Columbia Basin Fish and Wildlife Program Columbia Basin Fish and Wildlife Program
SOW Report
Contract 75976: 2008-907-00 EXP GENETIC ASSESSMENT OF COLUMBIA RIVER STOCKS
Project Number:
Title:
Genetic Assessment of Columbia River Stocks
BPA PM:
Stage:
Implementation
Area:
Province Subbasin %
Basinwide - 50.00%
Mainstem - 50.00%
Contract Number:
75976
Contract Title:
2008-907-00 EXP GENETIC ASSESSMENT OF COLUMBIA RIVER STOCKS
Contract Continuation:
Previous: Next:
72195: 2008-907-00 EXP GENETIC ASSESSMENT OF COLUMBIA RIVER STOCKS
  • 73354 REL 1: 2008-907-00 EXP GENETIC ASSESSMENT OF COLUMBIA RIVER STOCKS
Contract Status:
Closed
Contract Description:
This project combines four inter-related projects from the Accords that address Single Nucleotide Polymorphism (SNP) Discovery, Genetic Baseline Expansion, Genetic Stock Identification (GSI) to Evaluate Catch, and GSI of fishes passing Bonneville Dam.  These four projects are highly related since SNP markers are needed to complete species specific baselines, and these baselines are requisite to complete GSI.  

The specific objectives are:

1) discover and evaluate SNP markers throughout the genome in salmonids and other fishes

2) expand and create genetic baselines for multiple species (Chinook, steelhead, sockeye, and coho)

3) implement GSI/PBT programs for stock ID of mainstem fisheries

4) GSI/PBT  for stock ID of fish passing Bonneville Dam

5) PBT baselines for fall Chinook (additional BiOp objective)

These objectives address needs for distinguishing specific stocks, determining genetic diversity, stock specific run timing, and estimating stock composition to provide information for fisheries management and harvest.  Newly discovered SNP markers may also be useful for other applications such as pedigree studies for estimating reproductive success, and evaluating adaptive divergence of populations to specific environments.
Account Type(s):
Expense
Contract Start Date:
04/01/2017
Contract End Date:
03/31/2018
Current Contract Value:
$802,365
Expenditures:
$802,365

* Expenditures data includes accruals and are based on data through 31-Jan-2021.

BPA CO:
BPA COTR:
Env. Compliance Lead:
Work Order Task(s):
Contract Type:
Contract (IGC)
Pricing Method:
Cost Reimbursement (CNF)
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Full Name Organization Write Permission Contact Role Email Work Phone
Martin Allen Bonneville Power Administration Yes COTR mballen@bpa.gov (503) 230-5115
Israel Duran Bonneville Power Administration Yes Env. Compliance Lead induran@bpa.gov (503) 230-3967
Christine Golightly Columbia River Inter-Tribal Fish Commission (CRITFC) Yes Administrative Contact golc@critfc.org (503) 731-1288
Daniel Hasselman Columbia River Inter-Tribal Fish Commission (CRITFC) Yes Technical Contact hasd@critfc.org (208) 837-9096x1127
Douglas Hatch Columbia River Inter-Tribal Fish Commission (CRITFC) No Interested Party hatd@critfc.org (503) 731-1263
Melissa Holland Columbia River Inter-Tribal Fish Commission (CRITFC) No Administrative Contact holm@critfc.org (503) 731-1264
Shawn Narum Columbia River Inter-Tribal Fish Commission (CRITFC) Yes Contract Manager nars@critfc.org (208) 837-9096x1120
Zachary Penney Columbia River Inter-Tribal Fish Commission (CRITFC) No Supervisor zpenney@critfc.org (503) 731-1301
Christopher Roper Bonneville Power Administration No CO Assistant cproper@bpa.gov (503) 230-3514
Tybee Sheidler Bonneville Power Administration No CO Assistant tasheidler@bpa.gov (503) 230-3820
Dorothy Welch Bonneville Power Administration Yes F&W Approver dwwelch@bpa.gov (503) 230-5479
Karen Wolfe Bonneville Power Administration No Contracting Officer ktwolfe@bpa.gov (503) 230-3448
Elham Zolmajd-Haghighi Bonneville Power Administration No CO Assistant ezolmajd-haghighi@bpa.gov (503) 230-7414


