18054 BPA genetic monitoring (BPA Genetic Monitoring Project) Data Set Published / External 17775 CB (Conservation Biology) Division Project Completed 1989-08-01 2018-02-15 This is a long-term (30-year) NWFSC Genetics and Evolution Program study to monitor the genetic characteristics and population dynamics of hatchery- and natural-origin Chinook salmon and steelhead in the Snake River Basin, which are both species listed as threatened under the US Endangered Species Act. Genetic tools are used to determine if naturally spawning hatchery fish are influencing the adaptive potential and viability of wild fish in the basin. This work involves long-term annual field work to collect DNA from threatened Chinook salmon and steelhead at numerous locations throughout the Snake and Salmon River Basin and analyze the genetic signatures from the collections in the context of a long-term historical baseline of hatchery production and natural variation in wild salmonid production there. Initiated in 1989, this study monitors genetic changes associated with hatchery propagation in multiple Snake River sub-basins for Chinook salmon and steelhead. We also derive estimates of reproductive success for individual families and groups of fish. The information obtained from this study directly addresses a critical knowledge gap identified by comanagers, which is: under what conditions does hatchery supplementation provide a sustained contribution to natural production? Co-managers are ODFW, CTUIR, NPT, WDFW, IDFG, and SBT. This type of monitoring work is now an essential part of hatchery reform and the goal of using widespread hatchery propagation in recovery of natural populations. Addresses Legal Mandate Raw/field data, Time series (of types 1-3), Laboratory data Loaded by batch 4312, 02-01-2013 15:00 Subject to Public Access to Research Results (PARR): Yes Report: Monitoring and evaluating the genetic characteristics of supplemented salmon and steelhead. Annual report of activities and results from calendar year 2019. Report: Monitoring and evaluating the genetic characteristics of supplemented salmon and steelhead. Rollup report of BiOp-related activities from calendar year 2019. Theme Snake River Theme artificial propagation Theme hatchery Theme salmon Spatial Manchester Research Station Spatial NWFSC Montlake Spatial Snake River Basin Instrument DNA Sequencer Platform Unknown Physical Collection Device Northwest Fisheries Science Center Seattle WA USA Data Set Spreadsheet Table (digital) DNA Sequencer Unknown Platform Unknown Physical Collection Device 51551 Little Sheep Creek steelhead Published / External Planned This is a table of microsatellite genotypes for Little Sheep steelhead included in Berntson et al. 2011. Transactions of the American Fisheries Society 140:685-698. Each locus is represented by two alleles, 3 digits for each allele, where alleles are mobility/size determined, per standard published criteria. Loci are the SPAN suite, described in Blankenship et al. 2011. Transactions of the American Fisheries Society 140:665-684. Spreadsheet Yes PARR This is a table of microsatellite genotypes for Little Sheep steelhead included in Berntson et al. 2011. Transactions of the American Fisheries Society 140:685-698. Each locus is represented by two alleles, 3 digits for each allele, where alleles are mobility/size determined, per standard published criteria. Loci are the SPAN suite, described in Blankenship et al. 2011. Transactions of the American Fisheries Society 140:665-684. 1 Sample_Number text No No Active A 5-digit accession number assigned by the NWFSC, followed by a 4-digit individual fish number. text 2 Locus_Ocl1_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 3 Locus_Ocl1_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 4 Locus_Ogo4_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 5 Locus_Ogo4_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 6 Locus_Omy1001_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 7 Locus_Omy1001_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 8 Locus_Omy7_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 9 Locus_Omy7_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 10 Locus_Omy77_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 11 Locus_Omy77_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 12 Locus_Ots1_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 13 Locus_Ots1_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 14 Locus_Ots100_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 15 Locus_Ots100_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 16 Locus_Ots4_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 17 Locus_Ots4_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 18 Locus_Oke4_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 19 Locus_Oke4_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 20 Locus_Oki23m_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 21 Locus_Oki23m_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 22 Locus_Omy1011_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 23 Locus_Omy1011_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 24 Locus_Ots3_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 25 Locus_Ots3_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 26 Locus_Ots506_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 27 Locus_Ots506_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 28 Locus_p53_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 29 