RESTORING SALMON HABITAT FOR A CHANGING CLIMATE

An important question for salmon restoration efforts in the western USA is ‘How should habitat restoration plans be altered to accommodate climate change effects on stream flow and temperature?’ We developed a decision support process for adapting salmon recovery plans that incorporates (1) local habitat factors limiting salmon recovery, (2) scenarios of climate change effects on stream flow and temperature, (3) the ability of restoration actions to ameliorate climate change effects, and (4) the ability of restoration actions to increase habitat diversity and salmon population resilience. To facilitate the use of this decision support framework, we mapped scenarios of future stream flow and temperature in the Pacific Northwest region and reviewed literature on habitat restoration actions to determine whether they ameliorate a climate change effect or increase life history diversity and salmon resilience. Under the climate change scenarios considered here, summer low flows decrease by 35–75% west of the Cascade Mountains, maximum monthly flows increase by 10–60% across most of the region, and stream temperatures increase between 2 and 6°C by 2070–2099. On the basis of our literature review, we found that restoring floodplain connectivity, restoring stream flow regimes, and re‐aggrading incised channels are most likely to ameliorate stream flow and temperature changes and increase habitat diversity and population resilience. By contrast, most restoration actions focused on in‐stream rehabilitation are unlikely to ameliorate climate change effects. Finally, we illustrate how the decision support process can be used to evaluate whether climate change should alter the types or priority of restoration actions in a salmon habitat restoration plan. Copyright © 2012 John Wiley & Sons, Ltd.     

Impacts of water resource development on hydrological connectivity of different floodplain habitats in a highly variable system

Floodplains and their associated wetlands are important features of semiarid and arid landscapes, providing habitat and refugia for native species as well as contributing to human needs for freshwater. Globally, floodplain habitats are some of the most modified ecological communities because of water resource development and land‐use changes. However, the hydrological changes that have occurred in highly variable semiarid and arid systems are rarely quantified in a way that helps us understand the consequences for different floodplain habitat types. This study investigated changes in floodplain‐river connectivity that have occurred because of water resource development on four floodplain habitat types in the Lachlan River Catchment, Australia: (a) temporary floodplain lakes, (b) intermittent river red gum (Eucalyptus camaldulensis) swamps, (c) intermittent black box (Eucalyptus largiflorens) swamps, and (d) terminal wetlands (wetlands along distributary creeks). Changes to floodplain‐river connectivity characteristics were calculated using their commence to fill thresholds and flow scenarios derived from a river hydrology model, enabling comparison of long‐term data sets (120 years) encompassing a range of climate conditions. Connection regime metrics have changed significantly in all floodplain habitats except intermittent black box swamps. Temporary floodplain lakes have experienced the greatest reduction in number of connection events (60% reduction), followed by intermittent river red gum swamps (55% reduction). Intermittent black box swamps and terminal wetlands have experienced the least change in number of connection events (35% reduction). The nature of the change in connection suggests a change in vegetation communities will occur in response to long‐term hydrological change.     

IMPORTANCE OF FLOODPLAIN CONNECTIVITY TO FISH POPULATIONS IN THE APALACHICOLA RIVER,FLORIDA

Floodplain habitats provide critical spawning and rearing habitats for many large‐river fishes. The paradigm that floodplains are essential habitats is often a key reason for restoring altered rivers to natural flow regimes. However, few studies have documented spatial and temporal utilization of floodplain habitats by adult fish of sport or commercial management interest or assessed obligatory access to floodplain habitats for species' persistence. In this study, we applied telemetry techniques to examine adult fish movements between floodplain and mainstem habitats, paired with intensive light trap sampling of larval fish in these same habitats, to assess the relationships between riverine flows and fish movement and spawning patterns in restored and unmodified floodplain distributaries of the Apalachicola River, Florida. Our intent is to inform resource managers on the relationships between the timing, magnitude and duration of flow events and fish spawning as part of river management actions. Our results demonstrate spawning by all study species in floodplain and mainstem river habitat types, apparent migratory movements of some species between these habitats, and distinct spawning events for each study species on the basis of fish movement patterns and light trap catches. Additionally, Micropterus spp., Lepomis spp. and, to a lesser degree, Minytrema melanops used floodplain channel habitat that was experimentally reconnected to the mainstem within a few weeks of completing the restoration. This result is of interest to managers assessing restoration activities to reconnect these habitats as part of riverine restoration programmes globally. Copyright © 2012 John Wiley & Sons, Ltd.     

