Migratory patterns of lower Feather River natural and hatchery-origin Oncorhynchus mykiss

Oncorhynchus mykiss are known to exhibit variable life histories expressed under genetic control or through the influence of the environment. Altered environmental conditions and the presence of large numbers of non-indigenous hatchery fish can affect the rate of anadromy observed in California’s Central Valley O. mykiss. The lower Feather River, a large regulated river in Northern California, supports one of the largest populations of O. mykiss in the Central Valley, heavily subsidized by hatchery production. I examined downstream migratory behavior, movement rate, and success of natural-origin juveniles, natural-origin adults, and hatchery-origin fish using acoustic telemetry. I found that all three groups displayed a mix of migratory and non-migratory life histories. Hatchery-origin adults exhibited more migratory behavior (anadromy) than natural-origin juveniles and natural-origin adults, 41 %, 24 %, and 13 % respectively. Downstream migrants were also significantly larger than non-migratory fish. Migration timing was similar among the three groups, but natural-origin juveniles displayed the most rapid rate of movement. The relative success of each group was highest for fish migrating through the Sacramento-San Joaquin Delta to the Pacific Ocean. Hatchery-origin adults migrating through the lower Feather River showed the lowest relative success (33 %). The dominance of non-migratory life histories pattern among lower Feather River O. mykiss may be in response to the suitable habitat provided by hypolimnetic releases below dams and the current hydrological regime within the highly altered Sacramento-San Joaquin watershed.     

Use of genetic tags to identify captive-bred pallid sturgeon (<Emphasis Type="Italic">Scaphirhynchus albus</Emphasis>) in the wild: improving abundance estimates for an endangered species

The ability to distinguish captive-bred and natural-origin individuals in the wild is critical for evaluating the impact of captive breeding programs on natural populations. Continued persistence of endangered pallid sturgeon (Scaphirhynchus albus) in the Missouri River is largely dependent on captive breeding efforts that spawn natural-origin adults in fish hatcheries and release their progeny into the wild. Prior to release, hatchery-origin individuals are physically marked so they can be distinguished from natural-origin individuals when recaptured. During the years 2004–2006, 24 unmarked juvenile pallid sturgeon tissue samples were collected in the Missouri River downstream of Gavins Point Dam, South Dakota, USA that were presumed natural-origin. However, these individuals were similar in size to hatchery-origin fish released in this area raising concerns that these individuals were actually hatchery-origin fish with lost or malfunctioning tags. We used microsatellite based parentage analysis to determine if the unmarked fish were members of hatchery families that had been released in this area. This retrospective genetic tagging approach revealed that 23 of 24 unmarked fish were indeed hatchery-origin. The origin of the remaining individual remains unknown because genetic samples were not available from all of the families released below the dam and the unassigned fish may have originated from one of these un-sampled families. These results provide important insight into the conservation status of endangered pallid sturgeon as well as provide data important for guiding management decisions. Our results also demonstrate the efficacy of using genetic tags as an alternative or complimentary approach to physically marking individuals.     

Radio‐telemetry shows differences in the behaviour of wild and hatchery‐reared European grayling Thymallus thymallus in response to environmental variables

Juvenile wild and hatchery‐reared European grayling Thymallus thymallus were tagged with radio‐transmitters and tracked in the Blanice River, River Elbe catchment, Czech Republic, to study their behavioural response to stocking and environmental variation. Both wild and hatchery‐reared T. thymallus increased their diel movements and home range with increasing light intensity, flow, temperature and turbidity, but the characteristics of their responses differed. Environmental variables influenced the movement of wild T. thymallus up to a specific threshold, whereas no such threshold was observed in hatchery‐reared T. thymallus. Hatchery‐reared fish displayed greater total migration distance over the study period (total migration) than did wild fish, which was caused mainly by their dispersal in the downstream direction.     

