Fish habitat rehabilitation using wood in the world

To provide river managers and researchers with practical knowledge about fish rehabilitation, various studies of fish habitat rehabilitation that used wood were reviewed. The review focuses on fish responses, wood installation methods, and geomorphic features of the rehabilitation sites. Most studies were conducted in moderately sized (small and medium) streams with relatively high bed gradients and aimed to improve the habitats of salmonid species. In this stream type, structures spanning the full (log dam) and partial (log deflector) width of the river were most common, and wood structures that created pools and covers were successful in improving fish habitat. Some projects were conducted in moderately sized low-gradient streams, in which wooden devices used to create instream cover were effective for fish assemblages. There were few studies in other aquatic ecosystems. However, well-designed large wood structures, known as engineered log jams, were used in rehabilitation projects for large rivers. In slack-water or lentic systems such as side-channels, estuaries, and reservoirs, small and large wood structures that created cover were used to improve habitat for many fish species. For successful fish habitat rehabilitation projects, the hydrogeomorphic conditions of rehabilitation sites should be carefully examined to avoid physical failure of wood structures. Although artificial wood structures can be used to improve fish habitat in various aquatic ecosystems, they should be considered to be a complementary or interim habitat enhancement technique. The recovery of natural dynamic processes at the watershed scale is the ultimate target of restoration programs.     

Differential responses by two closely related native fishes to restoration actions

Globally, river degradation has decimated freshwater fish populations. To help reverse this trend in a southeastern Australia river, we used multiple restoration actions, including reintroduction of instream woody habitat, riparian revegetation, removal of a weir hindering fish movement, fencing out livestock, and controlling riparian weeds. We monitored the responses of native fish at the segment scale (20 km) and reach scale (0.3 km) over 7 years to assess the effectiveness of the different restoration strategies. Two closely related species, Murray cod Maccullochella peeli and trout cod Maccullochella macquariensis, increased at the restored segment compared with the control segment. However, inherent differences between river segments and low sample size hampered assessment of the mechanisms responsible for segment‐scale changes in fish abundance. In contrast, at the reach scale, only M. peeli abundance significantly increased in reaches supplemented with wood. These differential responses by 2 closely related fish species likely reflect species‐specific responses to increased habitat availability and enhanced longitudinal connectivity when the weir improved passage around a fishway. Changes in M. peeli abundance in segments supplemented with and without wood suggest an increase in carrying capacity and not simply a redistribution of individuals within the segment, facilitated the observed expansion. Our findings confirm the need to consider individual fish species' habitat preferences carefully when designing restoration interventions. Further, species‐specific responses to restoration actions provide waterway managers with precise strategies to target fish species for recovery and the potential to predict fish outcomes based on ecological preferences.     

The effects of recreated instream and ecotone structures on the fish fauna of an epipotamal river

Investigations of fifteen sections of seven Austrian epipotamal (barbel region) streams between 1981 and 1984 demonstrate the impact of instream river bed structures on fish communities. Reduced spatial heterogeneity due to river straightening resulted in decreasing species number, diversity, stock density and biomass. Reincreased variability of the river bed in the frame of a subsequent restructuring project improved all community-specific values significantly within a 3-year investigation period (1988–1990). Besides the regained habitat variability in form of riffle pool sequences and other instream structures, the newly created riparian zones obviously provided important niches, e.g. as refuge areas during flooding and as nursery grounds for fish fry. The positive effects of the recreated land/water ecotone are discussed with respect to river restoration projects.     

Patch-specific spawning is linked to restoration of a sediment-disturbed lowland river,south-eastern Australia