Population effect of a large‐scale stream restoration effort on Chinook salmon in the Pahsimeroi River,Idaho

Stream habitat restoration is an important tool for fisheries management in impaired lotic systems. Although small‐scale benefits of stream habitat restoration are commonly investigated, it is difficult to demonstrate population effects. The Pahsimeroi River Chinook salmon Oncorhynchus tshawytscha population was previously restricted to the lower portion of the river by multiple irrigation structures. To address fish passage issues, a combination of restoration projects was initiated including barrier removals, instream flow enhancements and installation of fish screens on diversions. The largest barrier was removed in 2009, more than doubling the amount of accessible linear habitat. We hypothesized restoration efforts would expand the distribution of spawning salmon in the Pahsimeroi River watershed, leading to a broader distribution of juveniles. We also hypothesized a broader juvenile distribution would have population effects by reducing the prevalence of density‐dependent growth and survival. Redds were documented in newly accessible habitat immediately following barrier removal and accounted for a median of 42% of all redds in the Pahsimeroi River watershed during 2009–2015. Snorkel surveys also documented juvenile rearing in newly accessible habitat. Juvenile productivity increased from a median of 64 smolts/female spawner for brood years 2002–2008 to 99 smolts/female spawner for brood years 2009–2014. Overall, results suggested increased habitat accessibility in the Pahsimeroi River broadened the distribution of spawning adult and rearing juvenile salmon and reduced the effects of density‐dependent survival. Large‐scale stream restoration efforts can have a population effect. Despite the large‐scale effort and response, habitat restoration alone is likely not sufficient to restore this population.     

Assessing Juvenile Salmon Rearing Habitat and Associated Predation Risk in a Lower Snake River Reservoir

Subyearling fall Chinook salmon (Oncorhynchus tshawytscha) in the Columbia River basin exhibit a transient rearing strategy and depend on connected shoreline habitats during freshwater rearing. Impoundment has greatly reduced the amount of shallow‐water rearing habitat that is exacerbated by the steep topography of reservoirs. Periodic dredging creates opportunities to strategically place spoils to increase the amount of shallow‐water habitat for subyearlings while at the same time reducing the amount of unsuitable area that is often preferred by predators. We assessed the amount and spatial arrangement of subyearling rearing habitat in Lower Granite Reservoir on the Snake River to guide future habitat improvement efforts. A spatially explicit habitat assessment was conducted using physical habitat data, two‐dimensional hydrodynamic modelling and a statistical habitat model in a geographic information system framework. We used field collections of subyearlings and a common predator [smallmouth bass (Micropterus dolomieu)] to draw inferences about predation risk within specific habitat types. Most of the high‐probability rearing habitat was located in the upper half of the reservoir where gently sloping landforms created low lateral bed slopes and shallow‐water habitats. Only 29% of shorelines were predicted to be suitable (probability >0.5) for subyearlings, and the occurrence of these shorelines decreased in a downstream direction. The remaining, less suitable areas were composed of low‐probability habitats in unmodified (25%) and riprapped shorelines (46%). As expected, most subyearlings were found in high‐probability habitat, while most smallmouth bass were found in low‐probability locations. However, some subyearlings were found in low‐probability habitats, such as riprap, where predation risk could be high. Given their transient rearing strategy and dependence on shoreline habitats, subyearlings could benefit from habitat creation efforts in the lower reservoir where high‐probability habitat is generally lacking. Published 2015. This article is a U.S. Government work and is in the public domain in the USA.     