Diel movements of out-migrating Chinook salmon (Oncorhynchus tshawytscha) and steelhead trout (Oncorhynchus mykiss) smolts in the Sacramento/San Joaquin watershed

We used ultrasonic telemetry to describe the movement patterns of late-fall run Chinook salmon (Oncorhynchus tshawytscha) and steelhead trout (O. mykiss) smolts during their entire emigration down California’s Sacramento River, through the San Francisco Bay Estuary and into the Pacific Ocean. Yearling hatchery smolts were tagged via intracoelomic surgical implantation with coded ultrasonic tags. They were then released at four upriver locations in the Sacramento River during the winters of 2007 through 2010. Late-fall run Chinook salmon smolts exhibited a nocturnal pattern of migration after release in the upper river. This is likely because individuals remain within a confined area during the day, while they become active at night and migrate downstream. The ratio between night and day detections of Chinook salmon smolts decreased with distance traveled downriver. There was a significant preference for nocturnal migration in every reach of the river except the Estuary. In contrast, steelhead smolts, which reside upriver longer following release, exhibited a less pronounced diel pattern during their entire migration. In the middle river, Delta, and Estuary, steelhead exhibited a significant preference for daytime travel. In the ocean Chinook salmon preferred to travel at night, yet steelhead were detected on the monitors equally during the night and day. These data show that closely related Oncorhynchus species, with the same ontogenetic pattern of out-migrating as yearlings, vary in migration tactic.     

Post-spawn migrations of hatchery-origin Oncorhynchus mykiss kelts in the Central Valley of California

We used acoustic telemetry to study the post-spawn movement of Oncorhynchus mykiss kelts released in April 2005 and 2006 from the Coleman National Fish Hatchery, Anderson, CA. Following release, O. mykiss kelts demonstrated both anadromous and non-anadromous life histories, with some fish alternating life history strategies between years. Anadromy was most common, characterized by a short-term residence near the release site, followed by sustained downstream emigration once initiated. O. mykiss kelts demonstrating anadromy arrived at the Golden Gate Bridge from April to mid-July. Repeat spawning migrations of anadromous O. mykiss kelts began from late-September through October of the year of release. High fidelity back to Battle Creek was observed, occurring from late-September through November. While most O. mykiss kelts were anadromous, at least 10 % remained in freshwater, or residualized. O. mykiss kelts that residualized demonstrated two distinct patterns of movement: 1) residency near the release location, and 2) potamodromy. Overall survival was high with 36 % and 48 % of O. mykiss kelts released making a repeat spawning migration and demonstrating iteroparity in 2005 and 2006, respectively. Increase in body lengths of O. mykiss kelts that returned to the Coleman NFH were significantly greater for anadromous fish, compared to fish that residualized, but survival was higher for fish that residualized. Release of hatchery O. mykiss kelts could result in both positive and negative genetic and ecological effects to hatchery- and naturally-producing salmonids. We believe the benefits of releasing O. mykiss kelts at the Coleman NFH, including increased numbers and size of fish in the recreational fishery and genetic and demographic benefits to the hatchery brood stock outweigh the limited risk to natural populations that would result from predation and competition of the relatively small number of O. mykiss kelts that resided in fresh water.     

Effects of temperature on sexual development in steelhead,Oncorhynchus mykiss

We evaluated how genotype (stock source, parental line, chromosomal sex) and temperature interact to influence gonad development and phenotypic sex of Oncorhynchus mykiss. Embryos were generated from single pair matings of natural-origin and first-generation hatchery-origin O. mykiss held at ambient or elevated (5 °C above ambient) water temperature. Exposure to elevated temperature lasted from fertilization until the onset of exogenous feeding, after which all experimental groups were maintained at ambient temperature. Sexual phenotype was determined by histology and sexual genotype by the OmyY1 marker. There was 99% concordance among fish sexed both phenotypically and genotypically, demonstrating that experimental factors, including elevated rearing temperatures, did not result in sex change. Approximately 10% of the histologically examined fish showed no evidence of gonad development beyond the indifferent stage. Most of these fish were from hatchery family lines.

