FY07-09 proposal 199602000

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Section 1. Administrative

Proposal titlePit Tagging Spring/Summer Chin
Proposal ID199602000
OrganizationColumbia River Fisheries Program Office
Short descriptionAdult and juvenile PIT tag recovery data are analyzed to compare survival estimates for transported fish of known origin, downriver stocks, wild and hatchery transported fish and fish handled and not handled at dams.
Information transferTo address the question, "can transportation of fish to below Bonneville Dam compensate for the effect of the hydro system on juvenile survival rates of the Snake River spring and summer Chinook salmon during their downstream migration?" The information will be posted on a website and used to publish reports.
Proposal contact person or principal investigator
Contacts
ContactOrganizationEmail
Form submitter
Dona Watson Fish Passage Center dwatson@fpc.org
All assigned contacts
Robert Haverkate USFWS-CRFPO Bob_Haverkate@fws.gov
Howard Schaller USFWS-CRFPO howard_schaller@fws.gov

Section 2. Locations

Province / subbasin: Mainstem/Systemwide / Systemwide

LatitudeLongitudeWaterbodyDescription
46.510318 -116.371537 Dworshak Hatchery
42.61139 -114.4828 Magic Valley Hatchery
45.51031 -121.8351 Carson Hatchery
42.76639 -114.8736 Hagerman Hatchery
45.8958 -119.4903 Irrigon Hatchery
45.7333 -118.2 Looking Glass Hatchery
45.5666 -116.8333 Imnaha River AP Release Site
45.1833 -117.8167 Catherine Creek AP Release Site
46.42450 -116.9174 Clearwater River Clearwater Trap
46.06 -116.98 Grande Ronde River Grande Ronde Fish Trap
46.30 -116.18 North Fork Clearwater River Clearwater Hatchery
44.8914 -116.0793 Payette River McCall Hatchery
Salmon River Rapid River Hatchery
45.66 -116.29 Salmon River Salmon River Trap
46.42 -117.03 Snake River Snake River Trap (Lewiston)
42.66361 -114.6783 Snake River Niagara
45.6120 -122.4950 USFWS-CRFPO office at 1211 SE Cardinal Court, Ste 100, Vancouver, WA 98683

Section 3. Focal species

primary: Chinook All Populations
primary: Steelhead All Populations

Section 4. Past accomplishments

YearAccomplishments
2005 Completed the 2003/04 Annual Report for Migration Years 1997-2002 Mark/Recapture Activities and Bootstrap Analysis in April 2005. Completed the 2005 Annual Report Mark/Recpature Activities and Bootstrap Analysis in December 2005
2004 Conducted a Comparative Survival Study Workshop.
2003 Completed the 2002 Annual Report for Migration Years 1997-2000 Mark/Recapture Activities and Bootstrap Analysis.
2002 Finalized the annual status report for Migration Years 1997-2000 Mark/Recapture Activities.
2001 Completed the annual status report for Migration Years 1997-2000 Mark-Recapture Activities (published as final 2/2/2002).
2000 Completed annual status report of adult returns through 1998 and juvenile data through 1999.
1999 Application of tags, reporting juvenile survival indices, travel time, design and installation of Rapid River volitional detector, annual report of adult returns and SARs
1998 Application of tag groups, reporting juvenile survival indices, and travel time
1997 Application of tags, reporting of juvenile survival estimates
1996 Application of tags, reporting of juvenile survival estimates

Section 5. Relationships to other projects

Funding sourceRelated IDRelated titleRelationship
BPA 198712700 Smolt Monitoring By Non-Feder Utilizes wild Chinook and steelhead PIT-tagged at SMP traps including both fish tagged specifically for CSS and SMP projects.
BPA 199008000 Columbia Basin Pit-Tag Informa All CSS PIT-tag data is submitted to PTAGIS for storage on that regional database.
BPA 199008001 Pit Tag Purchases All CSS applied PIT tags are purchased from BPA. In addition, CSS may use PIT-tag data located on PTAGIS from other sources, if available.

