FY 2003 Mainstem/Systemwide proposal 200303500

Additional documents

TitleType
35029 Narrative Narrative
35029 Powerpoint Presentation Powerpoint Presentation
35029 Sponsor Response to the ISRP Response

Section 1. Administrative

Proposal titleTransfer IHN virus genetic strain typing technology to fish health managers
Proposal ID200303500
OrganizationUSGS, BRD, Western Fisheries Research Center (USGS)
Proposal contact person or principal investigator
NameGael Kurath
Mailing addressWestern Fisheries Research Center, 6505 NE 65th St, Seattle, WA 98115
Phone / email2065266583 / gael_kurath@usgs.gov
Manager authorizing this project
Review cycleMainstem/Systemwide
Province / SubbasinMainstem/Systemwide /
Short descriptionApplication of new genetic strain typing technology to epidemiology of IHN virus throughout the Columbia River basin, and transfer of technology to agency fish health laboratories.
Target speciessockeye (Okanogan River and Lake Wenatchee ESUs), chinook (all 7 Columbia River ESUs), steelhead (2 coastal and 3 inland ESUs), and rainbow trout
Project location
LatitudeLongitudeDescription
Western Fisheries Research Center, 6505 NE 65th St., Seattle, WA 98115
45.9574 -122.555 Merwin Hatchery in the Lewis River focus site
44.605 -121.2779 Round Butte Hatchery in the Round Butte focus site
45.6446 -121.9407 Bonneville Dam, adjacent the Bonneville Hatchery focus site
45.7314 -117.864 Lookingglass Hatchery in the Grande Ronde and Imnaha focus site
46.5149 -116.2939 Dworshak Dam, adjacent Dworshak Hatchery in the Clearwater focus site
Reasonable and Prudent Alternatives (RPAs)

Sponsor-reported:

RPA
184
188

Relevant RPAs based on NMFS/BPA review:

Reviewing agencyAction #BiOp AgencyDescription
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

YearAccomplishment
1994 Cloning and sequence analysis of all IHNV genes
1996 Development of genetic fingerprinting methods for IHNV strain typing and training sessions for interested managers
1998 Identification of mid-G nucleotide sequencing region appropriate for strain typing and phylogeny
2000 Emmenegger, E.J., Meyer, T.R., Burton, T.O., and Kurath, G. (2000) Genetic diversity and epidemiology of infectious hematopoietic necrosis virus in Alaska. Dis. Aquat. Org. 40:163-176.
2000 Anderson, E.D., Engelking, H.M., Emmenegger, E.J., and Kurath, G. (2000) Molecular epidemiology reveals emergence of a virulent IHN virus strain in wild salmon and transmission to hatchery fish. J. Aquat. Anim. Health 12:85-99. (invited feature article
2000 Troyer, R.M., LaPatra, S., and Kurath, G. (2000) Genetic analyses reveal unusually high diversity of infectious hematopoietic necrosis virus in rainbow trout aquaculture. J. Gen. Virol. 81:2823-2832.
2002 Emmenegger, E.J., and Kurath, G. (2002) Genetic characterization of infectious hematopoietic necrosis virus of coastal salmonid stocks in Washington State. J. Aquat. Anim. Health14:25-34.
2002 Completion of phylogenetic analysis of IHNV throughout its North American range. Submission of manuscript to Virology: Kurath et al., Phylogeography of infectious hematopoietic necrosis virus in North America.

Section 3. Relationships to other projects

Project IDTitleDescription
-9122 Implementation of ELISA-based segregation of adult chinook salmon for control of BKD. Model for the technology transfer in this proposal

Section 4. Budget for Planning and Design phase

Task-based budget
ObjectiveTaskDuration in FYsEstimated 2003 costSubcontractor
Outyear objectives-based budget
ObjectiveStarting FYEnding FYEstimated cost
Outyear budgets for Planning and Design phase

Section 5. Budget for Construction and Implementation phase

Task-based budget
ObjectiveTaskDuration in FYsEstimated 2003 costSubcontractor
1. IHNV strain typing service Tasks to be identified as they arise 3 $10,814
2. Strain typing for focus studies a.Lewis River focus study 1 $35,110
2. b.Round Butte focus study 1 $0
2. c.Bonneville focus study 1 $0
2. d.Grande Ronde and Imnaha focus study 1 $0
2. e.Clearwater focus study 1 $0
3. Technology transfer a.Training courses 3 $22,028
3. b.Provide start-up equipment and supplies 3 $30,438
4. Develop IHNV database a.Develop and enter WFRCdata 1 $13,350
4. b.Web-enable the database 1 $4,739 Yes
Outyear objectives-based budget
ObjectiveStarting FYEnding FYEstimated cost
1. IHNV strain typing service 2004 2006 $28,035
2. Strain typing for focus studies 2004 2005 $93,450
3. Technology transfer 2004 2006 $157,797
4. Develop IHNV database 2004 2004 $46,725
Outyear budgets for Construction and Implementation phase
FY 2004FY 2005FY 2006
$146,316$146,316$33,375

Section 6. Budget for Operations and Maintenance phase

Task-based budget
ObjectiveTaskDuration in FYsEstimated 2003 costSubcontractor
3. Technology transfer c.operations costs for client labs 2 $0
Outyear objectives-based budget
ObjectiveStarting FYEnding FYEstimated cost
3. Technology transfer 2004 2006 $28,000
Outyear budgets for Operations and Maintenance phase
FY 2004FY 2005FY 2006
$3,500$10,500$14,000