     

Hatchery practices may result in replacement of wild salmonids: adult trends in the Klamath basin,California

Appraisal of hatchery-related effects on Pacific salmonids (Oncorhynchus spp.) is a necessary component of species conservation. For example, hatchery supplementation can influence species viability by changing genetic, phenotypic and life-history diversity. We analyzed time series data for seven salmonid taxa from the Klamath River basin, California, to investigate trajectories of wild and hatchery adult populations. Linear regression coupled with randomized permutations (n?=?99,999), two- tailed t tests, and Bayesian change point analysis were used to detect trends over time. Cross correlation was also used to evaluate relationships between wild and hatchery populations. The taxa of interest were spring, fall, and late-fall Chinook Salmon (O. tshawytscha); Coho Salmon (O. kisutch); Coastal Cutthroat Trout (O. clarki clarki); and summer and hybrid Steelhead Trout (O. mykiss). Significant decreases were detected for summer and hybrid Steelhead Trout. The proportion of wild fall Chinook has also significantly decreased concurrently with increases in hatchery returns. In comparison, returns of most Chinook and coho runs to the hatcheries, and fall Chinook strays to wild spawning areas from Iron Gate Hatchery have significantly increased since the 1970s. Increases were also detected for wild late-fall Chinook and spring Chinook adults. However, both of these were significantly correlated with Chinook Salmon returns to Trinity River Hatchery, suggesting augmentation by hatchery strays. Changes in abundances appeared related to changing ocean habitat conditions and hatchery practices. Our results suggest that anadromous salmonid populations in the Klamath River basin are becoming increasingly dependent on hatchery propagation, a pattern that can threaten population persistence.     

Recapture rate and growth of hatchery‐reared brown trout (Salmo trutta v. fario,L.) in Blanice River and the effect of stocking on wild brown trout and grayling (Thymallus thymallus,L.)

Hatchery‐reared adult brown trout, Salmo trutta v. fario L., [215–335 mm standard length (L_S), n = 82] were individually tagged and released into three sections of the Blanice River in May 2007. Wild populations of brown trout and grayling, Thymallus thymallus, L., in these sections and three non‐stocked control sections were also tagged. The recapture rate of hatchery‐reared adult brown trout after 6 months (18%, n = 15) was comparable to that of wild adult brown trout in stocked (15%, n = 14) and control (14%, n = 11) sections. The recapture rates of wild brown trout and grayling after 6 months were higher in control sections than in stocked sections, but the differences were not significant. The movement of recaptured large juvenile wild brown trout from stocked sections was significantly higher (36%) than from control sections (9%). Wild brown trout growth and grayling growth were unaffected by stocking with adult hatchery‐reared brown trout.     

Using parentage analysis to estimate rates of straying and homing in Chinook salmon (Oncorhynchus tshawytscha)

We used parentage analysis based on microsatellite genotypes to measure rates of homing and straying of Chinook salmon (Oncorhynchus tshawytscha) among five major spawning tributaries within the Wenatchee River, Washington. On the basis of analysis of 2248 natural‐origin and 11594 hatchery‐origin fish, we estimated that the rate of homing to natal tributaries by natural‐origin fish ranged from 0% to 99% depending on the tributary. Hatchery‐origin fish released in one of the five tributaries homed to that tributary at a far lower rate than the natural‐origin fish (71% compared to 96%). For hatchery‐released fish, stray rates based on parentage analysis were consistent with rates estimated using physical tag recoveries. Stray rates among major spawning tributaries were generally higher than stray rates of tagged fish to areas outside of the Wenatchee River watershed. Within the Wenatchee watershed, rates of straying by natural‐origin fish were significantly affected by spawning tributary and by parental origin: progeny of naturally spawning hatchery‐produced fish strayed at significantly higher rates than progeny whose parents were themselves of natural origin. Notably, none of the 170 offspring that were products of mating by two natural‐origin fish strayed from their natal tributary. Indirect estimates of gene flow based on F_ST statistics were correlated with but higher than the estimates from the parentage data. Tributary‐specific estimates of effective population size were also correlated with the number of spawners in each tributary.     

First maturity and spawning periodicity of hatchery‐origin pallid sturgeon in the upper Missouri River above Fort Peck Reservoir,Montana