Section 6. Biological objectives

Biological objectivesFull descriptionAssociated subbasin planStrategy
Estimate SARs Estimate smolt-to-adult survival rate (SAR) for transported wild and hatchery stream type Chinook and steelhead. None [Strategy left blank]
SAR Hydro Goal Determine if SAR rates are significantly different from the interim SAR hydro goal. None [Strategy left blank]
T/C Ratios Estimate transport/control ratio and in-river survival rates for wild and hatchery yearling Chinook and steelhead concurrently over a number of years in order to span a range of environmental conditions. None [Strategy left blank]
Upstream/Downstream Compare SARs of transported and downriver indicator stocks. None [Strategy left blank]

Section 7. Work elements (coming back to this)

Work element nameWork element titleDescriptionStart dateEnd dateEst budget
PIT Tags CSS Project PIT tag requiment USFWS will purchase and distribute the PIT TAGS needed by each entity for the CSS. The total number of tags anticipated for 2007 is 315,500 at an estimated cost of $2.25 per tag. 12/1/2006 11/30/2009 $2,172,470
Biological objectives
Metrics
Produce Environmental Compliance Documentation ESA Permit Project sponsor will ensure that all ESA permits are obtained and ESA reporting is completed. 12/1/2006 11/30/2009 $4,590
Biological objectives
Metrics
Coordination Intra-agency coordination to facilitate internal agency discussions and policy approvals. The project sponsor, marking agencies (USFWS, ODFW, & IDFG) and the CSS Oversight and Analysis Committee members (WDFW, CRITFC, ODFW, IDFG, USFWS) must coordinate within the project and with other agencies as necessary to complete the objectives and tasks of the study. 12/1/2006 11/30/2009 $65,800
Biological objectives
Metrics
Manage and Administer Projects IDFG and ODFW management, administration and overhead. IDFG and ODFW provide management and administration of their respective on-site marking sites for the CSS project. IDFG at the Rapid River Hatchery, McCall Hatchery, Clearwater Hatchery, Niagara Springs Hatchery, and the Salmon and Clearwater traps. ODFW at the Lower Grande Ronde River trap and Lookingglass Hatchery and Irrigon Hatchery. 12/1/2006 11/30/2009 $218,890
Biological objectives
Metrics
Manage and Administer Projects USFWS (CRFPO) management, administration and overhead of CSS contract As the project sponsor, CRFPO provides overall management and administration of the CSS project and the CSS Oversight Committee portion of the project. This includes administration and management of implanting PIT tags at Dworshak NFH, Carson NFH, Hagerman NFH, and Magic Valley NFH. 12/1/2006 11/30/2009 $934,940
Biological objectives
Metrics
Provide Technical Review Review and provide comments on draft annual CSS report The CSS Oversight and Analysis committee members from ODFW, WDFW, CRITFC and IDFG and the USFWS employees assigned to this task will review the draft annual CSS report. 12/1/2006 11/30/2009 $230,600
Biological objectives
Metrics
Produce Annual Report Annual Report USFWS employees of the CSS Oversight and Analysis Committee review and analyse the data from the study and write a draft annual report. 12/1/2006 11/30/2009 $188,980
Biological objectives
Metrics
Produce Annual Report IDFG and ODFW to provide annual summary reports to USFWS IDFG and ODFW will provide annual summary reports of CSS activities and results at their respective CSS tagging sites to USFWS for inclusion in its CSS annual report. 12/1/2006 11/30/2009 $75,220
Biological objectives
Metrics
Produce Status Report Produce Quarterly PISCES Status Reports Complete quarterly status reports in PISCES as required by the contract. 12/1/2006 11/30/2009 $3,210
Biological objectives
Metrics
Analyze/Interpret Data Response to comments, questions, issues, recommendations The Oversight and Analysis Committee (and USFWS employees) are responsibe to develop written comments, oral presentations, and to participate in discussions of specific issues surrounding the CSS. This includes responding to specific technical questions that address statistical design and to more general inquiries regarding study data and analysis. 12/1/2006 11/30/2009 $321,340
Biological objectives
Metrics
Collect/Generate/Validate Field and Lab Data IDFG, ODFW & USFWS will collect/generate/validate field and lab data at CSS respective sites in accordance with the CSS Work Plan for 2007. IDFG will perform this work at Rapid River, McCall, Clearwater, and Niagara Springs Hatcheries and the Snake, Salmon & Clearwater Traps. ODFW sites are Lookingglass and Irrigon Hatcheries and the Lower Grande River trap; USFWS will tag at Carson and Dworshak, Hagerman, and Magic Valley National Fish Hatcheries. 12/1/2006 11/30/2009 $158,680
Biological objectives
Metrics
Develop RM&E Methods and Designs Development/Refinement of Study Statistical Design The Oversight and Analysis Committee (and the USFWS employees assigned to this task) in its annual review of the study data and analysis may determine that specific elements of the statistical design need to be modified to meet the original study objectives. The Oversight Committee will develop alternatives and modifications that are determined to be required. These modifications might be precipitated from outside peer review comments and recommendations such as those prepared by the ISRP. 12/1/2006 11/30/2009 $291,650
Biological objectives
Metrics
Install Fish Monitoring Equipment IDFG Installation of Clearwater River Fish Trap Install Clearwater River trap nd have operational by March 6 to collect Chinook and steelhead for PIT tagging for CSS all naturally produced (wild) Chinook and steelhead trout, in excess of Smolt Monitoring Program (SMP) need, March - June 2007. 12/1/2006 11/30/2009 $34,120
Biological objectives
Metrics
Mark/Tag Animals IDFG, ODFW and USFWS to implant PIT tags in accordance with the 2007 CSS Work Plan. ODFW-Lower Grande River trap, Lookingglass and Irrigon Hatcheries. IDFG- Salmon, Snake, and Clearwater traps; Rapid River, McCall, Clearwater and Niagara Springs Hatcheries. USFWS - Carson, Dworshak, Hagerman, and Magic Valley National Fish Hatcheries. 12/1/2006 11/30/2009 $629,820
Biological objectives
Metrics
Submit/Acquire Data IDFG, ODFW and USFWS to submit data to PTAGIS, and others as appropriate IDFG, ODFW, and USFWS submit and acquire date to and from appropriate entities for their respective CSS marking sites as required per the contract. 12/1/2006 11/30/2009 $46,730
Biological objectives
Metrics

