FY 2003 Mainstem/Systemwide proposal 200303700

Section 1. General administrative information
Section 2. Past accomplishments
Section 3. Relationships to other projects
Section 4. Budgets for planning/design phase
Section 5. Budgets for construction/implementation phase
Section 6. Budgets for operations/maintenance phase
Section 7. Budgets for monitoring/evaluation phase
Section 8. Budget summary

Reviews and Recommendations

Additional documents

Title	Type
35039 Narrative	Narrative
35039 Powerpoint Presentation	Powerpoint Presentation
35039 Sponsor Response to the ISRP	Response

Section 1. Administrative

Proposal title	The influence of hatcheries and their products on the health and physiology of naturally rearing fish
Proposal ID	200303700
Organization	U.S. Geological Survey (USGS)
Proposal contact person or principal investigator
Name	Matthew G. Mesa
Mailing address	Columbia River Research Laboratory 5501A Cook-Underwood Road Cook, WA 98605
Phone / email	5095382299 / [email protected]
Manager authorizing this project	Jim Seelye
Review cycle	Mainstem/Systemwide
Province / Subbasin	Mainstem/Systemwide /
Short description	This research will determine whether standard hatchery or supplementation operations influence the concentration of Renibacterium salmoninarum in streams and subsequently affects the health of naturally-rearing salmonids
Target species	Spring chinook salmon, steelhead, and other hatchery-reared and wild salmonids

Project location

Latitude	Longitude	Description
47.182	-120.9798	Cle Elum Supplementation and Research Facility, Chinook Way, Cle Elum, WA, 98922
45.7225	-121.5323	Spring Creek Hatchery Ponds on the Big White Salmon River
		U.S. Geological Survey, Western Fisheries Research Center, 6505 N.E. 65th St., Seattle, WA 98115
		U.S. Geological Survey, Columbia River Research Center, 5501A Cook-Underwood Rd., Cook, WA 98605

Reasonable and Prudent Alternatives (RPAs)

Sponsor-reported:

RPA
184
188

Relevant RPAs based on NMFS/BPA review:

Reviewing agency	Action #	BiOp Agency	Description
NMFS	Action 184	NMFS	The Action Agencies and NMFS shall work within regional prioritization and congressional appropriation processes to establish and provide the appropriate level of FCRPS funding for a hatchery research, monitoring, and evaluation program consisting of studies to determine whether hatchery reforms reduce the risk of extinction for Columbia River basin salmonids and whether conservation hatcheries contribute to recovery.
NMFS/BPA	Action 184	NMFS	The Action Agencies and NMFS shall work within regional prioritization and congressional appropriation processes to establish and provide the appropriate level of FCRPS funding for a hatchery research, monitoring, and evaluation program consisting of studies to determine whether hatchery reforms reduce the risk of extinction for Columbia River basin salmonids and whether conservation hatcheries contribute to recovery.

Section 2. Past accomplishments

Year	Accomplishment

Section 3. Relationships to other projects

Project ID	Title	Description
200007200	Heritability of Disease Resistance and Immune Function in Chinook Salmon	Should provide complementary information for optimizing hatchery operations
199506325	Yakima Fisheries Monitoring And Evaluation Project	Should provide more direct and complementary information regarding the potential for pathogen transmission from hatchery to wild fish

Section 4. Budget for Planning and Design phase

Task-based budget

Objective	Task	Duration in FYs	Estimated 2003 cost	Subcontractor

Outyear objectives-based budget

Objective	Starting FY	Ending FY	Estimated cost

Outyear budgets for Planning and Design phase

Section 5. Budget for Construction and Implementation phase

Task-based budget

Objective	Task	Duration in FYs	Estimated 2003 cost
Objective 1. Determine if salmonid hatcheries amplify Rs concentrations in effluent water or outfalls and subsequently influence the health of fish residing below the hatchery	1a. Compare existing and modified methods for detection and quantification of Rs in water samples.	2-3	$86,225
	1g. Data analysis and reporting	4	$5,887
Objective 2. Determine whether release of hatchery fish from adult females with high Rs antigen levels can infect and ultimately influence the health of fish in the natural environment	2a. Design and construct artificial streams for hatchery-wild fish pathogen transmission studies	1	$164,946
Objective 3. Determine the influence of natural or artificial stocking of adult spring chinook salmon carcasses on Rs concentrations downstream.	3a. Quantify levels of viable Rs in spring chinook salmon carcasses at spawning and at monthly intervals for 4 months after storage in a hatchery freezer.	1	$34,553
	3i. Data analysis and reporting	4	$11,837

Outyear objectives-based budget

Objective	Starting FY	Ending FY	Estimated cost
Objective 1.	2004	2006	$895,427
Objective 2.	2004	2006	$766,548
Objective 3.	2004	2006	$410,495

Outyear budgets for Construction and Implementation phase

FY 2004	FY 2005	FY 2006
$652,993	$814,700	$604,777

Section 6. Budget for Operations and Maintenance phase

Task-based budget

Objective	Task	Duration in FYs	Estimated 2003 cost	Subcontractor

Outyear objectives-based budget

Objective	Starting FY	Ending FY	Estimated cost

Outyear budgets for Operations and Maintenance phase

Section 7. Budget for Monitoring and Evaluation phase

Task-based budget

Objective	Task	Duration in FYs	Estimated 2003 cost	Subcontractor

Outyear objectives-based budget

Objective	Starting FY	Ending FY	Estimated cost

Outyear budgets for Monitoring and Evaluation phase

Section 8. Estimated budget summary

Itemized budget

Item	Note	FY 2003 cost
Personnel	FTE: GS-13/4, 0.35 FTE; GS-7/1, 0.65 FTE; GS-8, 1.8 FTE	$93,556
Fringe		$30,025
Supplies	Artificial streams, assay supplies	$75,384
Travel		$17,222
Indirect	@ 33.5%	$77,261
Subcontractor		$10,000
		$303,448