Section 7. Budget for Monitoring and Evaluation phase

Task-based budget
ObjectiveTaskDuration in FYsEstimated 2003 costSubcontractor
Outyear objectives-based budget
ObjectiveStarting FYEnding FYEstimated cost
Outyear budgets for Monitoring and Evaluation phase

Section 8. Estimated budget summary

Itemized budget
ItemNoteFY 2003 cost
Personnel FTE: 1.0, GS-11 project manager, for 8 months of FY03 (starting in Feb. 2003) $31,333
Fringe 28% $8,667
Supplies includes supplies WFRC, database development, technology transfer equipment,supplies, and $46,850
Travel estimate two visits to client labs per year at ~$200 each. $400
Indirect WFRC rate 33.5% $29,229
$116,479
Total estimated budget
Total FY 2003 cost$116,479
Amount anticipated from previously committed BPA funds$0
Total FY 2003 budget request$116,479
FY 2003 forecast from 2002$0
% change from forecast0.0%
Cost sharing
OrganizationItem or service providedAmountCash or in-kind

Reviews and recommendations

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

Recommendation:
Fundable only if response is adequate
Date:
Aug 2, 2002

Comment:

Response required. This is a well-written proposal from scientists who demonstrate high productivity and application of current methodologies. Their proposal for technology transfer is strengthened by their past success. The model transfer of IHNV strain typing technology to fish health labs serving the basin may serve for other significant pathogens.

There are three issues for response:

  1. the tasks associated with the technology transfer do not include "blind" tests of virus that the regional labs would process in order to confirm the accuracy of their work. Since several regional labs would be trained in these needed techniques, provided the necessary equipment, and then expected to contribute to the monitoring and control of the IHN M-clade, we suggest that regular testing for confirmation of methods should be incorporated.
  2. The authors suggest that the overall goal of this work is to document the distribution of the M-clade and to control its spread in the Columbia basin. The proposal is not very explicit, however, in how prevention or control of the spread would result. This should be more clearly explained in the proposal.
  3. We ask the proponents to consider a more active investigation of the M-clade distribution and control of its spread. The authors make a good case for the importance of this research and monitoring, but if the spread of M-clade is a threat to recovery, why not take an immediate active role in sampling and examination of the current distribution and then management of the virus? The budget could be adjusted appropriately.

We believe each of these points can be readily addressed by the authors and recommend a high priority for this proposal. The budget as presented seems very reasonable given the extent of risk presented by this virus.


Recommendation:
High Priority
Date:
Oct 24, 2002

Comment:

This technology has a great deal of application in fish culture and may be equivalent to the ELISA technique we currently use for control of bacterial kidney disease. This sequence-based technique could be more broadly applied to other fish pathogens like the whirling disease parasite and strain differentiation of bacterial pathogens to determine the mechanism of introduction into fish culture facilities that currently are not apparent. The same DNA sequence equipment would find application in trout and salmon genetic determination as well.
Recommendation:
Fund
Date:
Nov 5, 2002

Comment:

Fundable. We disagree with the CBFWA priority; this should be urgent. This is a well-written proposal from scientists who demonstrate high productivity and application of current methodologies. Their proposal for technology transfer is strengthened by their past success. The model transfer of IHNV strain typing technology to fish health labs serving the basin may serve for other significant pathogens.

The project sponsors provided an adequate response to the ISRP's preliminary review concerns. The proposers will incorporate repeated blind testing of virus isolates into the protocol without an increased budget. Prevention of virus spread and control of outbreaks will result from educated management decisions enabled by the project. Active control was an intended part of the proposal as submitted and the response convincingly explains that increased effort beyond that budgeted in the proposal will not be needed.

Two remaining issues merit additional consideration: (1) if M-clade IHNV is not in the upper Columbia, why not stop all transportation of fish to that area until all labs are trained and a response plan is developed; and (2) if IHN is transferable through seawater and in any environment with high fish densities, this could certainly be an issue for barged salmon or in holding areas of the river system. This virus likely merits high priority attention until it is better understood.


Recommendation:
Date:
Jan 21, 2003

Comment:

Statement of Potential Biological Benefit
This project provides IHNV clade typing services for a number of fish health managers at hatcheries and in ESU captive broodstock/rearing programs who need the information for managerial decisions on the fate of infected stocks. Often the decisions involve the release of hatchery fish in areas where they may interact and impact wild, ESA-listed stocks.

Comments
This project has a strong benefit to listed ESUs in the Columbia River Basin for several reasons. First, this group has provided IHNV clade typing services for a number of hatcheries and in ESU captive broodstock/rearing programs that needed the information for decisions on the fate of infected stocks. Often the decisions involve the release of hatchery fish in areas where they may interact and impact wild, ESA-listed stocks. Funding the proposal will provide the means to continue this critical function in the near-term. Secondly, the proposal will increase the knowledge of M clade IHNV and its geographical distribution which aids in decision-making regarding the disposition or transfer of infected fish. And last, the proposal seeks funding for transfer of the typing technology to regional fish health labs in order to standardize the technology to regional fish health labs, in order to standardize the technology (methodology, equipment, and phylogenetic analysis software) among all of the involved laboratories in the basin.

Already ESA Required?
No

Biop?
Yes


Recommendation:
Fund
Date:
Jun 2, 2003

Comment:

BPA Phase 3
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