Landscape-scale, terrestrial modifications of catchments can increase river sediment loads. In some rivers, the development of ‘sand-slugs’ (i.e. discrete slugs of travelling sand particles) subsequently alters habitat structure with links to declines in regional fish diversity. Increasingly, river channel restoration is being used to conserve biodiversity in sediment-disturbed rivers, but there are few examples to guide restoration efforts. In particular, few studies examine the effect of restoration on ecological processes such as spawning. We report on a trial restoration procedure, consisting of sediment extraction and woody debris replacement undertaken in two 1500 m reaches of the Glenelg River, south-eastern Australia. We aimed to examine the association between reach-scale restoration and fish spawning, predicting that reconstructed channel types (pools and runs) would be used more frequently than corresponding un-modified channel types for spawning. Artificial (polyvinylchloride (PVC) tubes) and natural (small woody debris) spawning substrates were used to examine the association of fish spawning with reach and channel type. Restoration increased wood volume, but only increased average run depth at one reach. Species including Gadopsis marmoratus, Philypnodon grandiceps, Hypseleotris spp., Nannoperca variegata and Cherax destructor were observed within spawning substrates, but only P. grandiceps frequently spawned on PVC tubes and sparsely on small woody debris substrates. Spawning frequency varied between reach and channel types, with pools in both restored and un-manipulated reaches used more frequently than runs. Restored pools were less frequently used than un-manipulated pools, but restored runs were used up to 6 times more frequently than un-manipulated runs, indicating that restoration of the shallowest parts of the channel increased spawning opportunities for P. grandiceps. This type of channel restoration may facilitate ecological processes that underpin the persistence of riverine fish populations.     

Simple predictions of instream habitat model outputs for fish habitat guilds in large streams

1. In the context of a generalised modification of hydraulic conditions in medium to large streams, modelling the impacts of stream regulation on fish communities in multiple streams is an important challenge for basic and applied freshwater ecology. Conventional instream habitat models such as PHABSIM link a hydraulic model with preference curves for various species to estimate habitat value changes with discharge in stream reaches. Despite world‐wide applications, they have been scarcely used in multiple sites with multiple species. 2. We assigned 21 size classes of European fish species to four habitat guilds (cluster analysis grouping size classes with comparable microhabitat preference curves). Then, we ran a conventional instream habitat model on 28 French stream reaches belonging to the `barbel zone', to estimate habitat values versus discharge curves for the 21 size classes. We summarised the outputs as mean habitat values for guilds, and tested if they were predictable from average characteristics of reaches (discharge, depth, width, particle size). 3. As was obtained elsewhere for populations, habitat values for guilds were strongly related to average, dimensionless characteristics of reaches. The Reynolds number of reaches, equivalent to a discharge per width unit, reflected most of the discharge‐dependent changes in habitat values (within reaches). In particular, habitat values of species preferring bank (respectively midstream) microhabitats decreased (respectively increased) with increasing Reynolds number. The Froude number at median discharge was the major predictor of reach‐dependent but discharge‐independent variations in habitat values. Habitat values of species preferring riffle versus pool or bank microhabitats were higher in reaches with high Froude numbers. These relationships were consistent with existing knowledge on the different species. 4. Such results suggest that the input variables required to estimate habitat values for fish communities can be greatly simplified, as illustrated by a general estimation of the sensitivity of species preferring midstream habitats to discharge changes in any reach. Cost‐efficient alternatives to conventional instream habitat models should facilitate their validation in multiple sites, a point that remains critical in instream habitat modelling of fish communities.     

Assessing Habitat Suitability for Juvenile Atlantic Salmon in Relation to In‐Stream Restoration and Discharge Variability

In‐stream restoration often aims at increasing the availability of the stream habitat suitable for salmonid fishes, thus creating potential for increased fish abundance. We assessed the success of in‐stream restoration of River Kiiminkijoki, northern Finland, by combining River2D habitat hydraulic modeling and fish density monitoring at the same sites, with data from multiple restored and reference reaches for 3 years both before and after restoration. We modeled the effects of restoration on the area suitable (weighted usable area, WUA) for juvenile Atlantic salmon from post‐hatching to age‐1 fish. Wetted width in the restored reaches increased by 8.1% on average compared with only ?0.2% change in the reference reaches. Habitat time series across 10 years showed significant increases in the amount of suitable habitat under summer conditions for both age‐0 and age‐1 salmon. However, improvement of overwintering habitats was marginal or nonexistent. Densities of age‐1 salmon showed no response to restoration. Low river discharge during the winter was correlated with low salmon densities the following summer. It thus appears that variability in wintertime discharge, and associated high interannual variation of WUA values, overrode the almost 20% increase in average post‐ versus pre‐restoration summertime WUA. Our study shows that the combination of hydraulic modeling and biological monitoring is a promising approach to stream restoration assessment.     