The pallid sturgeon Scaphirhynchus albus conservation propagation program has augmented declining wild populations since the 1990s and the older age classes of hatchery‐origin fish are beginning to reach sexual maturity in the wild. Currently, the majority of the information available on the age and size at first maturity and spawning periodicity for pallid sturgeon in the upper basin is from captive hatchery‐origin pallid sturgeon (i.e. age and size at first maturity and spawning periodicity) or from wild pallid sturgeon artificially spawned in the propagation program (i.e. spawning periodicity). The purpose of this study was to document age and size at first maturity and spawning periodicity of known age hatchery‐origin pallid sturgeon that have reached maturity in the wild. Radio‐tagged pallid sturgeon in the upper Missouri River upstream of Fort Peck Reservoir were serially sampled in the early‐spring over multiple years and assigned to reproductive classifications each year based on sex‐steroid concentrations. The youngest reproductively‐active male hatchery‐origin pallid sturgeon sampled was 14.5 years old and the youngest female was 18. Hatchery‐origin males were observed having annual (N = 3) and biennial (N = 2) reproductive cycles. The observed spawning periodicity was similar to what has been reported elsewhere for the species. The youngest mature fish in this study are older and larger than what has been reported for those retained in captivity, indicating that body size alone is not a reliable predictor of maturity for pallid sturgeon.     

Net ground speed of downstream migrating radio-tagged Atlantic salmon (Salmo salar L.) and brown trout (Salmo trutta L.) smolts in relation to environmental factors

The downstream migration of Atlantic salmon (Salmo salarL.) and sea trout smolt (S. trutta L.) was investigated using radio telemetry in the spring of 1999 and 2000. Forty wild sea trout smolts, 20 F1 sea trout smolts, 20 hatchery salmon smolts and 20 salmon smolts from river stockings were radio tagged and released in the Danish River Lilleaa. The downstream migration of the different groups of fish was monitored by manual tracking and by three automatic listening stations. The downstream migration of radio tagged smolts of both species occurred concurrently with their untagged counterparts. The diel migration pattern of the radio tagged smolts was predominantly nocturnal in both species. Wild sea trout smolt migrated significantly faster than both the F1 trout and the introduced salmon. There was no correlation between net ground speed, gill Na⁺,K⁺-ATPase activity or fish length in any of the different groups. The migration speed of wild sea trout smolts was positively correlated with water discharge in both years. In F1 sea trout smolts, migration speed was positively correlated with temperature in 1999. The migration speed of salmon smolts did not correlate to any of the investigated parameters.     

Twelve microsatellite markers developed in woundfin (Plagopterus argentissimus), an endangered warmwater fish of the lower Colorado River basin

Woundfin (Plagopterus argentissimus) is one of several endangered warmwater fishes once common to the lower Colorado River basin. Dexter National Fish Hatchery & Technology Center maintains a refugium stock founded in 1982, and augmented with c. 1000 young fish in 1989. Genetic characterization of the refugium stock and salvaged fish from the Virgin River is necessary to develop a strategy to incorporate salvaged fish into the hatchery stock. We developed an enriched microsatellite library and 12 species‐specific polymorphic loci. Alleles per locus ranged from 10 to 19, averaging 13. The average expected and observed heterozygosities were 0.884 and 0.895, respectively.     

A genetically distinct wild redband trout (<Emphasis Type="Italic">Oncorhynchus mykiss gairdneri</Emphasis>) population in Crane Prairie Reservoir,Oregon, persists despite extensive stocking of hatchery rainbow trout (<Emphasis Type="Italic">O. m. irideus</Emphasis>)

Crane Prairie Reservoir in the upper Deschutes River Basin has historically supported a wild population of migratory Deschutes River redband trout. Owing to its status as a premier destination for recreational angling in Oregon, the reservoir has been stocked with domesticated hatchery rainbow trout since 1955. In recent years the wild redband trout population has experienced a substantial decline. Effects on productivity related to genetic interaction with naturally spawning hatchery-origin fish (fitness risks) have not been determined. The species Oncorhynchus mykiss has been characterized with substantial genetic diversity throughout the Deschutes River Basin that further heightens the challenge of identifying specific conservation needs of wild populations. A conservation plan for Crane Prairie wild redband trout requires a better understanding of the natural reproductive success of out-of-basin hatchery trout in the reservoir tributaries, and the similarity between Crane Prairie redband trout with other extant redband trout populations in the basin. Using a suite of 17 microsatellite nuclear DNA markers, we evaluated the genetic structure among Crane Prairie Reservoir redband trout, hatchery rainbow trout, and two adjacent populations of redband trout from within the Upper Deschutes River Basin. We observed significant heterogeneity between the hatchery and wild Crane Prairie populations that may reflect differences in life histories, differential productivity and assortative mating. The genetic distinctions observed among the three redband trout populations suggest restricted gene flow and genetic drift within the upper basin. Temporally stratified sampling and larger numbers of samples will be necessary to confirm these conclusions.     

