Bachmair and Weiler2012). Conversely, in headwater catchment with low-permeability soils, rainfall is only a secondary control, after topography, on the response time of groundwater levels (Rinderer et al.2016). On the other hand, lowland catchments usually have a slower response to rainfall (days to weeks), although heavy precipitation events can cause local flooding (Monincx2006).

Finally, the relationship between groundwater, stream discharge and HEF is dynamic in nature, depending on the cross-scale interaction of hydrological gradients. Thus, HEF findings at the reach scale may not be representative when major changes, e.g. seasonal variations, occur in valley- or catchment-scale characteristics.

4 Topographical drivers
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Topography is one of the primary drivers of spatial HEF variability. From bedforms to catchments, topographic gradients cause nested hyporheic flow paths (Wörman et al.2007). In order to understand how HEF varies spatially within the catchment and how these variations in turn affect temporal variations, we discuss HEF at scales within the channel topography (individual bedforms and bedform sequences: Sect. 4.1), within a valley hydrological and geomorphological context (bedforms in valley context: Sect. 4.2), and then within the catchment (Sect. 4.3).

4.1 In-channel bedforms

Over recent decades, a range of studies have demonstrated that HEF is proportional to the hydraulic head gradients in the streambed. Both hydrodynamic and hydrostatic forces generated by in-channel bedforms have large effects on the variability of HEF from centimetre to metre scale. However, in reaches where stream velocities are low relative to topographic variability, HEF will be mostly driven by hydrostatic head gradients defined by the water surface topography. In this section, we provide a concise summary of the main effects on HEF by single bedforms (i.e. steps, riffles, and bars) and bedform sequences (i.e. step-pool, pool-riffle). We considered bedforms that induce hydrodynamically driven HEFs, i.e. ripples and dunes (Sect. 4.1.1), and larger topographic features, i.e. steps, riffles, and bars, that contribute to hydrostatically driven HEF (Sect. 4.1.2) (Boano et al.2014).

4.1.1 HEF generation by in-channel bedforms

Head pressure gradients created by the channel bedforms drive advective pore water flow into, through, and out of the bed (Elliott and Brooks1997). Current knowledge of hyporheic fluxes and their spatio-temporal variability in submerged bedforms has been obtained from simulations (Boano et al.2014; Cardenas and Wilson2007; Elliott and Brooks1997; Irvine et al.2014; Janssen et al.2012; Stonedahl et al.2013; Trauth et al.2014), laboratory experiments (Fox et al.2014; Tonina and Buffington2007), and field experiments (Gordon et al.2013; Lautz and Fanelli2008; Zimmer and Lautz2014). Bedforms develop characteristic shapes due to the interplay of streamflow and bed sediment transport. Dunes and ripples are characterized by a smooth water surface profile (Packman et al.2004) implying that the spatial variation of water surface topography is minimized and the pressure profile strongly depends on dynamic pressures (Elliott and Brooks1997; Marion et al.2002).

In the case of hydrostatically driven HEF, the flow is a function of the head gradient, the size, and the hydraulic conductivity around the bedform (Gooseff et al.2006; Hester et al.2008). High channel slope will normally result in deeper HEF and higher HZ depth (Gooseff et al.2006; Hester et al.2008). Hyporheic flow structure is controlled by spatial relationship of bedforms to high- and low-permeability regions of the streambed (Packman et al.2004; Pryshlak et al.2015; Salehin et al.2004; Sawyer and Cardenas2009; Stonedahl et al.2018). Riffle-scale exchange, for example, is possible only when high permeability materials surround the stream channel. Water upwells where permeability or depth of gravel decreases in the direction of streamflow and where the longitudinal bed profile is concave (Buffington and Tonina2009; Elliott and Brooks1997; Harvey and Bencala1993a). Water downwelling occurs where permeability or depth of gravel increases, in the direction of streamflow, or where the longitudinal bed profile is convex (Buffington and Tonina2009; Elliott and Brooks1997; Harvey and Bencala1993a). Modelling studies have shown that flow paths and exchange rate vary in the alluvium around riffles across seasons and with the extent of groundwater discharge (Stonedahl et al.2012, 2018; Storey et al.2003).

Gravel bars are also functionally equivalent to riffle bedforms for HEF; the hydrologic retention in gravel bars is strongly influenced by bar structure and stream water levels (Boulton et al.1998; Marzadri et al.2010; Tonina and Buffington2007; Trauth et al.2015). Unlike fully submerged features, recent findings by Trauth et al. (2015) suggest that HEF in partially submerged gravel bars decreases with increasing stream discharge as the hydraulic head gradients across the bedform decrease, leading to long residence times under low-flow conditions.

In conclusion, an individual in-channel bedform can have significant effects on HEF and on its residence time distributions. More complex interactions occur across the spectrum of topographic features (Stonedahl et al.2010).

4.1.2 In-channel bedform sequences

The complexity of nested hyporheic flows will increase with the number and diversity of bedforms in the channel. Local-scale variation in bedform size will drive the longitudinal patterns of upwelling and downwelling, along with multi-scale distributions of HEF at reach scale (Gooseff et al.2006; Stonedahl et al.2010, 2013, 2015).

Step-pool morphology behaves differently than pool-riffle and dune-like bedforms (Hassan et al.2015; Marzadri et al.2010; Tonina and Buffington2007). HEF will develop around a pool-riffle sequence only where the lateral hydraulic gradients (i.e. from the banks to the channel center) are less than the longitudinal hydraulic gradient between the upstream and downstream ends of the riffle (Storey et al.2003). In gravel bed pool-riffle sequences, significant hydrostatic forces across the channel, high permeability of sediment, and low submergence time generate substantial large-scale hyporheic flow (Buffington and Tonina2009; Tonina and Buffington2007, 2011; Wondzell and Swanson1996). A detailed case study on an upland, gravel-bed river with a riffle–pool bedform sequence showed that, although the expected pattern of downwelling and upwelling conditions were generally observed along the bedform sequence, seasonal variations in hyporheic fluxes occurred because of asynchronous local ground water recharge relative to flow regime (Gariglio et al.2013). At the riffle–pool scale, this is consistent with previous studies reporting seasonal variations in hyporheic temperature dynamics, with stream topography, sediment stratification, and groundwater interaction all affecting local upwelling and downwelling in riffle–pool systems (Hannah et al.2009; Krause et al.2013).

