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| A | 141000 | 165 | Produce Environmental Compliance Documentation | Produce environmental compliance documentation for BPA | Provide BPA with required EC documentation | $0 | 0.00% | 08/01/2015 | 07/31/2016 |
| B | 141001 | 119 | Manage and Administer Projects | Overall project administration | Overall project management to include BPA SOW and budget development and submittal as well as WDFW contracting and budget development. | $1,034 | 0.25% | 08/01/2015 | 07/31/2016 |
| C | 141002 | 157 | Collect/Generate/Validate Field and Lab Data | Collect adult DNA samples from steelhead | Operate Twisp weir as river conditions allow beginning no later than March 20. Trap and collect biological data (sex, length, origin, scales) and a tissue sample for DNA analysis from all wild fish and hatchery fish released to spawn naturally. Only returning naturally produced adults from the 2nd generation will need to be sampled between 2019 and 2025. In 2014, operation of the Twisp weir resulted in the capture of 190 adult steelhead, including 87 wild fish and 103 hatchery fish. Some of the wild fish were retained for a local broodstock program, and some hatchery fish were removed to control the proportion of hatchery fish on the spawning grounds, resulting in an approximate 1:1 hatchery:wild ratio in the spawning population upstream of the weir. | $0 | 0.00% | 08/01/2015 | 07/31/2016 |
| D | 141003 | 157 | Collect/Generate/Validate Field and Lab Data | Conduct steelhead spawning ground surveys | Conduct spawning grounds surveys twice a week in the Twisp River in an upstream direct whenever conditions allow. Identify spawning sites and mark with flagging and hand held GPS. If steelhead are present on the redd, identify the origin of the female and male(s) based on colored floy tag. Spawning ground surveys in 2014 documented 144 redds in the Twisp River and tributaries. No significant differences were found in hatchery and wild female spawning locations in 2009 - 2013, but wild steelhead spawned further upstream than hatchery females in 2014 (Kolmogorov-Smirnov test; P < 0.008). Most redds were found in the Twisp River mainstem (n = 134) and in the Methow Salmon Recovery Foundation Pond outlet channels (n = 6). | $0 | 0.00% | 08/01/2015 | 05/31/2016 |
| E | 141004 | 157 | Collect/Generate/Validate Field and Lab Data | Collect DNA from age-1 steelhead parr | Tissue samples of steelhead parr (age-1) will be collected during routine surveys conducted in the Twisp River. Sampling is scheduled to occur between July and October using a combination of angling, electrofishing, snorkel/seining (i.e., snerding), or night netting capture techniques. Parr tissue collections will begin in 2010 (2009 brood) and be complete in 2019 (2018 brood). Parr will be collected from throughout the spawning area and in similar spatial distribution as the redds of the parents. In addition, all potential resident O. mykiss parents (i.e., wild rainbow trout or hatchery residual steelhead) captured during the summer parr collection will also be DNA sampled and included as potential parents in the analysis. All fish captured will be PIT tagged to prevent double sampling. The location of each tagging event will be geo-referenced using hand held GPS devices. Sampling during 2014 resulted in 4,453 juvenile steelhead collected, of which, approximately 1,660 are estimated to be age-1 parr. | $22,286 | 5.46% | 08/01/2015 | 11/30/2015 |
| F | 141005 | 157 | Collect/Generate/Validate Field and Lab Data | Collect DNA from steelhead smolts at smolt trap | Tissue samples of steelhead smolts will be collected from rotary smolts trap operated in the lower Twisp River between 1 March and 1 July. At the beginning of the study only steelhead smolt from the corresponding brood years (determined from scale samples) will be included in the analysis. In subsequent years, all steelhead smolts captured and the smolt trap will be included in the analysis. Previously PIT tagged parr will be included in the smolt sample, but not previously PIT tagged smolts (i.e., double sampled). During the 2014 smolt trapping period, we captured and sampled 298 steelhead smolts at the Twisp River smolt trap. Peak capture (n = 67) occurred on 2 May, 2014. | $0 | 0.00% | 08/01/2015 | 07/01/2016 |
| G | 141006 | 157 | Collect/Generate/Validate Field and Lab Data | Collect Ecological and Redd Morphology Data on the Spawning Grounds | During spawning grounds surveys we will attempt to identify the origin of fish on as many redds as possible using colored floy tags or PIT tags that were deposited in redds. Data on life history traits to be collected will include, but not limited to:
Run timing at the Twisp weir (Julian date)
• Spawn timing (Julian date)
• Redd location (river kilometer)
• Spawner density
• Redd morphology and location
Dimensions (bowl and tailspill)
Water depth (multiple locations)
