Rosealea M. Bond

Recent work has revealed the importance of contemporary evolution in shaping ecological outcomes. In particular, rapid evolutionary divergence between populations has been shown to impact the ecology of populations, communities, and ecosystems. While studies have focused largely on the role of adaptive divergence in generating ecologically important variation among populations, much less is known about the role of gene flow in shaping ecological outcomes. After divergence, populations may continue to interact through gene flow, which may influence evolutionary and ecological processes. Here, we investigate the role of gene flow in shaping the contemporary evolution and ecology of recently diverged populations of anadromous steelhead and resident rainbow trout (Oncorhynchus mykiss). Results show that resident rainbow trout introduced above waterfalls have diverged evolutionarily from downstream anadromous steelhead, which were the source of introductions. However, the movement of fish from above to below the waterfalls has facilitated gene flow, which has reshaped genetic and phenotypic variation in the anadromous source population. In particular, gene flow has led to an increased frequency of residency, which in turn has altered population density, size structure, and sex ratio. This result establishes gene flow as a contemporary evolutionary process that can have important ecological outcomes. From a management perspective, anadromous steelhead are generally regarded as a higher conservation priority than resident rainbow trout, even when found within the same watershed. Our results show that anadromous and resident O. mykiss populations may be connected via gene flow, with important ecological consequences. Such eco‐evolutionary processes should be considered when managing recently diverged populations connected by gene flow.

Measuring river response to dam removal affords a rare, important opportunity to study fluvial response to sediment pulses on a large field scale. We present a before–after/control–impact study of the Carmel River, California, measuring fluvial geomorphic and grain‐size evolution over 8 years, six of which postdated removal of a 32 m‐high dam (one of the largest dams removed worldwide) and included 11 flow events exceeding the 2‐year flood magnitude. We find that the reservoir‐sediment pulse following dam removal was relatively small (97 000 ± 24 000 t over 4 years), owing to deliberate reservoir‐sediment stabilization. Scaled to the size of the Carmel River watershed and compared against long‐term bedrock denudation rates, the post‐dam‐removal sediment release was slightly less than the annualized long‐term sediment export from this basin. New sediment transited >30 km to the river mouth in less than 2 years, assisted by floods 2 and 4 years after dam removal. The sediment pulse fined the downstream riverbed while causing mostly low‐magnitude bed‐elevation changes: commonly 0.5 to 1 m or smaller, occurring as discontinuous sediment patches or interstitial deposits, aside from the filling and subsequent partial scour of deep pools. There was no major geomorphic reset downstream from the dam site. Geomorphic changes were driven almost entirely by flow rather than by the modest increase in sediment supply, in contrast to recent examples from other large dam removals. The relatively minor disturbance caused by dam removal on the Carmel River is likely analogous to many future dam removals: a relatively small sediment pulse after deliberate limitation of reservoir‐sediment erosion, and with an upstream dam remaining in place. Thus, a large dam removal need not lead to major downstream impacts.

Historically, anadromous steelhead Oncorhynchus mykiss and spring‐run Chinook Salmon O. tshawytscha used high‐elevation rivers in the Sierra Nevada of California but were extirpated in the 20th century by construction of impassable dams. Plans to reintroduce the fish by opening migratory passage across the dams and reservoirs can only succeed if upstream habitats have the capacity to support viable populations of each species. To estimate capacity in the Tuolumne and Merced rivers of the central Sierra Nevada, we used a high‐resolution approach based on remote sensing and dynamic habitat modeling. Our results suggested that for both species in both systems, sediment grain sizes would support widespread spawning and the water temperatures, depths, and velocities would generate ample capacity for fry and juveniles. However, the unregulated Merced River was consistently too warm for adult Chinook Salmon to hold in the dry season prior to spawning, while the regulated Tuolumne River maintained a cooler, more stable thermal regime with a capacity for thousands of holding adults. In our high‐resolution approach, we also discovered several specific physical controls on life history expression, including thermal constraints on the timing of spawning, hydraulic prompts for downstream migration of fry, divergence of the hydraulic niches of steelhead and Chinook Salmon, and a key but uncertain role for thermal tolerance in adult Chinook Salmon. Our results suggested that steelhead reintroduction could succeed in either system and Chinook Salmon could succeed in the Tuolumne River if passage strategies account for large numbers of migrant fry and juveniles driven downstream by winter storms and snowmelt. The Merced River appeared too warm for adult Chinook Salmon, which raises questions about the current limited understanding of thermal tolerance in holding adults. Our study shows how a high‐resolution approach can provide valuable insights on specific limiting factors that must be addressed for reintroduction to succeed.