Dune–ripple complexes are less influenced by hydrostatic forces than riffle–pool sequences (Tonina and Buffington2011); gradients are much lower than for riffle–pool and step–pool sequences and little affected by spatial and temporal changes in water surface elevation. Simulations have also shown that dunes contribute more than meanders and bars to reach-scale HEF (Stonedahl et al.2013). Further, the volume of water exchanged and the hyporheic residence time across bedforms is not linearly additive (Stonedahl et al.2013). Instead, hyporheic exchange is maximized when one topographic feature dominates (Stonedahl et al.2013). In lowland rivers, the lower slope, finer sediments, and more constant flows favour the development of dune–ripple sequences (Elliott and Brooks1997; Marion et al.2002) characterized by high relative submergence and smooth water surface profiles (Packman et al.2004). Under these conditions, the spatial variation of water surface topography is minimized and HEF is induced primarily by dynamic pressure variations.

These findings suggest that in-channel bedforms often control HEF, although these local exchange flows are still strongly modulated by stream and groundwater dynamics at reach and valley scale.

4.2 Alteration of in-channel bedform-induced HEF by valley hydrology

The patterns of HEF generated by individual bedforms and bedform sequences are altered by the hydrodynamic conditions of the valley. Longitudinal valley gradients create hydrostatic head gradients that influence water moving across and down valleys and thus HEF (Harvey and Bencala1993a).

Schmadel et al. (2016) suggested that valley slope primarily controls the timing of HEF while cross-valley slope and down-valley slope determine net gaining or losing conditions. When bedforms are analysed with respect to channel gradient, it can be seen that gentle slopes of lowland rivers generate slower currents with deeper flows, lower relative roughness, and less valley confinement, resulting in less bedform-induced exchange (Tonina and Buffington2007) (Fig. 3). For example, dune–ripple streams that occur in lowland rivers typically exhibit less spatial and temporal variability in water surface elevation than riffle–pool streams (Tonina and Buffington2011). In higher-gradient valleys, the flow is predominantly down-valley and spatial variations of hydraulic gradients are paired with changes in cross-sectional areas of the valley and with the hydrodynamic head gradients generated by in-channel bedforms to induce water downwelling into the HZ (Cardenas et al.2004; Wondzell2012). In this setting, hydrogeological properties can have a major role in controlling valley hydrologic exchange: Ward et al. (2012) and Anderson et al. (2005) observed that in steep and constrained sections of their study area, the HEF in step-pool sequences is limited by the underlying bedrock rather than by hydraulic gradients.

Figure 3Representation of channel planforms. Sinuosity influences water exchange within a river segment. Hyporheic exchange increases with sinuosity due to hydraulic gradients in the meander neck (Sect. 4.2.2).


In conclusion, both positive and negative relationships between hyporheic zone extent and down- and cross-valley gradients have been reported in the literature, suggesting that detailed resolution of hydraulic gradients and knowledge about the valley setting are necessary to understand controls on HEF (Ward et al.2012).

Table 1Expected hyporheic exchange flows in different channel types. Geomorphic unit refers exclusively to in-channel features. Sources: Buffington and Tonina (2009); Gurnell et al. (2016); Nanson and Croke (1992); Wondzell and Gooseff (2013).

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4.2.1 Valley confinement

The extent of valley confinement indicates different process domains and determines the capacity of the river to adjust in planform (Table 1). Several studies have linked HEF to valley confinement and shown that HZ depth is restricted, HEF is reduced, and hyporheic residence time is decreased in highly confined valleys (Buffington and Tonina2009; D'angelo et al.1993; Stanford and Ward1993; Wright et al.2005) (Table 1). While GSE and HEF are both limited in confined valleys, bedrock fractures and fissures may allow some hyporheic exchange, depending on their degree of connectivity with the aquifer (i.e. bedrock and colluvial channels in straight and sinuous planforms) (Freer et al.2002; Graham et al.2010; Gurnell et al.2016; McDonnell et al.1996, 1997). Certainly, the coupling of small changes in water table elevation and bedrock topography can have a large impact on the hyporheic flows (Oxtobee and Novakowski2002). For example, HEF transport is expected to be more uniform in lowland rivers, where the flat land surface and shallow aquifers with low transmissivity favour a topographically controlled water table, than in upland environments where bedrock outcrops may confine HEF and influence cross-valley hydraulic gradients (Ward et al.2012).

Bedrock outcrops at valley margins can have opposing impacts on HEF. On the one hand, they can limit the infiltration of the stream water into the subsurface and restrict the hyporheic zone (Kasahara and Wondzell2003). Indeed, bedrock outcrops can constrain valleys where steep positive vertical hydraulic gradients result from discontinuities of superficial deposits permeability and shallow bedrock (Ibrahim et al.2010). In this case, the HEF can be limited to superficial layers of the riverbed. On the other hand, the irregularities of bedrock projections favour changes in the alluvium volume (Buffington and Tonina2009), thus driving stronger hyporheic exchange from the subsurface to the stream and preventing deeper GSE. In fact, the interchange between bedrock and alluvial valleys favours HEF, because of increased downwelling and upwelling where a thin layer of alluvial deposits overlies shallow bedrock (Ward et al.2012; Wondzell2012).