Water velocity (multiple locations)
Substrate composition (visual estimation)
• Habitat type (pool, riffle glide)
• Channel type (single or multiple)
• Location in channel (distance to bank in meters)
From surveys conducted in 2014, wild females had a significantly farther upstream spawning location than hatchery females. No significant difference in spawn timing was found between hatchery and wild females in 2009 - 2014. | $42,433 | 10.40% | 08/01/2015 | 07/31/2016 |
| H | 141007 | 162 | Analyze/Interpret Data | Analyze ecological data from spawning grounds | Determine if differences in measured traits exist between hatchery and wild steelhead. After obtaining initial estimates of relative reproductive success, we will address Objective 2 by conducting a multiple regression analysis adding the traits such as run timing, length, weight and morphology to the analysis in order to determine to what degree variation in these traits can explain any observed difference in fitness between hatchery and natural fish. This analysis will be conducted separately for the juvenile and adult samples. | $50,756 | 12.43% | 08/01/2015 | 07/31/2016 |
| I | 141008 | 157 | Collect/Generate/Validate Field and Lab Data | Genotype Juvenile Steelhead and Conduct Parentage Analysis | Tissue samples will be dissected to the appropriate size and DNA extracted using Machery-Nagel silica membrane-based kits following the manufacturer’s standard protocol. We will use the standard set of 13 SPAN microsatellite loci, plus an additional 2 microsatellite loci to construct multi-locus genotypes. The 15 microsatellite loci will be assembled into six multiplex PCR reactions. We will conduct PCR amplification using fluorescently end-labeled primers or vector tails and either AB 9700 or MJ-200 thermal cyclers. We will visualize microsatellites using an ABI 3730 automated DNA Analyzer, and alleles will be sized to numbers of basepairs and binned using an internal lane size standard (GS500Liz from Applied Biosystems) and GeneMapper software (Applied Biosystems). Parentage Analysis: We will use one of several programs available to calculate probabilities of parent-pairs and/or trios. The probabilities will be used first to exclude either adults or adult-pairs, and then will be used with simulations to test for the most likely parent-offspring pair or trio. Relative reproductive success: We will continue to calculate RRS at three different life stages (parr, smolt, and adult) for individuals of four ancestral types (i.e., Hf Hm, Hf Nm, Nf Hm, and Nf Nm) within the F1 generations. | $223,986 | 54.87% | 08/01/2015 | 07/31/2016 |
| J | 141009 | 157 | Collect/Generate/Validate Field and Lab Data | Genotype DNA Samples from Snake River Fall Chinook | Genotype fall Chinook samples.
Collections. Tissue samples were collected from Chinook salmon broodstock used at the Lyons Ferry Hatchery. Samples were preserved in 100% ethanol solution and sent to the Washington Department of Fish and Wildlife Molecular Genetics Laboratory in Olympia, WA for analysis.
The three labs (WDFW, IDFG and CRITFC) will need to all submit their data into the same data base (e.g. CRITFC’s and IDFG database) and submit information annually (number of analyses, etc…) to the run reconstruction team associated with project 2012-013-00 who will be responsible for rolling this information up and reporting it in their annual project reports. | $66,667 | 16.33% | 08/01/2015 | 07/31/2016 |
| K | 140999 | 185 | Produce CBFish Status Report | Periodic Status Reports for BPA | The Contractor shall report on the status of milestones and deliverables in Pisces. Reports shall be completed either monthly or quarterly as determined by the BPA COTR. 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 COTR. | $0 | 0.00% | 10/01/2015 | 07/31/2016 |
| L | 141011 | 132 | Produce Progress (Annual) Report | Submit Progress Report for Calendar Year 2015 | Develop technical report for 2015 calendar year. Reports describes field work and results that occurred in 2015. Activities to include adult trapping and DNA sampling, spawning grounds surveys, juvenile DNA sampling and parentage analysis. | $517 | 0.13% | 08/01/2015 | 05/01/2016 |
| M | 145600 | 202 | Produce BiOp RPA Report | BiOp RPA Report for CY 2015 | Projects that have claimed that they support one or more RM&E RPAs (i.e., RPAs 50-73) under the FCRPS BiOp are required to report their results. To facilitate the summary of these results across the entire Columbia River Basin, and to provide more clarity as to the format required under the BiOp, these reports are required to be completed online. If desired, the required information can be prepared in MS Word, and pasted into Taurus. For more guidance see https://www.cbfish.org/Content/tutorials/Reporting_Guidance_BiOp_2013.pdf. | $517 | 0.13% | 08/01/2015 | 03/15/2016 |
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