Simple predictions of instream habitat model outputs for target fish populations

1. Bottom-up approaches based on individual behaviour can help to identify key variables influencing populations at larger scales. Instream habitat models have been developed to predict the consequences, for populations in stream reaches, of fish preferences for particular hydraulic conditions observed at the scale of individuals. Conventional instream habitat models (e.g. PHABSIM) predict habitat values for species or life stages in reaches, and their changes with discharge. Despite their worldwide use, they have been subject to continuing criticism and have been mainly limited to site-specific case studies.
2. We ran conventional instream habitat models in 58 French stream reaches dominated by brown trout. Using non-linear mixed effect models, we demonstrated that the outputs of instream habitat models (habitat values for three trout life stages and five other species) are predictable from average characteristics of reaches (discharge, depth, width and bed particle size).
3. Our models closely reflect variations in habitat values within-reaches (with discharge) and between-reaches. Within-reach changes are linked to the Reynolds number of reaches, while between-reach changes depend mainly on the Froude number at median daily discharge. These two dimensionless variables combine discharge, mean depth and mean width of reaches. Independent model validations showed robust model predictions that are consistent with studies of habitat values for brown trout made in larger streams from western North America.
4. Our results contribute to identifying the main hydraulic variables governing estimates of fish habitat values. They should facilitate habitat studies in multiple streams, at the basin or larger scales, while reducing their cost. They should enhance the biological validation of habitat model predictions, which remains critical.     

The significance of meandering channel to habitat diversity and fish assemblage: a case study in the Shibetsu River,northern Japan

This study examined the structure and function of habitats for fish, the contribution to fish populations, and the effects of channel modification on habitats and fish populations in the lowland meandering Shibetsu River, northern Japan. Electrofishing and environmental measurements were conducted in bank areas of habitats constituting natural meandering and modified reaches. All types of habitats in a meandering reach highly contributed to the fish population(s). In particular, the contributions of lateral and wood habitats to fish populations were generally high, despite the low spatial extent of these habitats. The modified reach was simplified and had fewer types of habitats with uniform currents, and there was a low abundance of most fish within these habitats. Abundance of each fish group (taxa) was negatively affected by the changes in the habitats and/or channel shortening (i.e., decrease in the absolute abundance of habitat) due to river modification, which was implemented during 1950–1978. This study suggests that the recovery of all the habitat types is important in meander restoration and that the changes in habitat types and abundance should be examined in monitoring meander restoration and channel shortening.     

Upstream river morphology and riparian land use overrule local restoration effects on ecological status assessment

River restoration is a central issue of present-day River Basin Management. Unfortunately, many studies have shown limited ecological improvements, hypothesizing catchment influences and missing donor populations as main impeding factors. This study evaluates the ecological status after restoration at 46 river reaches in light of catchment influences upstream. Three groups of environmental parameters were investigated: (i) riparian land use and (ii) physical habitat quality in different lengths upstream of the restorations and (iii) land use in the whole catchment upstream. Ecological quality ratios of standardized fish, invertebrate and macrophyte samples were used as response variables. The results imply that sub-catchment variables influence the ecological status more than local habitat improvements. In particular, fish and invertebrate ecological status was positively linked to percent deciduous forest upstream of restored sites, while macrophytes revealed an opposite trend. Furthermore, we found a strong linkage of site-scale ecological status and physical habitat quality up to 5 km upstream of the restorations; the more natural were riparian land use and river habitat quality upstream, the higher was the chance of a good ecological quality in restored reaches. We conclude that site-scale restoration measures are likely to be unsuccessful, if the sub-catchment physical habitat upstream is degraded.     

