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| A | 238702 | 185 | Produce CBFish Status Report | Periodic Status Reports for BPA | The Contractor shall report on the status of milestones and deliverables in CBFish. Reports shall be completed either monthly or quarterly as determined by the BPA COR. Additionally, when indicating a deliverable milestone as COMPLETE, the contractor shall provide metrics and the final location (latitude and longitude) prior to submitting the report to the BPA COR. | $1,100 | 0.25% | 01/01/2024 | 09/30/2024 |
| B | 238703 | 165 | Produce Environmental Compliance Documentation | Ensure environmental compliance is adequate | The Hood River Production Program operates under the Hood River Fisheries Project Final Environmental Impact Statement (DOE/EIS-0241) completed in 1996 by BPA. M&E activities are identified in the most recent Hood River HGMPs and revised Master Plan (2019). | $2,200 | 0.50% | 10/01/2023 | 09/30/2024 |
| C | 238704 | 119 | Manage and Administer Projects | Manage BPA Project | Develop contract renewal package (SOW, line item budget, and property inventory), report cost share, draft and submit invoices, review and modify previous contracts' WE budget actual amounts as needed. | $5,800 | 1.31% | 10/01/2023 | 09/30/2024 |
| D | 238705 | 158 | Mark/Tag Animals | PIT tag hatchery spring Chinook salmon | Full duplex PIT tags will be implanted in BY22 hatchery origin spring Chinook salmon smolts prior to release during spring 2024. Tag groups will include Hood River and Deschutes reared fish. Migrant smolts will be detected as at juvenile migrant traps; instream PIT arrays in the mainstem Hood River as they leave the basin; at Bonneville Dam; and in the Columbia Estuary. Returning adults will be detected at Bonneville Dam, the mouth of the Hood River and East Fork and West Fork Hood River trapping sites and at Pelton adult trap. Run strength, harvest rates and smolt to adult return rates will be determined.
PIT tagging of spring Chinook salmon will occur at Parkdale Fish Hatchery and/or the Moving Falls Fish Facility (MFFF). It is planned that approximately 25,000 Parkdale Fish Hatchery and Round Butte Hatchery reared Hood River origin BY 22 juveniles will be tagged. SAR's will be compared between Hood River Chinook rearing groups, as well as other hatchery stocks in the region.
In addition, up to 260 Hood River adult spring Chinook that will be used for brood stock will be PIT tagged to aid in brood stock management. | $35,156 | 7.96% | 10/01/2023 | 09/30/2024 |
| E | 238706 | 157 | Collect/Generate/Validate Field and Lab Data | Install and operate PIT antennae | Operate and maintain PIT antennae in the Hood River basin. This includes O & M of 4 permanent sites: mouth of the Hood River (HRM), MFFF ladder (MVF), East Fork Irrigation Diversion (EFD), and Farmers Irrigation Diversion (FID). Repair and expand the HRM site as damage occurs and conditions permit. Antennas and nodes in submersible canisters will be installed during the low water period (typically early fall) to replace any damaged components and expand the detection coverage of the arrays. The final configuration of the HRM interrogation site will be composed of up to twelve 20’ antennas with submersible nodes in two arrays of six antennas each. The MVF, EFD, and FID sites use Biomark IS1001 readers and 6-15’ antennas. | $12,000 | 2.72% | 10/01/2023 | 09/30/2024 |
| F | 238707 | 159 | Transfer/Consolidate Regionally Standardized Data | Input Hood River PIT tag data to appropriate databases | Transfer PIT tag codes from the project database to the PTAGIS database. This work will include sending the information to the appropriate party, application of data exchange protocols (including QA/QC), development and any formatting and documentation required to make the transfer. | $2,750 | 0.62% | 10/01/2023 | 09/30/2024 |
| G | 238708 | 157 | Collect/Generate/Validate Field and Lab Data | Collect water temperature data in the Hood River subbasin | Use Onset Hobo loggers to monitor water temperatures in East Fork Hood River, Rogers
Creek, Dog River, Neal Creek, West Fork Hood River, Lake Branch, Middle Fork Hood River, Odell Creek, McGee Creek, Main-stem Hood River, and 2 sites in Nichols boat basin at the mouth of the river throughout the year. Temperatures are recorded hourly. Data summary includes monthly maximum, minimum, average and 7-day average water temperatures. Data is used to assess water quality for salmonids and compliance with pertinent standards. Data is shared with ODEQ for total maximum daily load analyses and is provided to other entities upon request. | $13,200 | 2.99% | 10/01/2023 | 09/30/2024 |