ESTIMATION OF JUVENILE SALMON HABITAT IN PACIFIC RIM RIVERS USING MULTISCALAR REMOTE SENSING AND GEOSPATIAL ANALYSIS

We conducted a regional classification and analysis of riverine floodplain physical features that represent key attributes of salmon rearing habitats. Riverine habitat classifications, including floodplain area and river channel complexity, were derived at moderate (30 m) spatial resolution using multispectral Landsat imagery and global terrain data (90 m) encompassing over 3 400 000 km² and most North Pacific Rim (NPR) salmon rivers. Similar classifications were derived using finer scale (i.e. ≤ 2.4‐m resolution) remote sensing data over a smaller set of 31 regionally representative flood plains. A suite of physical habitat metrics (e.g. channel sinuosity, nodes, floodplain width) were derived from each dataset and used to assess the congruence between similar habitat features at the different spatial scales and to evaluate the utility of moderate scale geospatial data for determining abundance of selected juvenile salmon habitats relative to fine scale remote sensing measurements. The resulting habitat metrics corresponded favorably (p < 0.0001) between the moderate scale and the fine scale floodplain classifications; a subset of these metrics (channel nodes and maximum floodplain width) also were strong indicators (R² > 0.5, p < 0.0001) of floodplain habitats defined from the finer scale analysis. These relationships were used to estimate the abundance and distribution of three critical shallow water floodplain habitats for juvenile salmon (parafluvial and orthofluvial springs, and shallow shore) across the entire NPR domain. The resulting database provides a potential tool to evaluate and prioritize salmon conservation efforts both within individual river systems and across major catchments on the basis of physical habitat distribution and abundance. Copyright © 2011 John Wiley & Sons, Ltd.     

MODELLING CHANGES IN SALMON HABITAT ASSOCIATED WITH RIVER CHANNEL RESTORATION AND FLOW‐INDUCED CHANNEL ALTERATIONS

The River2D two‐dimensional hydraulic and habitat model was used to simulate fall‐run Chinook salmon (Oncorhynchus tschawytscha) spawning and fry and juvenile rearing habitat of the first phase of a stream channel restoration project on Clear Creek, California. Habitat was simulated for a range of stream flows: (1) before restoration; (2) based on the restoration design; (3) immediately after restoration; and (4) after one and two large flow events. Hydraulic and structural data were collected for three sites before restoration, and prerestoration habitat was simulated. Habitat simulated for these sites was extrapolated to the prerestoration area based on habitat mapping. The topographical plan for the restoration was used to simulate the anticipated habitat after restoration. Although the restoration increased spawning habitat, it was less successful for rearing habitat. Channel changes associated with high‐flow events did not entirely negate the benefits of the restoration project. The results of this study point out the need for models that can simulate the changes in channel topography associated with high‐flow events, which could then be used to simulate habitat over time. Published 2013. This article is a U.S. Government work and is in the public domain in the USA.     

Increasing the availability and spatial variation of spawning habitats through ascending baseflows

Precipitation in fall and winter is important to recharge aquifers in Northern California and the Pacific Northwestern United States, causing the baseflow in rivers ascend during the time when Chinook salmon (Oncorhynchus tshawytscha) construct redds. Herein, we evaluate the availability of spawning habitats under a constant streamflow common in regulated rivers against ascending baseflows patterned from free‐flowing rivers. A binomial logistic regression model was applied to predict the suitability of redd locations based on physical characteristics. Next, two‐dimensional hydrodynamic habitat models were developed at two locations representing a broad range of channel forms common in large rivers. Hydrodynamic and habitat models were leveraged together to simulate the quality, amount, and spatial distribution of spawning habitat at a series of individual flow rates, as well as the combined effect of those flow rates through a spawning season with ascending baseflows. Ascending baseflows increased the abundance of spawning habitat over individual streamflows at a site where the river channel is confined by levee‐like features. However, improvements were greater at an unconfined site that facilitated lateral connectivity and greater expansion of wetted channel area as streamflows increased. Ascending baseflows provided spatial separation in preferred habitats over a spawning season, which may reduce the risk of superimposition among runs or among species. Ascending baseflows provided a benefit across the range of hydrologic regimes in a 100‐year gauge record ranging from 20% to 122% improvements in habitat area over low streamflows that are currently used to manage for spawning habitat. Although replicating natural flow regimes in managed systems can be impossible or impractical, these results demonstrate that incorporating elements of the natural flow regime like ascending baseflows can benefit the restoration and conservation of riverine species.     