Conversely, in unconfined valleys, floodplain sediments typically represent a mosaic of coarse and fine sediments that originate from hillslopes, bed material (i.e. bedload), and suspended sediment deposited during overbank flooding, within the context of channel adjustment over time (e.g. migration and avulsion) (Nanson and Croke1992) (Table 1). Tonina and Buffington (2009) classified channel types by examining how bedforms generate hydrodynamic pressure variations and drive hyporheic exchange (Fig. 3). Generally, unconfined channels have smaller vertical hydraulic gradients and discharges than confined channels, caused by the lower channel gradients and by the heterogeneity of sedimentary deposits (Ibrahim et al.2010). We synthesize available information on underlying geology, in-channel sediment, and valley confinement at valley and reach scales in Table 2, where potential HEF response is indicated for different channel planforms, geomorphic units, and floodplain characteristics.

Table 2Case study about the River Tern, UK (Sect. 8). The table describes the 10 reach sections obtained by dividing the river channel into sinuosity units based on changes in the axis of the overall planimetric course. The units that differed in sinuosity by more than 10 % were considered separate reaches. Surface geology and valley type are evaluated with respect to the extent of lateral hyporheic exchange. The sections are enumerated and described from upstream to downstream. Geology information was extracted from the British Geological Survey website.

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In conclusion, empirical and modelling studies not only suggest the dominance of hydrologic exchange flows by small geomorphic features but also that lateral exchanges of water affect movement of material and energy between rivers and floodplains.

4.2.2 Channel planform

As with valley confinement (Sect. 4.1.2), channel planform is an indicator of lateral HEF interactions with floodplains. Sinuosity is often used as a measure of channel complexity and has been found to be directly correlated with lateral hyporheic exchange in meander bends, and in the parafluvial zone beneath the streambanks (Boano et al.2006; Cardenas2008; Holmes et al.1996; Kiel and Bayani Cardenas2014; Wroblicky et al.1998). Sinuosity establishes head gradients across meanders that induce HEF (Boano et al.2006, 2008) and influences the amount of water exchanged within a river segment (Brunke and Gonser1997; Cardenas2009; Gomez et al.2012; Han and Endreny2013).

High-sinuosity rivers (e.g. multi-thread or single/sinuous meandering) are less prone to a reduction of the hyporheic area with depth, and maintain the HZ under both losing and gaining conditions (Cardenas2009) (Table 1). Meander planimetry drives hyporheic flows and influences hyporheic residence times by creating differences in the elevation head of surface water around a meander bend, with spatial and temporal variations as meanders evolve (Boano et al.2006, 2008; Revelli et al.2008; Stonedahl et al.2013). Naturally forced by the longitudinal head gradient, the hyporheic exchange flows through the meander neck as river water infiltrates into the hyporheic zone at the upstream half of the meander and returns to the river along its downstream half (Boano et al.2006; Cardenas et al.2004; Kiel and Bayani Cardenas2014). This pattern becomes more complex with the inclusion of floodplain sediment and channel geomorphic features. Lateral hyporheic residence time is short in areas with coarse floodplain sediments and high sediment hydraulic conductivity and increases in meanders with fine-textured sediments (Boano et al.2006). In multi-thread planforms, simulations have identified the importance of hyporheic flow paths beyond the active channels toward secondary channels and across the floodplain (Kasahara and Wondzell2003) (Table 1). Along laterally unconfined valleys, meander creation, extension, and cutoff allow significant river adjustment and river-floodplain interactions, causing both in-stream and off-channel geomorphic features to drive lateral hyporheic exchange (Boano et al.2006).

In conclusion, studies of valley setting, confinement, and sinuosity suggest that valley topography provides important evidence about disconnection within catchments and can be potentially used as a qualitative and quantitative predictor of HEF. As demonstrated by the above studies, the source of spatial complexity of HEF is not only the result of single geomorphic structures but of the topographical structure of the valley and of the whole catchment.

4.3 HEF in the catchment topography context

Studies have suggested that catchments with large surface areas have greater hyporheic exchange fluxes (Bergstrom et al.2016; Harvey and Wagner2000; Laenen and Bencala2001). Greater variation in water stage correlates on average to greater hyporheic fluxes, but few direct observations are available to support or refute this assumption.

The catchment topographic slope defines the direction of flow by creating discontinuities and localized groundwater flow paths (Jencso and McGlynn2011; Jencso et al.2009; Winter1998; Wörman et al.2006). Emerging upscaling models have started incorporating the information of the catchment area, channel network structure, and head variations of surface topography. These models include (i) the first-order control of water inputs and groundwater head distribution (Caruso et al.2016; Jencso and McGlynn2011; Laudon et al.2007), (ii) indications of subsurface flow (Caruso et al.2016; Jencso and McGlynn2011; Jencso et al.2009; Wörman et al.2006), and (iii) discretizing the catchment into sub-catchments and identifying topographically contributing recharge and discharge areas (Wörman et al.2006, 2007). These studies indicate that linking topographic complexity to HEF is likely to be an important priority area of research. Patterns of upwelling and downwelling within reaches were observed to occur where the stream profile is concave and convex, respectively, and were used to predict patterns of HEF in high-gradient headwater mountain streams (Anderson et al.2005). While upwelling zones do not show a significant trend with increasing catchment area, the length of downwelling zones increases with stream size, spacing of channel slope, and decrease of water surface concavity (Anderson et al.2005).

These findings should encourage interdisciplinary efforts to generate supporting evidence that links HEF across the continuum of headwater, mid-order, and lowland streams as a result of systematic changes in hydro-geomorphological characteristics along the stream network.

5 Hydrogeological drivers
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Geology affects both the distribution of groundwater in aquifers and HEF flows. In this section hydrogeological effects on HEF are summarized into (i) channel sediment impacts on bedform-induced HEF (Sect. 5.1), (ii) floodplain sediment impacts on GSE between the valley aquifer and the channel (Sect. 5.2), and (iii) bedrock and aquifer type impacts on valley geomorphology (Sect. 5.3).