| H | 238709 | 157 | Collect/Generate/Validate Field and Lab Data | Record stream flows in the Hood River basin. | Record stream flows in 5 streams near their confluences. These include, Rogers creek, Neal Creek, Odell Creek, Dog River, and E. Fork Hood River below the E.F.I.D irrigation intake. Maintain staff and pressure gages and record velocities monthly. Data will be used generate multi-year baseline flows and in-stream flow compliance. | $13,200 | 2.99% | 10/01/2023 | 09/30/2024 |
| I | 238710 | 157 | Collect/Generate/Validate Field and Lab Data | Update run forecast models and generate spring Chinook salmon preseason adult run size estimate for upcoming run year | The HRPP uses multiple regression models to estimate upcoming Chinook and steelhead runs and calculate confidence intervals around those estimates. The models were developed under subcontract by WEST inc. in 2007 and the software required for those is outdated and no longer supported. Mount Hood Environmental (MHE) will review the forecast models and produce a modernized version that can be used on contemporary machines. The model will be constructed using R statistical software along with documentation and distributed to CTWS staff via GitHub or similar software development platform.
Once models are updated HRPP staff will forecast the 2024 Hood River adult spring Chinook salmon run to the mouth of the Hood River and determine if predicted numbers are adequate to allow a tribal and/or sport fisheries in the Hood River sub-basin. | $11,000 | 2.49% | 10/01/2023 | 09/30/2024 |
| J | 238711 | 157 | Collect/Generate/Validate Field and Lab Data | Spring Chinook salmon tribal harvest monitoring | Estimate tribal harvest of spring Chinook in the Hood River basin using creel surveys. Biological and social
data will be recorded. In addition to harvest estimates, the creel results will be used to document tribal fishery development in the Hood River. Fish encountered by creel crew will be inspected for PIT tags and other marks. | $22,068 | 5.00% | 10/01/2023 | 09/30/2024 |
| K | 238712 | 157 | Collect/Generate/Validate Field and Lab Data | Spring Chinook spawning surveys | Determine 2024 spring Chinook salmon spawning distribution and condition in the Hood River sub-basin by conducting ground based spawning and carcass surveys along the entire length of the West Fork and selected reaches in seven other basin streams. Redds will be enumerated and locations will be recorded. Carcasses will be inspected for fin marks, PIT tags, and other marks and/or tags. | $17,200 | 3.90% | 10/01/2023 | 09/30/2024 |
| L | 238713 | 156 | Develop RM&E Methods and Designs | Develop study design and methodology for eDNA sampling to monitor fish distribution | Historically, distribution of fish species in the Hood River has been monitored with electrofishing or snorkeling sample methods. However these sample methods are labor intensive which inhibits the amount of distribution data that can be collected annually. Furthermore, the characteristics of the Hood River, being a relatively large and flashy stream with poor access to many areas and glacial turbidity in may reaches during normal summer sampling periods, limits feasibility of traditional methods in many locations. In recent years there have been substantial advances in the environmental DNA (eDNA) technology that have made it both cheaper and more effective for identifying a species presence in a water body. Therefore the HRPP M&E project is seeking to transition our salmon distribution monitoring to utilize eDNA. During FY 24 we will develop study and sample designs, and identify a genetics lab for analysis, for eDNA sampling to presumably be implemented beginning in FY 25. There could be an opportunity to collaborate and potentially cost share with the US Forest Service, which has already employed eDNA sampling for bull trout and pacific lamprey in the Hood River watershed. | $6,050 | 1.37% | 10/01/2023 | 09/30/2024 |
| M | 238714 | 157 | Collect/Generate/Validate Field and Lab Data | Hood River subbasin juvenile and smolt abundance monitoring | With the termination of the ODFW M&E project 1988-053-04 in 2021, rotary screw trapping sites used to estimate smolt production in the Hood River sub-basin have no longer been operated by ODFW. The CTWS M&E project 1988-053-03 took over the screw trapping at the main-stem location for 2023. ODFW has shown interest to resume trapping operations at the main-stem site only. For 2024, ODFW and CTWS will be jointly operating 2 traps (side by side) in this location from March 15th -June 30th, conditions and staffing dependent.