Seasonal Rearing Habitat in a Large Mediterranean‐Climate River: Management Implications at the Southern Extent of Pacific Salmon (Oncorhynchus spp.)

Pacific salmon (Oncorhynchus) use a variety of rearing environments prior to seaward migration, yet large river habitats and their use have not been well defined, particularly at the southernmost salmon range where major landscape‐level alterations have occurred. We explored juvenile Chinook salmon (Oncorhynchus tshawytscha) and steelhead (Oncorhynchus mykiss) presence along the river continuum and in main‐channel and off‐channel habitats of a regulated California Mediterranean‐climate river. Over an 8‐year period, off‐channels of the lower Mokelumne River exhibited slower and warmer water than the main‐channel. Probability of salmonid presence varied by stream reach and habitat types. Steelhead and Chinook salmon both demonstrated transitional responses to the dry season, with juveniles leaving off‐channels by midsummer. This corresponded to flow recession, increasing water temperatures, salmonid growth and end of emigration period. Main‐channel steelhead observations continued until the following storm season, which brought cool flood flows to reconnect off‐channels and the next juvenile cohort of both species to the river. Within arid climates, low‐gradient off‐channels appear more transiently used than in cooler and more northern humid climate systems. Within a highly regulated Mediterranean‐climate river, off‐channel habitats become increasingly scarce, disconnected or temperature limiting in low‐gradient reaches both seasonally and due to anthropogenic modifications. These observations may provide guidance for future management within large salmon streams. Copyright © 2015 John Wiley & Sons, Ltd.     

Hydrologic connectivity and land cover affect floodplain lake water quality,fish abundance,and fish diversity in floodplain lakes of the Wabash-White River basin

Floodplain lakes are important aquatic resources for supporting ecosystem services, such as organismal habitat, biodiversity, and the retention of nutrients and sediment. Due to geomorphic alteration of river channels and land-cover change, degradation to floodplain lakes in the Ohio River basin is occurring at a rate that will escalate as climate change causes increased flood intensity and the seasonal redistribution of rainfall. A better understanding of the local drivers that affect oxbow lakes is needed for targeted floodplain restoration efforts designed to slow degradation. We examined the effects of land cover, topography, and hydrologic connectivity on water quality and fish diversity and abundance in nine floodplain lakes with potentially high remnant ecological function in the Wabash-White watershed (Indiana, Ohio, and Illinois). Data collection included water-quality parameters; stable water isotopes; total phosphorus, total nitrogen, and chlorophyll-a; and fish community diversity and abundance. Results indicate that hay/pasture land cover and decreased topographic relief in the local oxbow watersheds, along with reduced river hydrologic connectivity, were related to an increase in total phosphorus, total nitrogen, and chlorophyll-a. Greater biodiversity and abundance in fish assemblages were evident in oxbow lakes that were more disconnected from the main channel. The results of this study suggest that hydrologic connectivity of oxbow lakes with the contributing drainage area and the main channel influence nutrients and fish communities. Knowing the influencing factors can help ecosystem managers better protect these valuable floodplain lake ecosystems and prioritize restoration efforts amidst increasing stressors due to climate and land-use changes.     