5.1 Channel sediment and bedform-induced HEF

Sedimentological properties strongly control HEF at reach scale. Water flowing through the river bed is affected by sediment grain size, sediment heterogeneity, and depth, promoting spatially diverse hyporheic exchange (Packman et al.2004). Hyporheic exchange is enhanced in coarser sediments (Packman et al.2004). As mentioned in Sect. 1, high velocity gradients and turbulence generated at the surface of coarse-sediment beds can also increase diffusion processes, which can produce considerable exchange even when the bed surface is flat and no flows are induced by bed topography (Marion et al.2008; Packman et al.2004). The presence of high hydraulic conductivity layers in the streambed increases dispersive mixing between hyporheic water and groundwater (Hester et al.2013) and creates preferential HEF, either short or long paths, by controlling the ability of the sediment to support advective pumping (Cardenas2008, 2009; Pryshlak et al.2015; Salehin et al.2004). Dye injections have shown that hyporheic flow patterns are controlled by the spatial relationship of high- and low-permeability regions of the streambed, resulting in faster near-surface transport, shallower penetration, and a shorter mean residence time (Salehin et al.2004). Furthermore, longer hyporheic flow paths are generated in streams with greater connectivity of sediment strata (Pryshlak et al.2015), but connectivity can be reduced by the accumulation of fine sediment that clogs pores (Bardini et al.2012; Brunke and Gonser1997; Hartwig and Borchardt2015). To date, few studies have addressed the effect of sediment heterogeneity on HEF variability at scales larger than the bedform, although recent works have shown strong impact of sand and gravel deposits on HEF at the reach scale (Zhou et al.2014) and identified sediment heterogeneity as one of the main drivers of lateral connectivity as well (Pryshlak et al.2015). In river segments dominated by gravel beds, such as in confined high-energy braided rivers, the hydraulic conductivity is generally high but also highly variable because it depends on the sorting of sediments in the floodplain and on the amount of silt and clay present (Table 1 and Fig. 3). Highly permeable riverbed sediments allow surface water to penetrate easily into the HZ, causing vertical hydraulic gradients to change strongly with local sediment permeability (Packman and MacKay2003; Vaux1968; Wroblicky et al.1998).

5.2 Hydrogeology in river and floodplain type

Channel planforms respond not only to changes in regional physiography and hydrology (Sect. 4.2) but also to sediment loads (Table 1) (Gurnell et al.2016; Nanson and Croke1992). Differences in particle sizes in river planforms are caused by longitudinal, lateral, spatio-temporal variation of river flows and sediment supply (Baldwin and Mitchell2000; Bridge2009). Sediment permeability allows varying hyporheic residence time responses according to whether deposits are finer or coarser (Azinheira et al.2014; Brunke and Gonser1997; Hester et al.2016; Pryshlak et al.2015) (Fig. 3).

Braided channels (Sect. 4.2) occur across a range of valley slopes, depending on the grain size of the bed material in transport, and present either a pool-riffle morphology or a bar-riffle morphology (Gurnell et al.2016). HEF tends to be very dynamic and spatially varying in these river types; steep head gradients between channels create cross-valley head gradients that control the location and direction of flow paths through the HZ (Fig. 3, Sect. 4.2) (Malard et al.2002; Ward and Stanford1995). This transverse exchange evolves with migration and river sediment transport processes (Boano et al.2006; Kasahara and Wondzell2003; Stonedahl et al.2010).

In sinuous, medium-energy meandering floodplains, HEF is also usually driven by variations in head gradients (advection processes), which are greater than diffusive transport by 2 or more orders of magnitude (Elliott and Brooks1997; Larkin and Sharp1992). This type of floodplain typically presents vertically accreted fine sediments (silt and clay). These local low-permeability units and thick sequences of unconsolidated deposits become more compact and less permeable with depth (Winter1998); thus, they are characterized by localized groundwater flows and restricted HEF (Angermann et al.2012; Krause et al.2012; Stonedahl et al.2012). In lowland settings with abundant fine sediment load, reduction of groundwater upwelling due to low sediment conductivity layers causes surface water downwelling and induces horizontal hyporheic flow into shallow streambed sediments above low conductivity strata (Angermann et al.2012; Stonedahl et al.2012). Spatial variations in the thickness of fluvial–alluvial deposits increase local gradients around clay lenses, and create locally confined conditions (Ellis et al.2007).

All of these studies indicate that the thickness of superficial deposits controls the extent and rate of hyporheic exchange (Anderson et al.2005; Buffington and Tonina2009; Tonina and Buffington2011).

5.3 Hydrogeology in the catchment: bedrock and aquifer type

From reach to regional scale, geology affects the distribution of groundwater in aquifers and the spatial variability of GSE and HEF via the aquifer geometry and hydrogeological properties. Lithologic type and structure, weathering history of bedrock, and the type of aquifer impact HEF by altering the distribution of hydraulic conductivities (Angermann et al.2012; Fox et al.2014; Gomez-Velez and Harvey2014; Hiscock2007; Krause et al.2011b; Morrice et al.1997; Winter1998; Woessner2000).

Bedrock exerts vertical and lateral constraints on river forms and processes, by controlling the interaction of GSE and HEF subsurface flows and defining valley confinement (Sect. 4.1.2). Different relationships exist depending on whether the bedrock is consolidated or semi-consolidated and the primary and secondary porosity of rock deposits (i.e. pores and fractures) (Binet et al.2017; Hoagland et al.2017; Jencso et al.2010; Sear et al.1999). For example, hyporheic studies in chalk catchments have shown the importance of groundwater in supporting GSE at catchment (Grapes et al.2005; Lapworth et al.2009), valley, and reach scales (Grapes et al.2005; Griffiths et al.2006), although vertical hyporheic exchange in these systems is often restricted by local low-conductivity superficial deposits (Allen et al.2010; Pretty et al.2006) (Sect. 5.1). In addition to the characteristics of the bedrock, the degree of confinement of the aquifer due to impermeable layers would prevent or limit GSE and HEF to local interactions (Gurnell et al.2016).