Effects of hatchery rearing on Florida largemouth bass Micropterus floridanus resource allocation and performance under semi‐natural conditions

This study examined the growth, activity, metabolism and post‐release survival of three groups of Florida largemouth bass Micropterus floridanus: wild‐caught fish, hatchery fish reared according to standard practice (hatchery standard) and hatchery fish reared under reduced and unpredictable food provisioning (hatchery manipulated). Hatchery‐standard fish differed from wild‐caught fish in all measured variables, including survival in semi‐natural ponds. Hatchery‐standard and hatchery‐manipulated fish showed higher activity levels, faster growth and lower standard metabolic rates than wild‐caught fish in the hatchery. Fish reared under the manipulated feeding regime showed increased metabolic rates and increased post‐release growth, similar to wild‐caught fish. Their activity levels and post‐release survival, however, remained similar to those of hatchery‐standard fish. Activity was negatively correlated with post‐release survival and failure of the feed manipulation to reduce activity may have contributed to its failure to improve post‐release survival. Activity and post‐release survival may be influenced by characteristics of the rearing environment other than the feeding regime, such as stock density or water flow rates.     

Freshwater and coastal migration patterns in the silver‐stage eel Anguilla anguilla

The unimpeded downstream movement patterns and migration success of small female and male Anguilla anguilla through a catchment in north‐west Europe were studied using an acoustic hydrophone array along the River Finn and into the Foyle Estuary in Ireland. Twenty silver‐stage A. anguilla (total length, L_T, range: 332–520 mm) were trapped 152 km upstream from a coastal marine sea‐lough outlet and internally tagged with acoustic transmitters of which 19 initiated downstream migration. Migration speed was highly influenced by river flow within the freshwater (FW) compartment. Anguilla anguilla activity patterns were correlated with environmental influences; light, tidal direction and lunar phase all influenced the initiation of migration of tagged individuals. Migration speed varied significantly between upstream and lower river compartments. Individuals migrated at a slower speed in transitional water and sea‐lough compartments compared with the FW compartment. While 88·5% survival was recorded during migration through the upper 121 km of the river and estuary, only 26% of A. anguilla which initiated downstream migration were detected at the outermost end of the acoustic array. Telemetry equipment functioned efficiently, including in the sea‐lough, so this suggests high levels of mortality during sea‐lough migration, or less likely, long‐term sea‐lough residence by silver A. anguilla emigrants. This has important implications for eel management plans.     

Interaction between hatchery and wild Pacific salmon in the Far East of Russia: A review

We review studies of interactions between hatchery and wild Pacific salmon in the Russian Far East. This includes the role of hatchery practices that result in premature migration to the sea and increased mortality, and data on feeding and territorial competition between juveniles of hatchery and wild origin. In the course of downstream migration many juvenile hatchery salmon are eliminated by wild salmon predation. During the marine period, Japanese hatchery chum salmon (Oncorhynchus keta) distribution overlaps the distribution of Russian wild salmon. Consequently, replacement of wild populations by hatchery fishes, as a result of abundant juvenile hatchery releases combined with extensive poaching in spawning grounds, is apparent in some Russian rivers. Interactions between the populations occur in all habitats. The importance of conservation of wild salmon populations requires a more detailed study of the consequences of interactions between natural and artificially reared fishes.     

Migration barriers protect indigenous brown trout (<Emphasis Type="Italic">Salmo trutta</Emphasis>) populations from introgression with stocked hatchery fish