Small and impoverished regional species pools constrain colonisation of restored river reaches by fishes

1. Using an extensive data set from 18 river restoration projects in the lower mountain ranges of Germany and 5462 river reaches in their surroundings, we estimated the spatial extent of the regional fish species pool from which restored river reaches are colonised. 2. Restoration resulted in a marginally significant increase in fish species richness; however, restored reaches still deviated markedly from natural reference conditions. Nearly all (96.6%) species occurring in restored reaches were present in reaches within a distance of 5 km up‐ or downstream of the restored reach. 3. Species richness in restored reaches was correlated with species richness within a 5‐km species pool. This relationship was more pronounced for common than for rare fishes and applied to both the total number of fish species at the restored reach and the number of additional fish species that were not present at unrestored conditions. 4. The richness of the regional species pools was greatly impoverished. On average, only 50% of all species considered to represent natural reference assemblages were present. The limited success in establishing natural fish assemblages in restored reaches was attributed to spatial limitation (e.g. due to fragmentation) and an impoverished regional species pools from which restored reaches recruit. 5. We recommend that integrated river restoration management should consider not only the abiotic prerequisites of successful restorations, but also the structure and quality of the regional species pool.     

Influence of Landscape Geomorphology on Large Wood Jams and Salmonids in an Old-growth River of Upper Michigan

We investigated the structure of large wood jams (LWJ) and their use by brook trout (Salvelinus fontinalis, Mitchill) and other fish in four geomorphically-distinct sections of the Little Carp River, a small river flowing through an uncut, old-growth, northern hardwood-conifer forest along the south shore of Lake Superior, Upper Michigan. We characterized nine LWJ per section and then electroshocked fish at three randomly selected LWJ per section. Structural characteristics of LWJ (e.g., total volume of wood, number of logs) varied with geomorphology at the scale of approximately one km. Differences in the abundance of fish associated with LWJ were not statistically significant among LWJ and non-LWJ portions of stream across all study reaches. Factors that explained most variability in the proportion of salmonids at LWJ (valley constraint, volume and number of pieces in the jam) reflected both large-scale geomorphology and characteristics of LWJ. If emulating an old-growth system is the goal for restoring habitat, attention should be given to the correlation of LWJ with larger-scale geomorphology of the reference river. However, it cannot be assumed that LWJ restoration will necessarily increase brook trout abundance near LWJ in a system similar to the Little Carp River as we observed low overall correlation between brook trout abundance and LWJ.     

Habitat preferences and habitat restoration options for small‐bodied and juvenile fish species in the northern Murray–Darling Basin

Degradation of instream habitats in the northern Murray–Darling Basin has occurred through numerous stressors, including siltation, clearing of bankside vegetation, intrusion of livestock and impacts of pest species. A better understanding of habitat preferences of native fish species could help guide future instream habitat restoration actions. The habitat choices of seven native fish species, juvenile Murray Cod (Maccullochella peelii), juvenile Golden Perch (Macquaria ambigua ambigua), juvenile Silver Perch (Bidyanus bidyanus), adult Murray–Darling Rainbowfish (Melanotaenia fluviatilis), adult Olive Perchlet (Ambassis agassizii), adult Un‐specked Hardyhead (Craterocephalus stercusmuscarum fulvus) and adult carp gudgeons (Hypseleotris spp.) were tested in preference troughs to help inform potential habitat restoration actions in the Condamine catchment. Each species was given a choice between pair combinations of open sandy habitat, submerged macrophytes, emergent plants and rocky rubble. Habitat preferences varied between species. Murray Cod, Golden Perch, carp gudgeons and Olive Perchlets preferred structure over open sandy habitat, whilst juvenile Silver Perch, Un‐specked Hardyhead and Murray–Darling Rainbowfish did not avoid open sandy habitats. Juvenile Murray Cod preferred rocky rubble habitat over all other habitat choices. Use of complex rock piles to provide nursery habitat for Murray Cod populations is a potential restoration option. Introduction of rock could also benefit Golden Perch and carp gudgeons. Use of emergent plants, submerged macrophytes and rocky rubble for habitat restoration all appear to have merit for one or more species of small‐bodied fishes or juvenile stages of larger sized fishes. Rocky rubble or floating attached macrophytes could be viable restoration options in areas too turbid to establish submerged macrophytes. These habitat interventions would complement existing actions such as re‐snagging and provision of fish passage to assist with sustainable management of native fish populations.     