Juvenile Salmonid Utilization of Floodplain Rearing Habitat After Gravel Augmentation in a Regulated River

Gravel augmentation is used in sediment‐starved streams to improve salmonid spawning habitat. As gravel is added to river channels, water surface elevations may rise in adjacent areas, activating floodplain habitat at lower flows, and floodplains inundate more frequently, potentially affecting the quantity and quality of juvenile salmonid rearing habitat. We analysed 5 years of juvenile Chinook salmon Oncorhynchus tschawytscha and steelhead Oncorhynchus mykiss data from snorkel surveys before and after gravel augmentation in the Lower American River, a low‐gradient, highly regulated alluvial river in California's Central Valley. We measured the quality and quantity of rearing habitat (current velocity and areal extent of inundated riparian vegetation) following gravel placement and tested whether these factors affected juvenile abundance. Gravel augmentation increased floodplain extent by 3.7–19.8%, decreased average flow velocity from 1.6 to 0.3 m s^?1 and increased the amount of vegetative cover from 0.3% to 22.6%. Juvenile abundances increased significantly for both species following augmentation. However, the strength of the relationship between abundance and habitat variables was greater for smaller salmonids. These results suggest that, in addition to enhancing salmonid spawning habitat, gravel augmentation can improve rearing habitat where channel incision and/or regulated hydrographs disconnect floodplains from main river channels. Copyright © 2015 John Wiley & Sons, Ltd.     

Explaining Spatial Patterns of Mussel Beds in a Northern California River: The Role of Flood Disturbance and Spawning Salmon

Despite considerable effort, predicting habitat preferences for freshwater mussels has remained elusive. This study identified four parameters that correlate with bed stability to decipher fine‐scale spatial patterning of habitat use by the western pearl shell mussel (Margaritifera falcata) in the Trinity River of Northern California. Logistic regression analysis correctly predicted the occurrence of 83% of mussel bed areas based on water depth, velocity, substrate size, and distance to the stream bank as estimated from hydrodynamic modelling of low‐flow conditions. These parameters coincide with bed stability at high flow and provide support for the ‘refugia hypothesis’. Our data clearly demonstrate that mussel beds occupied the most stable portions of the riverbed; however, habitat was partitioned with one of their primary host fish, Chinook salmon (Oncorhynchus tshawytscha), a species that also requires stable bed areas for spawning. Mussels occupied significantly deeper and lower velocity areas that were closer to the streambank compared with spawning salmon, but where habitats directly overlapped (30% of potential mussel habitat) mussels were excluded because the act of spawning disturbs the riverbed. By necessity, mussels and salmon must co‐exist, but results of this study indicate that they compete for stable bed areas that may be limiting in dynamic river systems. Copyright © 2015 John Wiley & Sons, Ltd.     

Influence of Hydrological Connectivity on Plankton Communities in Natural and Reconstructed Side‐Arms of a Large New Zealand River

We sampled natural and reconstructed side‐arms during different stages of hydrological connectivity with a large floodplain river in northern New Zealand, to determine whether re‐establishment of connectivity would be an effective strategy for restoring plankton communities in former side‐arms. Connectivity between side‐arms and the river was moderated by water level and influenced flow rates and closure of inlets and outlets. Physicochemical conditions were more strongly related to the connectivity phase than to habitat type (river, natural or reconstructed side‐arm), except during low connectivity when natural side‐arms in particular were characterised by higher ammonium (NH₄‐N) and total phosphorus (P) concentrations, as well as specific conductivity. Dissolved reactive phosphorus (PO₄‐P), water temperature, conductivity and dissolved oxygen were identified as explanatory variables of phytoplankton and zooplankton community composition, which along with total nitrogen (phytoplankton) or total suspended solids (zooplankton) explained 44–52% of variation. Phytoplankton community composition and the abundance of several dominant or discriminatory taxa were affected by connectivity but not habitat type, whereas habitat and connectivity both had significant effects on zooplankton communities and abundances of the cladoceran Bosmina meridionalis. Significant interactions between connectivity and paired habitat types occurred for abundances of the diatom Asterionella, the cryptophyte Cryptomonas, the rotifer Synchaeta oblonga and cyclopoid copepods, reflecting differential responses to connectivity among habitats by these taxa. Overall, these results underscore the importance of hydrological connectivity between side‐arms and rivers in moderating plankton community composition, and highlight unpredictable trajectories of community development and alternative transient states that can occur soon after side‐arm reconnection. Copyright © 2016 John Wiley & Sons, Ltd.     

