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Andy Gray, Research Geneticist TSMRI, Juneau, AK

Parental Genotyping to Evaluate Family Correlated Survival and Genetic Based Tagging Of a Small Hatchery Population. Andy Gray, Research Geneticist TSMRI, Juneau, AK. Presented to 23 rd Annual Alaska Salmon Hatchery Managers Meeting. Project Investigators. Principles:

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Andy Gray, Research Geneticist TSMRI, Juneau, AK

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  1. Parental Genotyping to Evaluate Family Correlated Survival and Genetic Based Tagging Of a Small Hatchery Population Andy Gray, Research Geneticist TSMRI, Juneau, AK Presented to 23rd Annual Alaska Salmon Hatchery Managers Meeting

  2. Project Investigators • Principles: • Andy Gray, Research Geneticist, ABL, Juneau, AK • John E. Joyce, Fishery Research Biologist, ABL, Juneau, AK • Frank Thrower, Fishery Research Biologist, ABL, Juneau, AK • Adrian Celewycz, Fishery Research Biologist, ABL, Juneau, AK • Chuck Guthrie, Fishery Research Biologist, ABL, Juneau, AK • Collaborators: • Anthony J Gharrett, Professor, UAF, AK • Alex Wertheimer, Fishery Research Biologist, ABL, Juneau, AK • Ron Josephson, Fisheries Biologist, ADF&G, Juneau, AK • Bill Templin, Fisheries Geneticist, ADF&G, Anchorage, AK

  3. Parentage Based Tagging (PBT)Genetic tagging provides population and cohort information and does not require genetic differences between populations • Genotyping hatchery broodstock, you can create a data base of possible parent pairs and match recovered offspring genotypes against that, assigning offspring to parent pairs (and hence hatchery and cohort) • By genotyping two parents, you can effectively tag all their 1,000’s of offspring • Also provides scientifically interesting pedigree information

  4. Project Objectives • Evaluate the ability of microsatellites and SNPs to uniquely genotype all parents of a small brood of hatchery Chinook salmon. • Empirically test PBT methods in mixed stock fisheries using Coded Wire Tags as controls. • Examine the effect of family correlated survival on the performance of PBT method. • Define the impact family correlated survival has on effective population size in a closed broodstock hatchery.

  5. Approach Phase I 2007-2009 • Spawn adult Unuk and Release 2000 CWT individuals from each of 80 families • Genotype all parents used for broodstock • GAPS 13 microsatellite, ~75 SNPs • Parentage analysis of ≤2000 Vertical Raceway mortalities • Microsatellite panel

  6. Approach Phase II 2010-2014 • Recover PBT Unuk brood samples from the troll fisheries via ADF&G tag lab and returns to LPW. • Test abilities of microsatellite and SNPs identify PBT Unuk brood troll caught fish. • Examine family correlated survival via parentage analysis on all PBT Unuk brood returning to LPW.

  7. LPW Stock Background • Unuk R. – Cripple Cr. Stock • Brought to LPW – 1976 • Larger founder population (250) • Wild gametes (1976-81) • Hatchery lines 100% CWT • ~500 LPW Unuk stock CWT’s recovered by ADF&G tag lab annually

  8. Progress Phase I • Spawning of 2007 Unuk Adults- 122 F, 61 M

  9. Experimental Design • Crossed 122 females, 61 males (2F x 1M) • Created 122 families, 61 halfsib pairs • Eyed stage selected 84 families, 42 halfsib pairs • Ponded 79 families, 39 halfsib pairs

  10. Individual Family Data CollectedThrough Incubation to Ponding Family Data 100 0.6 90 0.5 80 70 0.4 60 Grams Percent Survival 50 0.3 40 0.2 30 20 0.1 10 0 0 Hatch Avg. Weight

  11. Ponding Into Micro Vertical Raceways Transfer Genetic Sampling Family 1 1100 1100

  12. Ponding Into Micro Vertical Raceways 2200 fry from family split between Micro Arrays 1100 each

  13. F50 Data CollectedAt transfer to Vertical Raceways Micro Vertical Raceways N=158 100 3.5 95 3 90 2.5 Grams 85 2 Percent Survival 80 1.5 Weight 75 1 70 0.5 65 60 0 Avg. Survival Avg. Weight

  14. Transfer of Families from Micro-VR’s to large VR’s. Family1a Family 1b 100 100

  15. Transfer of Families from Micro-VR’s to large VR’s. 200 200 200 200 200 200 200 200 200 100 100

  16. Collection of Mortality’s • Collect mortalities on weekly bases • Tissue sample each mortality and preserve • Total mortalities to date- 985

  17. Tagging of Juveniles in Large VRs • Oct 2008 all 10 Vertical Raceways • Growth Data • Total number of tagged individuals

  18. Growth Data

  19. Number of CWT Individuals

  20. 2009 Field Activities • Continue to monitor growth and survival • Evaluate CWT retention • Release smolts ~ May 15 2009 • Collect mini-jacks July thru August

  21. 2009 Laboratory Activities • Evaluate GAPS microsatellite and SNP for PBT • Parentage analysis of VR mortalities

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