In confined aquifers, which are separated from the surface by geological strata with low hydraulic conductivities (i.e. aquitards), GSE would likely be prevented (Winter1998). HEF would also be prevented by the lack of highly porous alluvium and the low permeability of the bedrock (Buffington and Tonina2009; Kasahara and Wondzell2003). In confined bedrock, colluvial channels, and confined alluvial channels, GSE and HEF are limited by the local structure of the local sediment (e.g. coarse or fine particles) and the rock structure (e.g. continuous or discontinuous confinement) (Table 7.5 in Gurnell et al.2016). In unconfined aquifers, generally groundwater is easily conveyed in all directions, leading to high opportunity for both vertical and lateral HEF exchange (Winter1998). However, in unconfined alluvial channels, GSE and HEF can be prevented or limited to local interactions depending on local sediment (e.g. coarse or fine particle size) (Table 7.5 in Gurnell et al.2016).

In conclusion, HEF from reach to catchment scales is highly related to bedrock lithology and superficial sediment. The complexity of geological properties at the catchment scale results in spatio-temporal variations in HEF, in the channel and throughout the river network. A point upstream in the catchment may exhibit HEF dynamics driven by entirely hydrogeological processes compared to the catchment outlet. These differences are especially heightened in catchments with mixed land use and anthropogenic pressures (e.g. dams) for which comprehensive understanding is required of the timescales of water and solute flux with different geologies (Gooseff et al.2007; Kunz et al.2017; Sun et al.2015).

6 Ecological drivers
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Vegetation has long been known to exert a strong control on land surface hydrology by moderating streamflow and groundwater recharge (Sect. 3.2). By altering hydrological processes on channel banks, floodplains, and the wider catchment, vegetation feeds back on the temporal variability of HEF and likely increases the spatial heterogeneity of this ecological–hydrological relationship. This section describes in-channel, bank, and floodplain vegetation by focusing on three key types: in-channel vegetation (Sect. 6.1), large in-channel wood (Sect. 6.2), and riparian vegetation (Sect. 6.3).

6.1 In-channel vegetation

In-channel vegetation controls HEF directly, through channel-scale flow resistance, and indirectly, through sediment and streambed permeability (Jones et al.2008). A variety of herbs, shrubs, and trees grow in stream channels, increase bed roughness, and alter flow velocities. They produce a mosaic of hydrodynamic conditions with low-flow velocities in vegetation patches and high flow velocities between patches (Corenblit et al.2007). Vegetation also alters stage–discharge relationships that affect hyporheic flow, where higher water levels and faster in-channel flows are maintained in mid-summer (Harvey et al.2003; Heppell et al.2009). Jones et al. (2008) demonstrated that in-channel vegetation restructures hyporheic flow patterns by creating temporally dynamic deviations of hydraulic gradients. In-channel vegetation increases the friction factor (Harvey et al.2003) and creates low-flow areas that increase water residence time (Ensign and Doyle2005; Kjellin et al.2007; Salehin et al.2003; Wörman and Kronnäs2005). In particular this aspect has been observed in streams with extensive vegetation where flow can decrease to nearly zero within dense vegetation stands (Ensign and Doyle2005; Salehin et al.2003). Further, the reduction of flow velocity within plant stands leads to increased sediment deposition and the development of plant-mediated sediments that are typically finer-grained than the bed material and have more organic material and lower permeabilities (Corenblit et al.2007), which also reduce HEF.

In conclusion, both field and laboratory studies have suggested that vegetation shapes transient storage in stream channels, even though there are still difficulties in understanding the feedback of induced HEF at the reach scale. The role of vegetation on patterns of HEF at larger spatial scales is still unexplored. In particular, bank vegetation needs to be considered in terms of hydrological connection between riparian vegetation and the stream (Duke et al.2007) (Sect. 6.3).

6.2 In-channel wood

Within stream channels and valleys, accumulations of wood drive physical complexity of the river network by altering flow resistance, channel–floodplain connectivity, and vertical and lateral accretion of floodplain (Davidson and Eaton2013; Jeffries et al.2003; Mutz2000; Phillips2012; Piégay and Gurnell1997; Sear et al.1999; Wohl2013).

Wood affects channel hydraulics and induces deeper HEF by increasing the variability in vertical head and imposing greater hydraulic resistance (Lautz and Fanelli2008; Mutz2000; Mutz et al.2007). Wood generally has a comparable effect to other in-channel structures (Sect. 7.1) and channel roughness elements (Sect. 4.1.2) by driving water into the subsurface, where it travels along short hyporheic flow paths (Boano et al.2006; Lautz et al.2006). The impact of wood on HEF varies with valley topographic gradient (lowland and upland), groundwater dynamics (gaining and losing), and sediment transport (Gregory et al.2003; Jeffries et al.2003). In lowland rivers, where flow velocity is slow and gradient low, wood induces less HEF and also has less of an effect on spatial patterns of HEF (Krause et al.2014). Temporally, Wondzell (2006) observed that, although lowland streams are sensitive to changes in wood delivery, and wood decreases HEF at short timescales, large-scale channel adjustments reverse the effect of natural wood removal over longer timescales, causing higher HEF fluxes. Over the long term, wood removal results in longer mean hyporheic residence times, which impacts many hyporheic functions, including temperature, nutrient retention, and oxygen concentrations (Sawyer and Cardenas2012; Stofleth et al.2008). In upland rivers, wood typically creates steeper head gradients that drive hyporheic flow paths (Krause et al.2014).

Interactions between flow and wood also produce spatial heterogeneity in deposits of sediments and organic matter (Gregory et al.1991; Latterell et al.2006; Naiman et al.2000; Osei et al.2015a, b; Sear et al.2010). Fine and organic-rich sediments are retained, eventually driving higher spatial heterogeneity in HEF (Sects. 5.2 and 7). However, Kasahara and Hill (2006) observed little impact of a large wood-constructed step on oxygen concentrations within the hyporheic zone, presumably due to siltation (Menichino and Hester2014; Parker et al.2017; Wohl et al.2016).