Assessment of instream structures for habitat improvement for two critically endangered fish species

The number of fish habitat improvement schemes has greatly increased in response to the widespread degradation of aquatic ecosystems. However, many of these enhancement projects often fail to create expected habitat conditions, because they are rarely planned and executed with inputs from the species’ habitat requirements throughout their life histories, and it is frequently assumed that the implementation of a specific instream structure for habitat improvement will always benefit all species present. Using a 2D hydraulic model, the present study evaluates the potential habitat improvement for two critically endangered fish species—the Southwestern arched-mouth nase Iberochondrostoma almacai and the Arade chub Squalius aradensis—resulting from simulating the introduction of different instream structures (islands, lateral bays, and deflectors) in a modified Mediterranean river reach. The introduction of islands in the river channel was found to be the best improvement measure for YOY and juvenile nase and chub, as shown by increases in the mean annual Weighted Usable Area (WUA) of more than 100 and 50%, respectively, compared to the present conditions. On the other hand, the simulation with current deflectors proved to be the worst scenario, particularly for nase, with mean annual WUA decreasing by 3.6, 17.8 and 22.7% for YOY, juveniles and adults, respectively. The findings of this study point to the need to account for different species life-history stages when modelling the implementation of instream structures for habitat improvement and also provide a sound basis for future conservation-related studies conducted in Mediterranean rivers that harbour other threatened “sister” species.     

Restoration of macroinvertebrates,fish, and habitats in streams following mining subsidence: replicated analysis across 18 mitigation sites

Human activities have led to declines in stream functioning and stream restoration seeks to reverse this trend. Longwall coal mining, an underground full‐extraction method, can cause surface subsidence, affecting streams by creating a series of deep pools that trap sediment, reduce habitat diversity, and impair macroinvertebrate and fish communities. Mining effects on streams must be mitigated to maintain the functions, values, and foreseeable uses of streams. Gate cutting is a procedure that alleviates pooling by reestablishing the stream grade, accompanied by procedures that stabilize the channel, restore substrates, and enhance in‐stream and riparian habitats. We evaluated effectiveness of gate cuts at restoring streams affected by subsidence pooling at 18 independent restoration sites over two mines in southwestern Pennsylvania, U.S.A. At each site, sampling stations were established to monitor effects of mining subsidence and its restoration on macroinvertebrates, fish communities, and habitats. We tested for effects of sequential interventions (subsidence and restoration) on biological and habitat variables in a replicated before–after design, controlling for potentially confounding temporal effects (sample month and antecedent effective precipitation). All biological indices and substrate‐related habitat indices declined following subsidence but improved following restoration. Macroinvertebrate indicex and taxa richness, substrates, and riparian vegetation continued to improve with time following restoration. Whereas other studies have concluded that biological communities may take many years to respond to restoration, these results indicate that where macroinvertebrate and fish communities are altered by subsidence pooling, they can be effectively restored using gate cuts to pre‐mining levels within relatively short time periods.     

Comparing amphibian habitat quality and functional success among natural,restored, and created vernal pools

The fact that several vernal pool restoration and creation attempts in eastern Pennsylvania and New Jersey have been paired with conservation of natural pools in the same area provided a valuable research opportunity to compare amphibian habitat quality between project sites and natural reference pools. To measure desired outcomes, we used successful reproduction and metamorphosis of two vernal pool indicator species, the wood frog and spotted salamander. Although many previous studies indicate that restored and created pools rarely replace function lost in the destruction of natural pools, success of vernal pool indicator species was not necessarily related to pool type in this study. Results indicate a strong correlation between reproductive success for both species and vernal pool size (i.e. mean depth and volume), regardless of pool type. Although overall survival rates of wood frog larvae were significantly higher in natural pools with hydroperiods between 12 and 35 weeks, wood frogs were also successful in one restored and one created vernal pool. Salamander survival rates were highest in two natural and two created pools, which had in common both greater volumes and higher proportions of forest land cover in the surrounding 1,000 m. The documented success of vernal pool indicator species in two well‐established created pools demonstrates that pool creation can sometimes restore communities and ecological functions lost, especially when nearby natural pools are degraded or destroyed.     

