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Genetic Effects of Hatchery Supplementation on Productivity for Naturally Spawning Salmon

The Problem

Wild adult steelhead captured in the Selway River, Idaho.
Wild adult steelhead captured in the Selway River, Idaho.

Supplementation is the release of artificially propagated fish to maintain or increase natural production (through natural spawning by hatchery) while maintaining the long-term fitness of the target population. Supplementation has been identified as a major tool for the restoration of salmonids in the Columbia River system as well as other streams throughout the Pacific Northwest, yet data suggest that its biological and economic efficacies may be far less than generally expected. This study evaluates costs and benefits for alternative sources of broodstock for supplementation, and tests for domestication in hatchery programs. The study tests for genetic differences in the migration, growth, and survival of hatchery and wild steelhead (Oncorhynchus mykiss) and of hatchery and wild spring chinook salmon (O. tshawytscha) in both natural streams and hatcheries. Steelhead will be from Idaho's Clearwater River, and spring chinook salmon from Oregon's Warm Springs River. Results from this study should be extremely valuable to those planning or managing supplementation or its evaluation because rigorous quantitative genetic comparisons of hatchery and wild salmon have been available only for steelhead, and the general applicability of these data to steelhead as well as other species of salmon has been seriously challenged.

Objectives

The 5-year research goals of the Fisheries and Aquatic Resources Program addressed are to: understand relationships between and among aquatic species habitats; provide science for restoring and maintaining declining species and their required habitat; and investigate aquatic species diversity.

Objectives for steelhead are:

  • Compare the growth and survival of genetically marked offspring from wild Clearwater River steelhead (W) and from Dworshak National Fish Hatchery (Dworshak NFH) steelhead (H) rearing in at least two study streams.
  • Compare the growth and survival of genetically marked offspring from wild Clearwater River steelhead (W) and from Dworshak NFH steelhead (H) in hatchery ponds.
  • Test for selection on the genetic marks (PEPA locus) by comparing the growth and survival of juvenile fish with the different genotypes rearing together in the Palouse River drainage and at Dworshak NFH.
  • Biologists snorkeling to locate and count fish.
    Biologists snorkeling to locate and count fish.
    Test for an effect of cryopreservation by comparing the growth and survival, and the response to various stressors of juvenile fish from fresh and cryopreserved milt.
  • Test for effects of size and developmental stage of unfed fry on the growth and survival of juvenile fish in natural streams and in the hatchery.

Objectives for spring chinook salmon are:

  • Compare the growth and survival of genetically marked offspring of wild fish (W; from Warm Springs River) and hatchery fish (H; from Warm Springs NFH) rearing together in two study streams.
  • Compare the growth and survival of genetically marked offspring from wild Warm Springs River fish (W) and from hatchery fish (H; Warm Springs NFH) rearing in hatchery ponds at Warm Springs NFH.
  • Test for selection on the genetic marks (at the sSOD-1 locus) by comparing the growth and survival of juvenile fish with the different genotypes rearing together in natural streams and in a hatchery.

Methodology

The methods involve crossing adult fish to produce genetically marked progeny of hatchery x hatchery, hatchery x wild, and wild x wild parentage. The different groups of progeny are incubated in identical conditions in the hatchery until button-up when the groups are mixed together. Mixed populations are divided; some are released into natural streams, others are reared in the hatchery. The progeny are sampled before or during their downstream migration or as returning adults to determine relative growth and survival of the treatment groups. The relative performances will be used to infer effects on stock productivity from using offspring of wild fish in the hatchery and hatchery fish in streams and to design evaluations.

Highlights and Key Findings

4/19/02 - During the past 12 months we have been trapping downstream migrants and sampling juvenile
Screw trap for capturing fish as they emigrate from a study stream in Washington.
Screw trap for capturing fish as they emigrate from a study stream in Washington.
chinook salmon in the Metolius River and Warm Springs National Fish Hatchery from the final year-class of this study. Our collaborators (Washington Department of Fish and Wildlife) have been developing the assays for molecular genetic (microsattelite) markers that will be used in parental analyses to identify the experimental cross (HxH, HxW, WxW) for each juvenile sampled. Analysis of data from previous year-classes and preparation of reports and presentations are continuing.

4/30/01 - Completed trapping and monitoring of experimental juvenile steelhead in Idaho, but continue to monitor and evaluate returns of experimental adult steelhead. Evaluation of reproductive success for returning adult steelhead was abandoned because only seven adults returned to the study stream in 2000. Approximately 200 returning adult spring chinook salmon from the 1996 year-class were sampled from the fisheries and the hatchery and were genetically assayed to determine relative survival and growth. Final results must await the return of age-5 adults in 2001; however, preliminary results indicate
Weir on a tributary to the Lochsa River, Idaho, for capturing wild adult steelhead.
Weir on a tributary to the Lochsa River, Idaho, for capturing wild adult steelhead.
that HxH fish survived better after release from the hatchery than did WxW, and suggest that domestication selection occurs in hatchery programs for spring chinook salmon. Trapping of 1999 year-class fish for the mark-selection experiment will be completed within 10 weeks. Adult hatchery salmon (~90) and wild salmon (~45) were obtained and spawned at Warm Springs National Fish hatchery to create the experimental crosses for the last year-class of this study. Thermal marks were induced on the otoliths of the resulting HxH, HxW, and WxW juveniles. Each family was subdivided, and approximately one-half of the juveniles (~30,000 of each group) were released into the Metolius River as button-up fry, and the remainder were rearing together in ponds at Warm Springs National Fish Hatchery. USGS provided additional support allowing us to expand the methodology to incorporate DNA-microsatellite (parentage) analyses so that the identity of experimental fish can be determined without sacrificing the fish, thereby substantially increasing the accuracy of our estimates for trapping efficiency and the acceptability of our study to the public.

3/28/00 - Experimental groups of steelhead are rearing in two natural streams, and at sea. Experimental groups of spring chinook salmon are rearing in a stream and in Warm Springs National Fish Hatchery. Preliminary results indicate genetic differences such that progeny of WxW matings survive better in streams than do progeny of HxH matings. HxH steelhead survive and grow better in the hatchery than do WxW steelhead.

2/2/00 - Downstream recoveries of PIT-tagged steelhead smolts after release from Clearwater Hatchery indicated substantially reduced survival of progeny from wild fish, compared to progeny from hatchery fish, and intense selection for "hatchery-type" fish. Recovery rate was positively related to smolt size, and the HxH fish grew faster in the hatchery than did WxW fish, but recovery of HxH fish also was greater than recovery of WxW fish of the same size. Survival of HxH chinook salmon from swim-up to smolt in
Weir and fish trap for collecting fish emigrating from a study stream in Idaho.
Weir and fish trap for collecting fish emigrating from a study stream in Idaho.
the Little White Salmon River was only 90% that for WxW salmon, indicating modest but significant loss of fitness in the hatchery population despite almost continual gene flow of 10-30% from the wild population. Our mark-selection studies showed modest but significant selection on the genetic marks for both steelhead (PEPA) and chinook salmon (sSOD-1); , and the results of hatchery-wild comparisons must be adjusted for selection on the marks.


Where Are We Headed In 2003

DNA and parentage analyses, data analysis, and report preparation will continue during FY 2003, and should be complete for all but Objective II.2 by 2004.

Project Contact

Reg Reisenbichler
U.S. Geological Survey
Western Fisheries Research Center
6505 NE 65th St.
Seattle, WA 98115

Email: reg_reisenbichler@usgs.gov
Phone: 206-526-6282
Fax: 206-526-6654

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