Section 8. Budgets

Itemized estimated budget
ItemNoteFY07FY08FY09
Personnel IDAHO, ODFW, USFWS $423,255 $435,950 $453,390
Fringe Benefits IDAHO, ODFW, USFWS $147,500 $151,950 $158,000
Supplies IDAHO, ODFW, USFWS $41,150 $42,400 $44,100
Travel IDAHO, ODFW, USFWS $34,570 $35,600 $37,100
Capital Equipment PIT Tags $709,875 $709,875 $709,875
Overhead IDAHO, ODFW, USFWS (includes overall administration of the CSS project) $342,650 $352,900 $367,000
Other Professional fees, trailer moves, hatchery marking $58,000 $59,750 $62,150
Totals $1,757,000 $1,788,425 $1,831,615
Total estimated FY 2007-2009 budgets
Total itemized budget: $5,377,040
Total work element budget: $5,377,040
Cost sharing
Funding source/orgItem or service providedFY 07 est value ($)FY 08 est value ($)FY 09 est value ($)Cash or in-kind?Status
LSRCP PIT tags and implant 50,000 hatchery steelhead at LSRCP hatcheries in Idaho $147,500 $149,250 $150,720 In-Kind Under Review
Totals $147,500 $149,250 $150,720

Section 9. Project future

FY 2010 estimated budget: $1,923,195
FY 2011 estimated budget: $1,923,195
Comments: Estimated based on existing program

Future O&M costs:

Termination date: None projected
Comments: Long term study

Final deliverables: Annual Status Reports

Section 10. Narrative and other documents

[Attached Document] Jul 2006

Reviews and recommendations

FY07 budget FY08 budget FY09 budget Total budget Type Category Recommendation
NPCC FINAL FUNDING RECOMMENDATIONS (Oct 23, 2006) [full Council recs]
$915,444 $0 $0 $0 Expense Basinwide Under Review
NPCC DRAFT FUNDING RECOMMENDATIONS (Sep 15, 2006) [full Council recs]
$765,000 $765,000 $765,000 $0 Basinwide

ISRP PRELIMINARY REVIEW (Jun 2, 2006)