Total estimated budget

Total FY 2003 cost	$303,448
Amount anticipated from previously committed BPA funds	$0
Total FY 2003 budget request	$303,448
FY 2003 forecast from 2002	$0
% change from forecast	0.0%

Cost sharing

Organization	Item or service provided	Amount	Cash or in-kind
U.S. Geological Survey, Western Fisheries Research Center	Salaries and benefits (calculated for the duration of the project)	$328,099	in-kind
U.S. Fish and Wildlife Service, Olympia and Lower Columbia Fish Health Centers	Salaries and benefits (duration of project)	$160,000	in-kind
Washington Department of Fish and Wildlife	Salaries and benefits (duration of project)	$20,000	in-kind

Reviews and recommendations

This information was not provided on the original proposals, but was generated during the review process.

REVIEW:
ISRP Preliminary Review (ISRP 2002-13)

Recommendation:
Fundable only if response is adequate

Date:
Aug 2, 2002

Comment:

This is a well designed program that will address three major issues: do hatcheries amplify the presence of Rs in the wild (water and fish), do hatchery juveniles with high Rs levels pose a risk to wild juveniles (tested in artificial stream tanks), and do carcasses outplanted for nutrient supplementation pose a Rs risk to the natural environment. There are two issues to note: the methodology for detection of Rs in large water samples is uncertain (but expected to be functional within a year), and several aspects of objective 3 depend on the freezing treatment of carcasses. For the latter, if freezing does kill the Rs bacteria then the remainder of objective 3 tasks (3b-3h) will not be conducted (requiring a budget adjustment).

It is not certain that the three proposed hatchery sites meet their stated (5) criteria. Added justification of the sites should be provided and the proponents should seek Regional input regarding these sites before implementing the study.

What artificial streams would be used in objective 2? It seems that these are constructed fiberglass raceways but the point is not clearly presented in the proposal.

What will be the statistical methods of analysis?

Action Agency/NMFS RME Group Comments:

HARVEST AND HATCHERY SUBGROUP -- Address critical element of RPA? Not relevant to RPA 182.

This proposal would relate to RPA 184, since hatchery reforms include protocols to reduce disease transmission. Diseased wild fish would be less likely to survive to adult, which would affect the risk of extinction for listed fish.

Relevant to RPA 184 and planning of hatchery reforms. Investigates influence of salmonid hatcheries and hatchery fish on transmission of disease to wild fish. Before the value of a reform can be assessed, the occurrence of the problem needs to be assessed.

Scope? [ESU's covered, Transferability, Species covered] Spring Chinook, steelhead, and other hatchery-reared salmonids. Results generally transferable to other hatcheries and other ESUs, but may be pathogen specific.

Study design adequate, as is, or as may be modified? Studies could also be combined with the heritability studies on disease resistance and immune function, this may also provide information on whether conservation hatchery breeding protocols may affect genetic traits for disease resistance. This affects the degree to which conservation hatcheries may contribute to recovery, at a genetic, in addition to a demographic, level (another topic under RPA 184).

Could this proposal examine other pathogens at the same time?

REVIEW:
ISRP Preliminary Review

Recommendation:
Response required

Date:
Aug 8, 2002

Comment:

What artificial streams would be used in objective 2? It seems that these are constructed fiberglass raceways but the point is not clearly presented in the proposal.

What will be the statistical methods of analysis?

REVIEW:
CBFWA Funding Recommendation

Recommendation:
High Priority

Date:
Oct 24, 2002

Comment:

The budget for this project needs to be closely scrutinized. The carcass portion of the project may be underway through another project or lab. (Check with Susan Gutenberg, Spring Creek Fish Health Center)

REVIEW:
ISRP Final Review (ISRP 2002-14)

Recommendation:
Fund

Date:
Nov 5, 2002

Comment:

Fundable. We agree with the CBFWA review and High Priority ranking. This is a well-designed program that will address three major issues: 1) do hatcheries amplify the presence of Renibacterium salmoninarum (Rs) in the wild (water and fish); 2) do hatchery juveniles with high Rs levels pose a risk to wild juveniles (tested in artificial stream tanks); and 3) do carcasses outplanted for nutrient supplementation pose a Rs risk to the natural environment. There are two issues to note: the methodology for detection of Rs in large water samples is uncertain (but expected to be functional within a year), and several aspects of objective 3 depend on the freezing treatment of carcasses. For the latter, if freezing does kill the Rs bacteria then the remainder of objective 3 tasks (3b-3h) will not be conducted (requiring a budget adjustment).

The response was adequate for both the ISRP and RME concerns. Project sponsors explained the status of developing an Rs detection method and what it will likely be. They provided justification for the tentative choice of hatchery sites and demonstrated how regional input will be used in the choice. They explained the nature of the raceways to be used and indicated their intended methods of statistical analysis.

REVIEW:
NMFS Review

Recommendation:

Date:
Jan 21, 2003

Comment:

Statement of Potential Biological Benefit
Indirect biological benefits, assessment of BKD transmission between hatchery and wild fish.

Comments
The results of this analysis of BKD concentrations and transmission could provide important insights that may affect many hatchery programs (and their reforms), and the practice of outplanting carcasses for nutrient enrichment. Could other disease agents be evaluated?

Already ESA Required?
No

Biop?
Yes

REVIEW:
NWPPC Funding Recommendation

Recommendation:
Fund (Tier 2) - Fund if funding becomes available

Date:
Jun 11, 2003

Comment:

Category:
2. Projects that Council staff would recommend if funding becomes available

Comments:
Identified as Bi-op critical