FISH HABITAT OPTIMIZATION TO PRIORITIZE RIVER RESTORATION DECISIONS

This paper examines and ranks restoration alternatives for improving fish habitat by evaluating tradeoffs between fish production and restoration costs. Optimization modelling is used to maximize out‐migrating coho salmon (Oncorhynchus kisutch) from a natal stream and is applied as a case study in California's Shasta River. Restoration activities that alter flow and water temperature conditions are the decision variables in the model and include relocating a major diversion, increasing riparian shading, increasing instream flow, restoring a cool‐water spring and removing a dam. A budget constraint limits total restoration expenditures. This approach combines simple fish population modelling with flow and water quality modelling to explore management strategies and aid decision making. Previous fish habitat optimization research typically uses single restoration strategies, usually by altering reservoir releases or modifying outlet structures. Our method enlarges the solution space to more accurately represent extensive and integrated solutions to fish habitat problems. Results indicate that restoration alternatives can be prioritized by fish habitat improvement and restoration cost. For the Shasta River case study, considerable habitat restoration investments were required before fish productivity increased substantially. This exercise illustrates the potential of ecological optimization for highlighting promising restoration approaches and dismissing poor alternatives. Copyright © 2011 John Wiley & Sons, Ltd.     

Integrating remotely acquired and field data to assess effects of setback levees on riparian and aquatic habitats in glacial‐melt water rivers

Setback levees, in which levees are reconstructed at a greater distance from a river channel, are a promising restoration technique particularly for alluvial rivers with broad floodplains where river‐floodplain connectivity is essential to ecological processes. Documenting the ecological outcomes of restoration activities is essential for assessing the comparative benefits of different restoration approaches and for justifying new restoration projects. Remote sensing of aquatic habitats offers one approach for comprehensive, objective documentation of river and floodplain habitats, but is difficult in glacial rivers because of high suspended‐sediment concentrations, braiding and a lack of large, well‐differentiated channel forms such as riffles and pools. Remote imagery and field surveys were used to assess the effects of recent and planned setback levees along the Puyallup River and, more generally, the application of multispectral imagery for classifying aquatic and riparian habitats in glacial‐melt water rivers. Airborne images were acquired with a horizontal ground resolution of 0.5 m in three spectral bands (0.545–0.555, 0.665–0.675 and 0.790–0.810 µm) spanning from green to near infrared (NIR) wavelengths. Field surveys identified river and floodplain habitat features and provided the basis for a comparative hydraulic analysis. Broad categories of aquatic habitat (smooth and rough water surface), exposed sediment (sand and boulder) and vegetated surfaces (herbaceous and deciduous shrub/forest) were classified accurately using the airborne images. Other categories [e.g. conifers, boulder, large woody debris (LWD)] and subdivisions of broad categories (e.g. riffles and runs) were not successfully classified either because these features did not form large patches that could be identified on the imagery or their spectral reflectances were not distinct from those of other habitat types. Airborne imagery was critical for assessing fine‐scale aquatic habitat heterogeneity including shallow, low‐velocity regions that were not feasible or practical to map in the field in many cases due to their widespread distribution, small size and poorly defined boundaries with other habitat types. At the reach‐scale, the setback levee affected the amount and distribution of riparian and aquatic habitats: (1) the area of all habitats was greater where levees had been set back and with relatively more vegetated floodplain habitat and relatively less exposed sediment and aquatic habitat, (2) where levees confine the river, less low‐velocity aquatic habitat is present over a range of flows with a higher degree of bed instability during high flows. As river restoration proceeds in the Pacific Northwest and elsewhere, remotely acquired imagery will be important for documenting its effects on the amount and distribution of aquatic and floodplain habitats, complimenting field data as a quantitative basis for evaluating project efficacy. Copyright © 2008 John Wiley & Sons, Ltd.     