At the valley scale, wood delivery depends on short- and long-term patterns of land use and geomorphology, often establishing floodplain geomorphology as the dominant control on wood storage in river systems (Benda and Bigelow2014). Indeed, one of the variables influencing wood transport and storage is valley geometry. Several studies have documented the importance of woody debris in shaping channel patterns and floodplain evolution in a variety of environments (Abbe and Montgomery2003; Collins et al.2002, 2012; Jeffries et al.2003; Millington and Sear2007; Piégay and Marston1998; Sear et al.2010). However, relatively few studies have examined patterns of wood distribution relative to valley geometry or HEF responses to morphological changes induced by large wood at valley scale (Wohl and Cadol2011).

6.3 Riparian vegetation

At valley scale, riparian vegetation is well known to shape patterns of GSE and HEF by affecting riverbank filtration and altering water-table elevations via transpiration (Chen2007; Jones et al.2008). Vertical and lateral hyporheic flow patterns are characterized by non-linear spatial variations with both vegetation composition (i.e. species) and evapotranspiration (ET) (Larsen et al.2014; Martinet et al.2009; Wondzell et al.2010). The ET from riparian vegetation can increase hyporheic fluxes by 1–2 orders of magnitude at timescales of weeks to months (Larsen et al.2014).

The effect of ET on HEF is especially significant in low-energy environments, where ET drives the flow of water through sediment into the root, comparable to molecular diffusion and varies at different times of the year (Bergstrom et al.2016; Iturbe and Porporato2004; Larsen et al.2014; Porporato et al.2004). Conversely, in high-energy environments where turbulent mixing and bedform-induced pumping are very rapid (Sect. 4.1.1 and Fig. 3), the effect of ET will be lower. On the diurnal timescale, evapotranspiration changes groundwater gradients, with riparian zone vegetation creating the lowest water table in the afternoon, promoting surface water infiltration and hyporheic exchange (Loheide and Lundquist2009; Wondzell et al.2010). Duke et al. (2007) observed a seasonal correlation between transpiration and streamflow with effects on hyporheic gradients. During winter, the correlation is very strong and high water tables and hillslope vegetation lead to negative hyporheic gradients and to high hydraulic head at the bank surface. Conversely, in summer the stream channel has less surface flow and less active exchange within the HZ, and deep flow paths are very important in this period (Duke et al.2007). At valley scale, the effect of riparian vegetation has been observed to greatly influence water inputs to the stream by controlling channel complexity, resulting in increased retention by increasing residence time and contact between stream water and the hyporheic zone. This hydrological interaction has been studied in arid catchments (Schade et al.2002, 2005) where soils are often highly impermeable and the presence of riparian vegetation is dependent on streamflow and shallow groundwater tables (Schade et al.2002, 2005; Stromberg et al.1996). Most of these studies have been performed in arid environments, and information on the effects of ET on HEF in humid environments is lacking.

In conclusion, the direct and indirect effects of riparian vegetation on HEF at floodplain or catchment level are poorly studied relative to effects of morphology and groundwater recharge or discharge, although the studies mentioned above provide a foundation for evaluation of groundwater-dependent riparian vegetation on the HZ.

7 Anthropogenic drivers
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Humans have extensively modified many river systems, and these changes impact the natural factors and processes that control HEF. Alterations to catchments, valleys, and river channels affect the hydrology (e.g. river stage fluctuations), hydraulics (e.g. altering vertical hydraulic gradients), and physiographic setting (e.g. geology, morphology). Effects of three main anthropogenic factors on HEF will be discussed: (i) river stage fluctuations due to in-channel structures and (ii) valley-spanning dams, and (iii) changes in sediment delivery and channel complexity due to land use and land management.

7.1 In-channel structures

Channel structures (e.g. weirs, log dams) that control and change flow conditions by obstructing the flow and dissipating energy have positive and negative impacts on HEF (Daniluk et al.2013; Hester et al.2008; Lautz et al.2006). Upstream of the control structure, a decrease in channel velocities and bedform size, combined with an increase in water depth and channel cross-sectional area, is usually observed and associated with a reduction of turbulent hyporheic exchange in coarser sediments (Blois et al.2014; Boano et al.2010; Jin et al.2009) and advective HEF by ripples, dunes, and bars (D'angelo et al.1993). Downstream of control structures, a decrease in sediment loads, scour, and turbulent fluxes in coarser sediment are usually observed (Hester et al.2009). Weirs induce HEF upstream of the obstruction, flow beneath it, and cause upwelling on the downstream side (Hester and Doyle2008; Jin et al.2009). The effect of these structures is complicated and may vary under different flow conditions. Conservative tracer experiments at the reach scale have shown that the cumulative effect of multiple weirs increased the cross-sectional area of the surface stream and of the transient storage zones behind weirs, while HEF decreased (Rana et al.2017). As a consequence, multiple weirs reduce short and fast HEF while inducing long and slow-moving hydrostatically driven hyporheic flow paths (Rana et al.2017).

Hence, the evaluation of potential effects of channel-spanning structure on HEF requires rigorous analysis with respect to channel flow variation. The various effects of these measures are complicated and include disruption of downstream flux of sediment, with critical consequences for the alluvial structure and on HEF at streambed or meander scale (Poole and Berman2001).