Fish collected will be identified to species and bio sampled. Sampling will include measurement of fork length, collection of a fin clip tissue sample, collection of scales, and implanting a PIT tag. The PIT tag will be used for mark recapture methods to estimate population sizes of out-migrating Steelhead and Chinook salmon smolts and subsequent migration survival and adult return estimates. Tissue and scales will be used for population productivity analysis. | $124,306 | 28.16% | 10/01/2023 | 09/30/2024 |
| N | 238715 | 157 | Collect/Generate/Validate Field and Lab Data | Genetic based population monitoring of natural produced steelhead and spring Chinook in the Hood River | The overall objective is to utilize genetic markers for population assessment of steelhead trout and Chinook salmon in the Hood River. A sibship analysis will be used to assess number of successful breeders for a brood year, effective population size, and estimated spawning escapement. Steelhead samples will be assessed for run timing markers to determine the proportions of the population that are summer run and winter run.
Tissue samples collected from various sites in the Hood River system will be analyzed with genetic markers. Samples will be primarily from collections of juveniles at migrant traps on the mainstem Hood River during the field season, as well as archived tissue from previous collections at ODFW operated screw traps.
DNA will be extracted from approximately 4,000 steelhead samples and genotyped with between 300-500 SNP markers. For data collection of genotypes for the 4,000 fish, the Polymerase Chain Reaction (PCR) will be performed using genotyping-in-thousands by sequencing (GT-seq) protocols and DNA fragments will be genotyped with an Illumina NextSeq instrument (Illumina Inc., San Diego, CA, USA). Alleles for each locus/sample will be scored and a spreadsheet containing all genotype information will be compiled. In addition, this current contract funding includes the analysis of data that has been collected under the previous contract funding.
Genetic and genomic data will be analyzed with statistical tests to address the following questions:
1) Genetic composition of steelhead samples from within the Hood River:
a. What is the natural origin population abundance of steelhead in the Hood River, including the number of successful breeders, effective population size, and spawning escapement, by brood year?
b. What is the composition of winter and summer-run fish in the Hood River?
c. How have natural origin stocks of steelhead in the Hood River been influenced by past hatchery supplementation programs, and how do they respond after the cessation of the supplementation programs?
A formal written report will be distributed to the HRPP containing a project description, detailed methods, all results including figures and tables, and a discussion of the results including overall conclusions from the project, for inclusion in contract progress reporting to BPA. Additionally, a coauthored manuscript of the report may be prepared for submission to a peer reviewed journal. If possible, a meeting will be planned between HRPP biologists, collaborating entities, and CRITFC geneticists to coordinate statistical analyses and reporting. | $129,291 | 29.29% | 10/01/2023 | 09/30/2024 |
| O | 238716 | 162 | Analyze/Interpret Data | Perform data analysis and modeling to determine salmon and steelhead population abundance and productivity | The HRPP has been conducting monitoring and evaluation activities to track status of managed anadromous fish stocks and assess hatchery supplementation programs for native summer and winter steelhead and reintroduced spring Chinook salmon since its founding in the early 1990’s. The latest program review by the Independent Scientific Review Panel (ISRP) for the Northwest Power and Conservation Council (NPCC) was recently finalized in February of 2022 and proposes a monitoring program notably different from the historic Hood River program due to significant management changes and divestment of some previous project components. Due to the loss of previous HRPP resources (ex. the steelhead weir operated by ODFW) the new monitoring strategy will rely heavily on genetic analysis and sophisticated population and productivity modeling. These sophisticated statistics and modeling are beyond the capacity of the field staff and thus analytical support will be contracted from MHE to produce the necessary analyses from the field data collected by CTWS crews and genetic data provided by CRITFC.