In California (USA), seasonal lagoons provide important oversummer rearing habitat for juvenile steelhead trout (anadromous Oncorhynchus mykiss). However, key water quality parameters such as temperature and dissolved oxygen concentration can periodically approach or exceed the physiological tolerances of steelhead during the protracted dry season. A field study employing distributed temperature sensing technology, water quality monitoring, habitat mapping, and mark-recapture sampling was conducted to examine how shifting environmental conditions affected the performance and behavior of juvenile steelhead in the Scott Creek estuary/lagoon (Santa Cruz County). Abiotic conditions were driven by episodic inputs of seawater to the typically freshwater lagoon. During midsummer, the water column was vertically stratified which reduced suitable lagoon rearing habitat by approximately 40%. Nevertheless, steelhead abundance, growth, and condition factor were high during the summer and decreased in autumn following lagoon destratification and cooling. Unlike previous work, this study identified limited emigration from the lagoon to riverine habitat during the summer. Instead, juvenile steelhead exhibited crepuscular movement patterns within the lagoon, with peaks in upstream (to upper lagoon habitat) and downstream (to lower lagoon habitat) movement occurring at dawn and dusk, respectively. This study underscores that habitat complexity and connectivity are critical for juvenile steelhead production and persistence and provides insight into steelhead habitat use and behavior in seasonal lagoons.

Large‐scale river restoration programs have emerged recently as a tool for improving spawning habitat for native salmonids in highly altered river ecosystems. Few studies have quantified the extent to which restored habitat is utilized by salmonids, which habitat features influence redd site selection, or the persistence of restored habitat over time. We investigated fall‐run Chinook salmon spawning site utilization and measured and modeled corresponding habitat characteristics in two restored reaches: a reach of channel and floodplain enhancement completed in 2013 and a reconfigured channel and floodplain constructed in 2002. Redd surveys demonstrated that both restoration projects supported a high density of salmon redds, 3 and 14 years following restoration. Salmon redds were constructed in coarse gravel substrates located in areas of high sediment mobility, as determined by measurements of gravel friction angles and a grain entrainment model. Salmon redds were located near transitions between pool‐riffle bedforms in regions of high predicted hyporheic flows. Habitat quality (quantified as a function of stream hydraulics) and hyporheic flow were both strong predictors of redd occurrence, though the relative roles of these variables differed between sites. Our findings indicate that physical controls on redd site selection in restored channels were similar to those reported for natural channels elsewhere. Our results further highlight that in addition to traditional habitat criteria (e.g., water depth, velocity, and substrate size), quantifying sediment texture and mobility, as well as intragravel flow, provides a more complete understanding of the ecological benefits provided by river restoration projects.

Over the last three decades, passive integrated transponder (PIT) tags have been widely used to study fish populations. Interpretation of PIT tag detections, however, can be confounded by the presence of ghost tags, tags liberated when a fish dies. We used a combination of mobile antenna surveys, stationary antenna detections, and multistate mark–recapture modeling to assess the abundance and fate of ghost tags in a coastal California watershed. Accumulation of ghost tags from released hatchery-origin coho salmon (Oncorhynchus kisutch) smolts was substantial during California’s recent drought, with 2224 ghost tags identified during mobile reader surveys. Between surveys, PIT tags moved downstream a median distance of 346 m and a maximum distance of 1982 m. Stationary antenna array detections indicated that these movements occurred during high-flow events, concurrent with live fish movement. The multistate model estimated that, during winter, approximately 40% of tags were buried in the substrate beyond the read range of mobile readers. Failure to account for transport and burial dynamics of ghost tags can lead to biased estimates of fish abundance, survival, and movement.

Dam removal provides a valuable opportunity to measure the fluvial response to changes in both sediment supply and the processes that shape channel morphology. We present the first study of river response to the removal of a large (32‐m‐high) dam in a Mediterranean hydroclimatic setting, on the Carmel River, coastal California, USA. This before‐after/control‐impact study measured changes in channel topography, grain size, and salmonid spawning habitat throughout dam removal and subsequent major floods. During dam removal, the river course was re‐routed in order to leave most of the impounded sediment sequestered in the former reservoir and thus prevent major channel and floodplain aggradation downstream. However, a substantial sediment pulse occurred in response to base‐level fall, knickpoint migration, and channel avulsion through sediment in the former reservoir above the newly re‐routed channel. The sediment pulse advanced ~3.5 km in the first wet season after dam removal, resulting in decreased riverbed grain size downstream of the dam site. In the second wet season after dam removal, high flows (including a 30‐year flood and two 10‐year floods) transported sediment > 30 km downstream, filling pools and reducing cross‐channel relief. Deposition of gravel in the second wet season after dam removal enhanced salmonid spawning habitat downstream of the dam site. We infer that in dam removals where most reservoir sediment remains impounded and where high flows follow soon after dam removal, flow sequencing becomes a more important driver of geomorphic and fish‐habitat change than the dam removal alone. © 2018 John Wiley & Sons, Ltd.