Locus_p53_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 30 Locus_Ssa407_allele_1 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 31 Locus_Ssa407_allele_2 text No No Active Microsatellite allele; each locus is represented by 2 alleles. Each allele is represented by 3 digits, and the value is based loosely on size of the fragment. Units for values are base-pairs. text base-pairs 000-500 32 Collection_Year number No No Active Year that the fish was sampled. number 33 Collection_Date Date No No Active Date that the fish was sampled. Date 34 Fin_Mark text No No Active Mark indicates if the fish is wild or natural in origin, or hatchery in origin. text Ad (Ad-clipped hatchery fish), AdLV (ad-clipped and left ventrical-clipped hatchery fish), H (hatchery fish), UMH (unmarked hatchery fish), W (wild), 35 Sex text No No Active Sex of the fish, if known. text M (Male) or F (Female) 36 Fork_Length_in_mm text No No Active Fork length of the fish. Units for values are Millimeters. text Millimeters 20-900, O (< 640 mm), U (< 640 mm) 37 River_Mile number No No Active River mile were the fish was captured. Units for values are Miles. number Miles 0-24 38 Disposition text No No Active What happened to the fish, if it was an adult: passed over the weir to spawn, taken in as hatchery broodstock, etc. text Data Steward 2015-10-01 Person Berntson, Ewann A Ewann.Berntson@noaa.gov 2725 Montlake Boulevard East Seattle WA 98112 360-871-8333 Distributor 2015-10-01 Organization Northwest Fisheries Science Center NWFSC nmfs.nwfsc.metadata@noaa.gov https://ror.org/05r7z1k40 2725 Montlake Boulevard East Seattle WA 98112 USA 206-860-3200 https://www.nwfsc.noaa.gov NWFSC Home Online Resource Metadata Contact 2015-10-01 Organization Northwest Fisheries Science Center NWFSC nmfs.nwfsc.metadata@noaa.gov https://ror.org/05r7z1k40 2725 Montlake Boulevard East Seattle WA 98112 USA 206-860-3200 https://www.nwfsc.noaa.gov NWFSC Home Online Resource Originator 2015-10-01 Person Berntson, Ewann A Ewann.Berntson@noaa.gov 2725 Montlake Boulevard East Seattle WA 98112 360-871-8333 Point of Contact 2015-10-01 Person Berntson, Ewann A Ewann.Berntson@noaa.gov 2725 Montlake Boulevard East Seattle WA 98112 360-871-8333 -122.5547 -122.5547 47.569 47.569 Manchester Research Station Continuing 1989-11-01 -122.3062 -122.3062 47.6449 47.6449 NWFSC Montlake: NWFSC Montlake, Seattle Continuing 1989-11-01 -122.5547 -122.3062 47.6449 47.569 Snake River Basin: Snake River Basin, a Columbia River tributary Continuing 1989-11-01 Unclassified At this time, contact the Data Manager for information on obtaining access to this data set. In the near future, the NWFSC will strive to provide all data resources as a web service in order to meet the NOAA Data Access Policy Directive (https://nosc.noaa.gov/EDMC/PD.DA.php). NA https://www.webapps.nwfsc.noaa.gov/apex/parr/little_sheep_creek_steelhead/data/page/ 2015-10-01 Organization Northwest Fisheries Science Center https://ror.org/05r7z1k40 Little Sheep Creek steelhead (RESTful) This is a table of microsatellite genotypes for Little Sheep steelhead included in Berntson et al. 2011. Transactions of the American Fisheries Society 140:685-698. Each locus is represented by two alleles, 3 digits for each allele, where alleles are mobility/size determined, per standard published criteria. Loci are the SPAN suite, described in Blankenship et al. 2011. Transactions of the American Fisheries Society 140:665-684. https://www.webapps.nwfsc.noaa.gov/apex/parrdata/inventory/tables/table/little_sheep_creek_steelhead 2015-10-01 Organization Northwest Fisheries Science Center https://ror.org/05r7z1k40 Little Sheep Creek steelhead This is a table of microsatellite genotypes for Little Sheep steelhead included in Berntson et al. 2011. Transactions of the American Fisheries Society 140:685-698. Each locus is represented by two alleles, 3 digits for each allele, where alleles are mobility/size determined, per standard published criteria. Loci are the SPAN suite, described in Blankenship et al. 2011. Transactions of the American Fisheries Society 140:665-684. https://www.webapps.nwfsc.noaa.gov/apex/parrdata/inventory/datasets/dataset/10654 BPA genetic monitoring Online Resource Web site NWFSC Dataset Information page. Initiated in 1989, this study monitors genetic changes associated with hatchery propagation in multiple Snake River sub-basins for Chinook salmon and steelhead. We also derive estimates of reproductive success for individual families and groups of fish. The information obtained from this study directly addresses a critical knowledge gap identified by comanagers, which is: under what conditions does hatchery supplementation provide a sustained contribution to natural production? Co-managers are ODFW, CTUIR, NPT, WDFW, IDFG, and SBT. This type of monitoring work is now an essential part of hatchery reform and the goal of using widespread hatchery propagation in recovery of natural populations. Spreadsheet High QA/QC genotypes run, elimination of fish missing too many genotypes, elimination of duplicate genotypes. No 5 No No No 0 days No Delay Other 365 See FishGen.net website for details. Genotype generation, plus genotype QA/QC. 51551 Entity gov.noaa.nmfs.inport:18054 SysAdmin InPortAdmin 2013-02-01T15:00:18 SysAdmin InPortAdmin 2026-03-04T19:17:17 2019-06-04 Northwest Fisheries Science Center NWFSC 2725 Montlake Boulevard East Seattle WA 98112 USA 206-860-3200 https://www.nwfsc.noaa.gov 1001 Public No No 2019-06-04 1 Year 2020-06-04