7.2 Dams

Large valley-spanning obstructions such as dams can affect HEF by ponding water, disrupting sediment transport, altering vertical hydraulic gradients and varying flow dynamics (Arntzen et al.2006; Fritz and Arntzen2007; Gerecht et al.2011; Schmadel et al.2016). For example, the daily stage fluctuation from hydroelectric dams regulates the size of the hyporheic zone and the magnitude and frequency of HEF (Gooseff et al.2006; Harvey and Bencala1993b; Lautz et al.2006; Sawyer et al.2012). In case of dam-induced water levels changes, a temporal lag occurs between stream stage and aquifer water; HEF is transient and penetrates several metres into the riparian aquifer with residence times of hours (Sawyer et al.2009). Schmadel et al. (2016) predicted HEF and residence times from the timing and magnitude of diel fluctuations and valley slope, and found that minimal exchange occurs when the magnitude of stream level fluctuations coincides with the hillslope water table, while maximum exchange occurs when stream stage is out of phase with the hillslope and therefore larger amplitudes in stream and hillslope occur. As a consequence, the effects of dams on HEF vary with channel planform and streambed topography. For example, in river systems characterized by large alluvial channels and unconfined aquifers, the relationship between dam-induced changes in river stage and HEF is characterized by hysteresis (Fritz and Arntzen2007). Therefore, HEF is not only dependent on changes in river stage but also on the difference between river and aquifer elevations (Vogt et al.2010). As river stage varies, there is a fast response of hyporheic flows which rapidly change with the head difference within the HZ, and a slower response of HEF with changes in elevation head of the near aquifer (Fritz and Arntzen2007). Additionally, the lower hydraulic conductivity near the surface of the HZ, caused by accumulation of sediment in the alluvial matrix and often characterizing alluvial channels (Sect. 5.2), might restrict the changes in hydraulic pressure over the first centimetre of river sediment (Fritz and Arntzen2007). In river systems characterized by small channel sizes and complex streambed morphology, differences in HEF within the subsurface upstream and downstream of dams have been attributed to the overall hydraulic behaviour around the dam and to the changes in topography induced by the dam (Fanelli and Lautz2008; Hester et al.2009). Studies using thermal sensors have reported that upstream and downstream pools created by ponding and channel degradation, respectively, have the potential to drive bedform-scale exchange flow. Temperature results suggest that the highest hyporheic exchange rates occur downstream of dams, while HEF is limited in upstream pools where fine sediment deposits yield low hydraulic conductivities (Fanelli and Lautz2008).

7.3 Land management and use: impacts on sediment delivery, channel complexity, and hydrological regime

Land cover and management have an impact on HEF through several pathways, as they impact on the quality (i.e. sediment delivery and channel complexity) and quantity (i.e. discharge, infiltration, ET) of groundwater and surface water (Carrillo-Rivera et al.2008; Santos et al.2015). The relationship between land use, sediment delivery, and HEF remains an area of active research, but in general both urbanization and agriculture significantly modify channel morphology, streambed sediment size, and hydraulic conductivity by competing effects from increasing fine sediment inputs (which decrease streambed hydraulic conductivity) and stream discharge (which increases advective HEF) (D'angelo et al.1993; Emanuel et al.2014; Kasahara and Wondzell2003; Morrice et al.1997; Ryan et al.2010).

First, decreased porosity and permeability of streambed sediments, e.g. due to increased sediment loads from agriculture, is usually connected to a decrease in in-channel storage and hyporheic exchange flows (Brunke and Gonser1997; Packman and MacKay2003). Secondly, water abstraction often includes pumping of both stream surface water and groundwater, which can increase groundwater levels and thereby increase groundwater discharge to streams and/or decrease stream water flow to groundwater (Winter1998). Lower water tables generally reduce the vertical extent of the HZ by increasing water losses from the stream and reducing the hydraulic gradients that drive HEF (Hancock2002). Not only the magnitude but also the length of the hyporheic exchange flows are affected: tracer experiments conducted on several reaches within a single land use type showed a reduction of transient storage as a function of the surrounding land use due to lower geomorphological complexity in agricultural streams, promoting the formation of low-flow zones but reducing HEF (Gooseff et al.2007). However, little research has been carried out on HEF in urban rivers where low morphological complexity and anthropogenic factors have impacted streams substrates and planforms (Drummond et al.2017; Gooseff et al.2007; Grimm et al.2005; Groffman et al.2005; Walsh et al.2005).

8 Case study: the River Tern
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While previous sections described how individual factors influence HEF, these factors interact across spatial scales to produce a high degree of spatial and temporal heterogeneity in HEF. To illustrate the challenges in resolving hyporheic exchange across scales, we use the River Tern (UK) as a case study. First, we review previously published research on HEF in this stream, and then discuss the multi-scale factors that influence HEF based on the review presented previously in Sects. 3 to 7.

HEF has been studied in great detail at the sub-reach scale in the River Tern (Angermann et al.2012; Hannah et al.2009; Krause et al.2011b, 2013). Results indicate that spatial variations in surficial geology of the floodplain and temporal variations in groundwater levels control local river–aquifer interactions and dictate the rates and patterns of HEF. Strong correlations between rainfall and groundwater levels indicate that the river acted as a recharge boundary, and pumping tests suggest that hydraulic continuity of bedrock with the River Tern is greater at high flows than at low flows (Streetly and Shepley2005). At more local scales, Hannah et al. (2009) and Angermann et al. (2012) found that spatial heterogeneity in HEF is controlled by both streambed topography and geological strata. Heat tracer studies identified inhibition of hyporheic flow in peat and clay lenses below the stream (Angermann et al.2012). Given this structure, hyporheic flow paths in riffles did not coincide with the patterns expected from topography-induced head distributions, and instead seem to be driven by locations of confining peat and clay strata (Angermann et al.2012). Temperature data indicated that advected surface water or groundwater control heat transport within the hyporheic zone (Hannah et al.2009). Hannah et al. (2009) and Anibas et al. (2012) showed that the local hydrogeological and geomorphological context explains the observed seasonal thermal differences between riffles: increased downwelling at riffle tails during winter results from greater groundwater influence and high water stage (Fig. 4).

Figure 4Conceptual representation of seasonal variation of hydraulic gradient with water stages in an upland environment. Development of hyporheic exchange in a riffle considering extension and contraction of hyporheic sediment.