Streamflow alteration and habitat ramifications for a threatened fish species in the Central United States

In the Central United States, the Arkansas darter (Etheostoma cragini) is listed as a threatened fish species by the State of Kansas. Survival of the darter is threatened by loss of habitat caused by changing streamflow conditions, in particular flow depletion. Future management of darter populations and habitats requires an understanding of streamflow conditions and how those conditions may have changed over time in response to natural and anthropogenic factors. In Kansas, streamflow alteration was assessed at 9 U.S. Geological Survey streamgages in 6 priority basins with no pronounced long‐term trends in precipitation. The assessment was based on a comparison of observed (O) and predicted expected (E) reference conditions for 29 flow metrics. The O/E results indicated a likely or possible diminished flow condition in 2 basins; the primary cause of which is groundwater‐level declines resulting from groundwater pumping for irrigated agriculture. In these 2 basins, habitat characteristics adversely affected by flow depletion may include stream connectivity, pools, and water temperature. The other 4 basins were minimally affected, or unaffected, by flow depletion and therefore may provide the best opportunity for preservation of darter habitat. Through the O/E analysis, anthropogenic streamflow alteration was quantified and the results will enable better‐informed decisions pertaining to the future management of darters in Kansas.     

Fatty Acid Profiles Distinguish Channel Catfish from Three Reaches of the Lower Kaskaskia River and its Floodplain Lakes

Despite the increasing use of fatty acids (FAs) as biomarkers in aquatic food web analysis, little information is available regarding differences in FA profiles of fish among habitat types in river–floodplain ecosystems. The objectives of this study were to (i) test whether the FA profiles of channel catfish (Ictalurus punctatus) differed among three reaches of the lower Kaskaskia River and its floodplain lakes, and (ii) to compare FA profiles among muscle, liver, and adipose fin tissues collected from these fish. Profiles differed significantly among sites, especially between upper and lower river sites, and between river channel and oxbow lake sites, suggesting differences in FA availability for channel catfish occupying different habitats and river reaches in the Kaskaskia River system. Specifically, the essential FAs 18:2n‐6 and 18:3n‐3 increased in catfish tissues from upstream to downstream reaches, which could reflect increased floodplain connectivity and decreasing impoundment effects downstream. Ratios of n‐3 to n‐6 FAs were higher in fish from oxbow lakes, perhaps suggesting increased use of autochthonous production in the floodplain relative to the main river channel. Muscle and adipose fin FA profiles exhibited similar location‐related trends, whereas liver FA profiles were markedly different from the other tissue types. These results suggest that adipose fin tissue samples may be a viable, less‐invasive alternative to muscle tissue for analysis of FA profiles in channel catfish. Our study supports the use of tissue FA profiles in identifying habitat utilization by channel catfish, and perhaps habitat‐specific energy contributions to riverine consumers. Furthermore, our work highlights floodplain habitat as a potential source of essential n‐3 FA and the associated importance of maintaining river–floodplain connectivity to support aquatic food webs. Copyright © 2014 John Wiley & Sons, Ltd.     