The HRPP will operate rotary screw traps on mainstem Hood River, as well as a fyke trap at the Farmers Irrigation District water diversion on the mainstem Hood River. HRPP staff will collect biometric data and implant PIT tags in captured juveniles and release them upstream from the traps to facilitate recapture events for trap efficiency analysis. MHE staff will be available to assist trap installation and coordination of data collection, as needed on a time and materials basis. To estimate total out-migrating juvenile steelhead abundance, MHE will use pooled Petersen methodology, Similar to previous HRPP operations.
Traditional estimates of adult steelhead escapement will not be available after the 2023 or 2024 run years due to the termination of the ODFW project that installs and operates a resistance board weir to collect winter steelhead. The HRPP will replace previous ODFW adult steelhead estimate methods with genetics-based techniques and analysis to provide alternative abundance metrics, which include; spawning escapement (Nc), successful breeders (Nb), and effective population size (Ne), by brood year. These metrics will be determined via sibship analysis of juvenile offspring sampled at smolt traps operated by the HRPP. Gene markers for run timing (i.e. summer or winter) will be utilized to facilitate parsing out estimates for both summer and winter stocks endemic to the Hood River. Scale aging will be used to assign smolts to brood year. CTWS will provide mounted scale samples collected from smolts to MHE staff for the aging analysis. Laboratory genetic analysis will be conducted by CRITFC at the Hagerman Genetics Lab under a separate subcontract. MHE will collaborate with CRITFC to determine analytical methods used in the sibship analysis. Genotype data and sibship results generated by CRITFC will be provided to MHE for review and reporting adult abundance estimates.
Winter steelhead productivity in the Hood River will be examined using a stock-recruitment model within a Bayesian hierarchical framework. This method utilizes a state-space model that estimates process error (unexplained variation due to biotic and abiotic factors) and observation error (variation due to imperfect fish counts). The model will estimate adult-to-adult recruitment and can be expanded to predict adult-to-smolt recruitment. A suite of potential covariates will be tested to determine their influence on productivity, including Northern Pacific Gyre Oscillation, prior hatchery steelhead smolt releases, ongoing spring chinook hatchery smolt releases, proportion hatchery-origin spawners (pHOS), proportion of natural influence (PNI), Hood River flow during juvenile rearing and outmigration, Hood River flow during spawning events, and avian and pinniped predator abundance indices. The resulting model will quantify the influence of steelhead and spring Chinook hatchery supplementation and significant environmental factors on natural productivity, as well as provide predicted equilibrium and maximum recruitment of Hood River winter steelhead.
A formal written report will be distributed to the HRPP containing a project description, detailed methods, all results including figures and tables, and a discussion of the results including overall conclusions from the project, for inclusion in contract progress reporting to BPA. Additionally, a coauthored manuscript may be prepared for submission to a peer reviewed journal. If possible, a meeting will be planned between HRPP biologists and CRITFC geneticists to coordinate statistical analyses and reporting. | $39,635 | 8.98% | 10/01/2023 | 09/30/2024 |
| P | 241056 | 132 | Produce Progress (Annual) Report | Produce RM&E Annual Report for 10/1/2017 to 9/30/2018 | Prepare an annual report summarizing data and activities for 2017-18. The report will be formatted to meet BPA's RM&E reporting requirements. Additional reports in other formats may be produced as needed to fulfill agency needs. | $0 | 0.00% | 03/01/2024 | 04/30/2024 |
| Q | 241098 | 132 | Produce Progress (Annual) Report | Produce RM&E Annual Report for 10/1/2018 to 9/30/2019 | Prepare an annual report summarizing data and activities for 2018-19. The report will be formatted to meet BPA's RM&E reporting requirements. Additional reports in other formats may be produced as needed to fulfill agency needs. | $100 | 0.02% | 04/01/2024 | 06/30/2024 |
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