Recommendation: Response requested

NPCC comments: In general, this is a supportable proposal but a response is needed to address issues raised in the ISAB's recent report: Review of the 2005 Comparative Survival Studies’ (CSS) Annual Report and Applicability of Comparative Survival Studies’ Analysis Results. See www.nwcouncil.org/library/isab/isab2006-3.htm. Specifically, the proponents should respond to the following selected recommendations from the ISAB report (which was issued after this proposal was submitted): 1) It has been ten years since the CSS was initiated. The report that the ISAB reviewed was the latest in a series of annual progress reports, and thus lacking a holistic perspective. The ISAB recommends that the CSS produce a ten-year summary report providing an in-depth description of methods and detailed analyses and interpretation of the data in a retrospective style. 2) The CSS needs to more effectively present the methodologies used in their analyses (in this proposal as well as their annual report), so the criticism of complicated and convoluted formulas can be avoided. The scattered explanations in several annual progress reports could be consolidated in the ten-year summary recommended above. 3) The ISAB agrees with critics who express concern that two downriver sites (Carson Hatchery and John Day River) are probably insufficient to give accurate upriver-downriver comparisons of SARs. This concern is bolstered by the variability among upriver hatcheries shown by the CSS data. For this upriver-downriver comparison to be generally accepted, it seems prudent to add more downriver sites in the future. 4) Data on size of all PIT-tagged fish from hatcheries and other release sites should be included in the report in much greater detail. Size at release may be a significant factor in differential SARs. The ISAB recommends including a specific section in the report focusing on the potential effects of size at release on survival of all PIT-tagged fish. 5) Assumptions inherent in the analyses should be specifically tested, with continued vigilance toward avoiding bias. 6) Pre-assigning the intended routes of passage at the time of release into in-river and transport groups would greatly simplify calculation of SARs and eliminate much criticism of current methods that are unnecessarily complex. This modification to the study design is scheduled for implementation in 2007 (according to the 2005 Annual Report but this change in protocol should be indicated in the proposal). 7) Analyses could emphasize more diverse metrics of differential survival, thus avoiding the criticism that the project staff focuses mainly on contentious issues such as the relative survival of transported and in-river migrants (T/C ratios) and differential delayed mortality between transported and in-river migrants (D). Passage routes, numbers of dams bypassed, distance from ocean, different hatchery practices, and other features have been explored beyond the issue of transportation. Other comments: A timeline with years (1996 - current) should be included within the background section to improve the proposal. Details in this section are sparse and references are lacking. The proponents either assume that the reviewers know all the background and justification for this project or decided not to go through the work needed to provide the details. The project history section consists of only a few sentences and is lacking sufficient detail to provide project accomplishments and give adequate justification for continued support. For such a long-running project there have been a number of important accomplishments and completed documents that need to be listed in this section. Please refer to proposal #s 199102900, 199302900, and 198605000 for examples of proposals for long-running projects that have clearly laid out study designs and protocols, project histories with adequate detail, and strong justification for continued support.


ISRP FINAL REVIEW (Aug 31, 2006)

Recommendation: Fundable (Qualified)

NPCC comments: The response by the project sponsors was adequate, and they agreed with all ISRP comments and recommendations that were mostly taken from the recent ISAB review report (ISAB 2006-3). One of the major recommendations in that report was that the 10-year ongoing Comparative Survival Study (CSS) project lacked a holistic perspective and needed a summary report providing an in-depth description of methods and detailed analyses and interpretation of the data in a retrospective style. The CSS project responded that they would produce such a report in 2007. As most of the comments and recommendations in this review will be addressed in that report, it is critical that the ISRP/ISAB be involved in review of that report when it is released. The ISRP agreed with critics who express concern that two downriver sites (Carson Hatchery and John Day River) are probably insufficient to give accurate upriver-downriver comparisons of SARs. This concern is bolstered by the variability among upriver hatcheries shown by the CSS data. For this upriver-downriver comparison to be generally accepted, it seems prudent to add more downriver sites in the future. In response, the CSS will add another downriver site in the Warms Springs River for wild Chinook tagging for 2007 to complement the ongoing tagging in the John Day River. This is a positive action, however, additional downriver hatchery sites are even more important to add because at this time, five upriver hatcheries are being used as tagging sites and only one downriver. There needs to be better hatchery to hatchery comparisons, and adding several lower river hatcheries which show a range in return rates will provide a more realistic comparison in survival rates. If additional downriver tagging sites are to be added to the CSS, the project sponsors indicate that more funding must be made available, and the ISRP agrees that the budget will need to be adjusted accordingly. Reporting of results by the project has been good with Annual Reports to BPA for each year of the project. There is potential for production of peer reviewed papers considering project results and this should be considered in the near future.