Influences of valley form and land use on large river and floodplain habitats in Puget Sound

In this paper, we use a system‐wide census of large river and floodplain habitat features to evaluate influences of valley form and land use on salmon habitats along 2,237 km of river in the Puget Sound region of Washington State, USA. We classified the study area by geomorphic process domains to examine differences in natural potential to form floodplain habitats among valley types, and by dominant land cover to examine land use influences on habitat abundance and complexity. We evaluated differences in aquatic habitat among strata in terms of metrics that quantify the length of main channels, side channels, braid channels, and area of wood jams. Among geomorphic process domains, habitat metrics standardized by main channel length were lowest in canyons where there is limited channel migration and less potential to create side channels or braids, and highest in post‐glacial and mountain valleys where island‐braided channels tend to form. Habitat complexity was lower in glacial valleys (generally meandering channels) than in post‐glacial valleys. Habitat abundance and complexity decreased with increasing degree of human influence, with all metrics being highest in areas classified as forested and lowest in areas classified as developed. Using multiple‐year aerial photography, we assessed the ability of our methods to measure habitat changes through time in the Cedar and Elwha Rivers, both of which have recent habitat restoration activity. We were able to parse out sources of habitat improvement or degradation through time, including natural processes, restoration, or development. Our investigation indicates that aerial photography can be an effective and practical method for regional monitoring of status and trends in numerous habitats.     

Benthic invertebrate assemblages and species diversity patterns of the Upper Paraguay River

This paper presents the first study of the benthic invertebrate assemblages of the upper section of the Paraguay River, a major tributary to the Pantanal wetland in Brazil. Thirty‐eight sites were sampled along a 200 km section below the city of Cáceres in November 2000. Sixty‐nine species and morphospecies were identified, which were dominated by Oligochaeta and Chironomidae. Mean density of benthic invertebrates varied between 72 and 10 354 m^?2 in the meandering sector of the river, 3611–49 629 m^?2 in the straight–transitional sectors, 682–5962 m^?2 in the floodplain lakes, and 1704–2208 m^?2 in floodplain channels. Highest densities were attained in sand‐gravel sediments dominated by the psammophilous oligochaete Narapa bonettoi. The Shannon diversity index ranged from 0.75 to 2.08 and was highest in floodplain lakes. Statistical analysis (UPGMA and CCA) revealed that benthic assemblages in the floodplain habitats were clearly distinct from the riverine habitats. In the river channel, the habitats were distinguished by grain size while the floodplain habitats were mostly determined by current and silt‐clay concentration (floodplain channels) or by organic matter concentration (floodplain lakes). Conservation efforts in the Upper Paraguay area should aim to maintain the flood pulse as a permanent source of spatial and temporal habitat heterogeneity. Copyright © 2005 John Wiley & Sons, Ltd.     

WATER TEMPERATURE PATTERNS BELOW LARGE GROUNDWATER SPRINGS: MANAGEMENT IMPLICATIONS FOR COHO SALMON IN THE SHASTA RIVER,CALIFORNIA

Elevated stream temperature is a primary factor limiting the coho salmon (Oncorhynchus kisutch) population in California's Shasta River Basin. Understanding the mechanisms driving spatial and temporal trends in water temperature throughout the Shasta River is critical to prioritising river restoration efforts aimed at protecting this threatened species. During the summer, the majority of streamflow in the Shasta River comes from large‐volume, cold‐water springs at the head of the tributary Big Springs Creek. In this study, we evaluated the initial character of this spring water, as well as the downstream fate and transport of these groundwater inflows during July and August 2008. Our results indicated that Big Springs Creek paradoxically provided both cool and warm waters to the Shasta River. During this period, cool groundwater inflows heated rapidly in the downstream direction in response to thermal loads from incoming solar radiation. During the night time, groundwater inflows did not appreciably heat in transit through Big Springs Creek. These diurnally varying water temperature conditions were inherited by the Shasta River, producing longitudinal temperature patterns that were out of phase with ambient meteorological conditions up to 23 km downstream. Findings from this study suggest that large, constant temperature spring sources and spring‐fed rivers impart unique stream temperature patterns on downstream river reaches that can determine reach‐scale habitat suitability for cold‐water fishes such as coho salmon. Recognising and quantifying the spatiotemporal patterns of water temperature downstream from large spring inflows can help identify and prioritize river restoration actions in locations where temperature patterns will allow rearing of cold‐water fishes. Copyright © 2013 John Wiley & Sons, Ltd.