Figure 5Examples of reaches of the River Tern analysed for HEF (Table 2). The river is subdivided into reaches based on their planform morphology (sinuosity units: when the overall direction of the planimetric course changes) and classified in Table 2. The figure represents for each reach the main river and the surficial and bedrock geology in a buffer area of 50 m from the main channel. Surficial and bedrock geology are represented as greater than the connectivity within sediment strata and higher the HEF. Vertical HEF will be restricted by low permeability units and unconsolidated deposits and lateral HEF by grain size material, river sinuosity, and cross-valley head gradients.


These results highlight the need to integrate interpretations of observed rates and patterns of hyporheic exchange with hydrogeological and geomorphological context. As a starting point, valley type can be used to predict the development and extent of lateral hyporheic exchange. We illustrate the generic nature of valley confinement for the River Tern considering the headwater valley of the Tern at Norton-in-Hales and including the 150 m reach considered in previous studies (Hannah et al.2009). The catchment is low-lying, with average elevations between 50 and 120 m, and the area is predominantly agricultural, with croplands and pastures accounting for the majority of the land area (Fuller et al.2002). The valley section has an elevation ranging from 91 to 114 m, a low-channel gradient between 0 % and 0.2 % and is laterally unconfined. The River Tern and its tributaries are underlain by Permo-Triassic sedimentary rocks (sandstone and conglomerate interbedded), which dominate river–aquifer interactions at regional scale (Allen et al.1997). This permeable geology supports unconfined highly, moderately productive aquifers characterized by intergranular flows. However, most of the surficial geology of the catchment is from the Pleistocene age, ranging from sand and gravel to diamicton, peat, and clay. The thickness varies spatially across the catchment, with thicker areas in the western part of the catchment comprising up to 30 m of till (Streetly and Shepley2005). Throughout the length of the selected section, the river is fringed by wet woodland, predominantly Alnus glutinosa. The bedrock is mainly sandstone and mudstone, whereas the superficial geology is sand and gravel with some silt, clay, and diamicton. The valley was divided into reach sections of 850 m and analysed the confinement according to the framework of Fryirs et al. (2016). Some reaches are laterally constrained by anthropogenic structures (roads, houses) on one or both sides (Table 2, Fig. 5). The anthropogenic confinement is most prominent in proximity to the town, where the active floodplain is artificially disconnected by engineered structures. Given that the channel planform is mostly meandering and is not constrained by bedrock (Sect. 4.1.2), lateral hyporheic flows will likely occur predominately in unconfined areas, where the planform can adjust to its sinuous–meandering shape (i.e. reaches 1, 4, 5, 6, 7, 8, 9, 10 in Table 2). According to the hydrogeology of the area (Sect. 5.1), hydraulic conductivities are expected to be highly variable as a consequence of the sediment sorting and HEF will likely vary within reaches when arenaceous and rudaceous lithologies dominate on argillic and peat sediments (i.e. reaches 2, 4, 5, 6, 8, 9 in Table 2).

Finally, differences along the general gradient of the network (Sect. 4.2 and 4.2.1) are expected where the conjunction of increase in riverbed slope, meander bends, and bedforms (Sect. 4.1) will likely increase hydraulic head gradients and induce HEF (i.e. reaches 4, 5, 7, 8 in Table 2). Previous research suggests that the mosaics of hyporheic exchange in the River Tern are induced by spatial variations in streambed topography and sediment permeability and temporal variations in groundwater recharge. Through the discussion of this case study, we illustrated that assessment of the geological and morphological context for the river channel can help to explain observed patterns in bedform-driven HEF. This work outlines the opportunity to build HEF scaling relationships from basic patterns of channel morphology, valley confinement, and hydrogeological properties.

9 Conclusions
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Information on the underlying drivers of HEF across space and time and their processes interactions is essential to predicting HEF in river networks. This review assembled, for the first time, studies on drivers of HEF across multiple spatial and temporal scales, to provide a comprehensive overview of the mechanisms by which HEF is generated and modified via interactions between processes. HEF plays such a significant role in mediating physical, chemical, and ecological processes in rivers that considering the HZ in management plans could bring major benefits to re-establish the processes necessary to support the natural ecosystem within a catchment. But, the ability to understand the temporal and spatial dynamics of HEF depends on the holistic perspective suggested here, which considers co-variations between flow, slope, valley confinement, catchment area, sediment size, and river planform and bedform morphology. Direct data on HEF at a larger scale than reaches are severely limited and are required to improve methodological and modelling approaches to HEF and target river management needs (Magliozzi et al.2018). By summarizing the factors responsible for rates and patterns of HEF in river systems, this review provides a comprehensive framework which supports process-based hydro-ecological knowledge of HEF and the development of transferable approaches to guide river management in including the HZ in their prioritization and planning (Magliozzi et al.2018).

Data availability
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Data availability. 

For the case study, geological data from the British Geological Survey were used and are available by request at

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The supplement related to this article is available online at:

Author contributions
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Author contributions. 

CM developed and prepared the paper with contribution from all co-authors. All authors have approved the final article.

Competing interests
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Competing interests. 

The authors declare that they have no conflict of interest.

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This work was supported by the Marie Skłodowska-Curie Action, Horizon2020 within the project HypoTRAIN, grant agreement no. 641939. Aaron I. Packman was also supported by US NSF grant EAR-1344280. We thank the British Geological Survey as data providers. We also thank the two anonymous reviewers for their helpful comments on the paper and the researchers who commented it in the discussion forum.

Edited by: Thom Bogaard
Reviewed by: two anonymous referees

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Publications Copernicus
Short summary
The hyporheic zone is the area below riverbeds where surfacewater and groundwater mix. Hyporheic flow is linked to river processes and functions, but research to date has not sufficiently addressed how factors operating at different scales in time and space drive hyporheic flow variations at reach and larger scales. This review presents the scale-specific processes and interactions that control hyporheic flow, and a case study showing how valley factors affect its expression at the reach scale.
The hyporheic zone is the area below riverbeds where surfacewater and groundwater mix. Hyporheic...