Viewing of Work Statement Elements

Deliverable Title WSE Sort Letter, Number, Title Start End Complete
All administrative tasks fulfilled with timely quality products B: 119. Obj. 1-4; Manage/Admin. Projects 03/31/2018 03/07/2018
Obtain Permit C: 165. Obj. 1-4; Environmental Compl. 04/01/2017 04/01/2017
Submit manuscript D: 183. Obj. 1-4; Journal articles 03/31/2018 03/07/2018
Sequencing and Assay development E: 157. Obj. 1) Sequencing and Assay Development 03/31/2018 03/07/2018
Estimate allele frequencies F: 162. Obj. 1) Analysis of SNP Frequencies 03/31/2018 03/07/2018
Report SNP sites G: 161. Obj. 1) SNP Sites and Assays 03/31/2018 03/07/2018
List of SNPs and populations H: 156. Obj. 2) Determine SNP Markers and Baseline Samples 03/31/2018 03/07/2018
Multi-locus SNP genotypes I: 157. Obj. 2) SNP Genotyping 03/31/2018 03/07/2018
Submit to Database J: 159. Obj. 2) Baseline Genotypes to Database 03/31/2018 03/07/2018
Analyze Genetic Data K: 162. Obj. 2) Population Diversity and Differentiation 03/31/2018 03/07/2018
Report/Present Genetic Data L: 161. Obj. 2) Genotypes and Allele Frequencies 03/31/2018 03/07/2018
Sample Plan M: 156. Obj. 3) Develop Sampling Plan 03/31/2018 03/07/2018
Inventory of Samples N: 157. Obj. 3) Collect Tissue Samples from Fisheries 03/31/2018 03/07/2018
Summary of Genotypes O: 157. Obj. 3) Genotype Tissue Samples 03/31/2018 03/07/2018
Stock Composition P: 162. Obj. 3) Estimate Stock Composition 03/31/2018 03/07/2018
Report Stock Composition Q: 161. Obj. 3) Distribute GSI Estimates 03/31/2018 03/07/2018
Sampling plan R: 156. Obj. 4) Sampling period, size, and logistics 03/31/2018 03/07/2018
Inventory of Samples S: 157. Obj. 4) Non-lethal sampling at Bonneville Dam 03/31/2018 03/07/2018
Summary of Genotypes T: 157. Obj. 4) Genotype tissue samples 03/31/2018 03/07/2018
Stock Composition U: 162. Obj. 4) GSI estimates 03/31/2018 03/07/2018
PBT genotypes V: 157. Obj. 5) PBT genotyping of fall Chinook 03/31/2018 03/07/2018
Completed Annual Report W: 132. Submit Progress Report for the period (1/1/2017) to (12/31/2017) 03/31/2018 03/07/2018
Submit BiOp RPA Report in Taurus X: 202. BiOp RPA Report for CY 2016 03/15/2018 03/07/2018

Viewing of Implementation Metrics
Viewing of Environmental Metrics Customize

Primary Focal Species Work Statement Elements
Chinook (Oncorhynchus tshawytscha) - All Populations
  • 1 instance of WE 183 Produce Journal Article
  • 6 instances of WE 157 Collect/Generate/Validate Field and Lab Data
  • 1 instance of WE 159 Transfer/Consolidate Regionally Standardized Data
  • 3 instances of WE 161 Disseminate Raw/Summary Data and Results
  • 4 instances of WE 162 Analyze/Interpret Data
Chinook (O. tshawytscha) - Snake River Fall ESU (Threatened)
  • 1 instance of WE 157 Collect/Generate/Validate Field and Lab Data
Coho (O. kisutch) - Unspecified Population
  • 6 instances of WE 157 Collect/Generate/Validate Field and Lab Data
  • 1 instance of WE 159 Transfer/Consolidate Regionally Standardized Data
  • 3 instances of WE 161 Disseminate Raw/Summary Data and Results
  • 4 instances of WE 162 Analyze/Interpret Data
Sockeye (Oncorhynchus nerka) - All Populations
  • 1 instance of WE 183 Produce Journal Article
  • 6 instances of WE 157 Collect/Generate/Validate Field and Lab Data
  • 1 instance of WE 159 Transfer/Consolidate Regionally Standardized Data
  • 3 instances of WE 161 Disseminate Raw/Summary Data and Results
  • 4 instances of WE 162 Analyze/Interpret Data
Steelhead (Oncorhynchus mykiss) - All Populations
  • 1 instance of WE 183 Produce Journal Article
  • 6 instances of WE 157 Collect/Generate/Validate Field and Lab Data
  • 1 instance of WE 159 Transfer/Consolidate Regionally Standardized Data
  • 3 instances of WE 161 Disseminate Raw/Summary Data and Results
  • 4 instances of WE 162 Analyze/Interpret Data

Sort WE ID WE Title NEPA NOAA USFWS NHPA Has Provisions Inadvertent Discovery Completed
A 185 Periodic Status Reports for BPA 04/01/2017
B 119 Obj. 1-4; Manage/Admin. Projects 04/01/2017
C 165 Obj. 1-4; Environmental Compl. 04/01/2017
D 183 Obj. 1-4; Journal articles 04/01/2017
E 157 Obj. 1) Sequencing and Assay Development 04/01/2017
F 162 Obj. 1) Analysis of SNP Frequencies 04/01/2017
G 161 Obj. 1) SNP Sites and Assays 04/01/2017
H 156 Obj. 2) Determine SNP Markers and Baseline Samples 04/01/2017
I 157 Obj. 2) SNP Genotyping 04/01/2017
J 159 Obj. 2) Baseline Genotypes to Database 04/01/2017
K 162 Obj. 2) Population Diversity and Differentiation 04/01/2017
L 161 Obj. 2) Genotypes and Allele Frequencies 04/01/2017
M 156 Obj. 3) Develop Sampling Plan 04/01/2017
N 157 Obj. 3) Collect Tissue Samples from Fisheries 04/01/2017
O 157 Obj. 3) Genotype Tissue Samples 04/01/2017
P 162 Obj. 3) Estimate Stock Composition 04/01/2017
Q 161 Obj. 3) Distribute GSI Estimates 04/01/2017
R 156 Obj. 4) Sampling period, size, and logistics 04/01/2017
S 157 Obj. 4) Non-lethal sampling at Bonneville Dam 11/01/2017
T 157 Obj. 4) Genotype tissue samples 04/01/2017
U 162 Obj. 4) GSI estimates 04/01/2017
V 157 Obj. 5) PBT genotyping of fall Chinook 04/01/2017
W 132 Submit Progress Report for the period (1/1/2017) to (12/31/2017) 04/01/2017
X 202 BiOp RPA Report for CY 2016