Ichthyofauna of two streams (silted and reference) in the Upper Paraná river basin, Southeastern Brazil.

In this study the fish assemblages of the silted Aguas Claras stream (AC) was compared with that of a reference, the S?o Carlos stream (SC), so as to identify potential fish indicators of integrity or degradation. Both streams, located about 5 km from one another, are part of the Upper Paraná river basin, Brazil, and present similar physiographical features. Twenty-one species were collected in AC (1,271 specimens) and 18 in SC (940 specimens). In AC, dominant species e.g., Corydoras aeneus (sandy pools), Serrapinnus notomelas, and Pyrrhulina australis (warm marginal shallow pools) were those favored by new microhabitats linked to siltation and removal of the riparian vegetation. Changes in the composition of the marginal vegetation resulted in dominance of species such as Hisonotus francirochai (marginal grasses). In SC the dominant species was Phalloceros caudimacultus, abundant in marginal shallow pools, and Trichomycterus diabolus. and Hypostomus nigromaculatus, exclusively riffle-dwelling species, which were absent in AC. Fish assemblage monitoring is recommended for use in riparian management programs in order to evaluate negative instream sedimentation effects.     

Revealing the pathways by which agricultural land‐use affects stream fish communities in South Brazilian grasslands

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A comparison of habitat diversity and interannual habitat dynamics in actively and passively restored mountain rivers of Germany

We compared habitat diversity and morphodynamics of ‘actively’ restored reaches (including removal of bank fixation, widening and large wood placement) with ‘passively’ restored reaches (abandonment of channel maintenance) and adjacent non-restored control reaches in medium-sized Central European mountain rivers. Habitat diversity and river morphology were mapped in two consecutive years and changes in habitat composition (channel features, substrates) and morphological changes (active depth and width) were quantified. In both years, habitat diversity was generally higher in the restored reaches compared to their non-restored counterparts, and significantly differed between restoration approaches, with average values in actively restored reaches being about 60% larger than in passively restored reaches. Channel feature composition differed significantly, both between restored and unrestored reaches, and between restoration approaches, whereas substrate composition was similar in all investigated reaches, indicating that restoration had a higher effect on mesohabitat than on microhabitat conditions. Interannual habitat dynamics in respect to channel feature composition were larger in the actively restored compared to the passively restored reaches, while substrate composition remained fairly constant in all reaches. Regarding morphodynamics, changes in depth and width of actively restored reaches differed significantly from changes in passively restored ones in three of the four elements compared. Our findings imply increased habitat richness, diversity and habitat dynamics in the restored reaches, especially in actively restored ones. Analysis of discharge data suggests that flood events exceeding critical shear stress of the bed material, and the time span since restoration determine the potential for morphological changes.     

High‐resolution riparian vegetation mapping to prioritize conservation and restoration in an impaired desert river

In highly impaired watersheds, it is critical to identify both areas with desirable habitat as conservation zones and impaired areas with the highest likelihood of improvement as restoration zones. We present how detailed riparian vegetation mapping can be used to prioritize conservation and restoration sites within a riparian and instream habitat restoration program targeting 3 native fish species on the San Rafael River, a desert river in southeastern Utah, United States. We classified vegetation using a combination of object‐based image analysis (OBIA) on high‐resolution (0.5 m), multispectral, satellite imagery with oblique aerial photography and field‐based data collection. The OBIA approach is objective, repeatable, and applicable to large areas. The overall accuracy of the classification was 80% (Cohen's κ = 0.77). We used this high‐resolution vegetation classification alongside existing data on habitat condition and aquatic species' distributions to identify reaches' conservation value and restoration potential to guide management actions. Specifically, cottonwood (Populus fremontii) and tamarisk (Tamarix ramosissima) density layers helped to establish broad restoration and conservation reach classes. The high‐resolution vegetation mapping precisely identified individual cottonwood trees and tamarisk thickets, which were used to determine specific locations for restoration activities such as beaver dam analogue structures in cottonwood restoration areas, or strategic tamarisk removal in high‐density tamarisk sites. The site prioritization method presented here is effective for planning large‐scale river restoration and is transferable to other desert river systems elsewhere in the world.