Brown trout populations in the Belgian rivers Scheldt and Meuse have been intensively stocked in the past decades, often with material of uncertain origin. Moreover, the species habitat has become increasingly fragmented, preventing gene flow between neighboring populations. We assessed how this impacted genetic diversity and population structure by analyzing 12 wild populations (total n=309) and seven hatchery stocks (n=200) at the mitochondrial control region with SSCP and at 27 RAPD loci. Historical records indicate that brown trout from distant locations have been used to supplement hatchery stocks; nevertheless we detected non-Atlantic mitochondrial genomes in only one population of the Scheldt basin and in one hatchery. In general, the hatchery samples displayed a higher genetic diversity and differentiated less among each other (global F_ST(mtDNA)=0.311/F_ST(RAPD)=0.029) compared to the wild populations (global F_ST(mtDNA)=0.477/F_ST(RAPD)=0.204). This is due to frequent exchanges between hatcheries and regular supplementation from several indigenous populations. Gene pools present in most downstream sections from tributaries of the Meuse were similar to each other and to the hatchery samples, despite the presence of migration barriers. Assignment analyses indicated that the contribution of hatchery material to the upstream parts was limited or even completely absent in populations separated by a physical barrier. Intensive stocking and exchange between hatcheries has homogenized the downstream sections of the Meuse River, whereas the migration barriers preserved the indigenous upstream populations. As such, uncontrolled removal of barriers might result in an irreversible loss of the remnant indigenous gene pools.     

Development of natural growth regimes for hatchery-reared steelhead to reduce residualism, fitness loss, and negative ecological interactions

Wild steelhead (Oncorhynchus mykiss) typically spend two or more years in freshwater before migrating to sea, but hatchery steelhead are almost ubiquitously released as yearlings. Their large size at release coupled with life history pathways that include both male and female maturation in freshwater present ecological risks different from those posed by hatchery populations of Pacific salmon. Yearling hatchery reared steelhead that fail to attain minimum thresholds for smoltification or exceed thresholds for male maturation tend to ‘residualize’ (i.e., remain in freshwater). Residuals pose ecological risks including size-biased interference competition and predation on juvenile salmon and trout. Three hatchery populations of steelhead in Hood Canal, WA were reared under growth regimes designed to produce a more natural age at smoltification (age-2) to aid in rebuilding their respective natural populations. Mean smolt sizes and size variability at age-2 were within the range of wild smolts for two of the three populations. The third population reared at a different facility under similar temperatures exhibited high growth rate variability and high male maturation rates (20% of all released fish). Experimentally comparing age-1 and age-2 smolt programs will help identify optimal rearing strategies to reduce the genetic risk of domestication selection and reduce residualism rates and associated negative ecological effects on natural populations. Investigations of Winthrop National Fish Hatchery summer-run steelhead will measure a) selection on correlated behavioral traits (‘behavioral syndromes’), b) degree of smoltification, c) changes in hormones that regulate gonad growth at key developmental stages, and d) conduct extensive post-release monitoring of fish reared under each growth regime.     

Potential Factors Affecting Survival Differ by Run-Timing and Location: Linear Mixed-Effects Models of Pacific Salmonids (Oncorhynchus spp.) in the Klamath River,California

Understanding factors influencing survival of Pacific salmonids (Oncorhynchus spp.) is essential to species conservation, because drivers of mortality can vary over multiple spatial and temporal scales. Although recent studies have evaluated the effects of climate, habitat quality, or resource management (e.g., hatchery operations) on salmonid recruitment and survival, a failure to look at multiple factors simultaneously leaves open questions about the relative importance of different factors. We analyzed the relationship between ten factors and survival (1980–2007) of four populations of salmonids with distinct life histories from two adjacent watersheds (Salmon and Scott rivers) in the Klamath River basin, California. The factors were ocean abundance, ocean harvest, hatchery releases, hatchery returns, Pacific Decadal Oscillation, North Pacific Gyre Oscillation, El Niño Southern Oscillation, snow depth, flow, and watershed disturbance. Permutation tests and linear mixed-effects models tested effects of factors on survival of each taxon. Potential factors affecting survival differed among taxa and between locations. Fall Chinook salmon O. tshawytscha survival trends appeared to be driven partially or entirely by hatchery practices. Trends in three taxa (Salmon River spring Chinook salmon, Scott River fall Chinook salmon; Salmon River summer steelhead trout O. mykiss) were also likely driven by factors subject to climatic forcing (ocean abundance, summer flow). Our findings underscore the importance of multiple factors in simultaneously driving population trends in widespread species such as anadromous salmonids. They also show that the suite of factors may differ among different taxa in the same location as well as among populations of the same taxa in different watersheds. In the Klamath basin, hatchery practices need to be reevaluated to protect wild salmonids.