Return to Proposal Finder FY 2000 Proposal 20056

Proposal Table of Contents

Additional Documents

Section 1. General Administrative information
Section 2. Past accomplishments
Section 3. Relationships to other projects
Section 4. Objectives, tasks and schedules
Section 5. Budget
Section 6. References
Section 7. Abstract

Reviews and Recommendations
Title Type File Size File Date

Section 1. General Administrative Information

Title of Project Proposal Elucidate Traffic Patterns of Ihn Virus in the Columbia River Basin
BPA Project Proposal Number 20056
Business name of agency, institution,
or organization requesting funding
USGS-BRD, Western Fisheries Research Center
Business acronym (if appropriate) USGS

Proposal contact person or principal investigator

Name Gael Kurath
Mailing Address 6505 NE 65th St.
City, State, Zip Seattle, WA 98115
Phone 2065266583
Fax 2065266654
Manager of program authorizing this project
Review Cycle FY 2000
Province Mainstem/Systemwide
Subbasin Systemwide
Short Description RNase protection technology will be used to survey the genetic types of IHN virus throughout the Columbia Basin, to identify sources of disease outbreaks, and to infer viral traffic patterns in an effort to reduce the impact of IHNV on basin salmonids.
Target Species Oncorhynchus mykiss, O. tshawytscha, O. nerka

Project Location

[No information]

Reasonable and Prudent Alternatives (RPAs)

Sponsor-Reported Relevant RPAs

Sponsor listed no RPAs for this project proposal

Relevant RPAs based upon NMFS & BPA Review

NMFS and BPA did not associate any reasonable and prudent alternatives with this project proposal

NPPC Program Measure Number(s) which this project addresses: 2.1, 4.1, 7.2A.6, 7.2D.4, 7.2D.6, 7.2D.7
FWS/NMFS Biological Opinion Number(s) which this project addresses:
Other Planning Document References 1994 Final Report of the research priority sub-committee of the PNFHPC

CBFWA-Generated Information

Database Administrator notes on the history of this proposal form: None
Type of Project (assigned by CBFWA Analysts): anadromous

Section 2. Past Accomplishments

n/a or no information

Section 3. Relationships to Other Projects

n/a or no information

Section 4. Objectives, Tasks and Schedules

Objectives and Tasks

Objective Task
1. Analyze 81 IHN virus isolates by RNase protection assays to obtain genetic fingerprints of IHNV types throughout the Columbia River basin a. Assay 20 IHNV isolates from the lower Columbia sub-region
1. b. Assay 14 IHNV isolates from the lower mid-Columbia sub-region
1. c. Assay 19 IHNV isolates from the upper mid-Columbia sub-region
1. d. Assay 22 isolates from the lower Snake sub-region
1. e. Assay 6 isolates from the upper Snake sub-region
2. Obtain additional IHNV isolates to get a complete representation of IHNV throughout the basin. a. Obtain additional isolates as possible, through collaborations with colleagues
2. b. Assay additional isolates as in objective 1
3. Begin analysis of all data using “Molecular Analyst: Fingerprint Analysis” computer software a. Enter all genetic fingerprint patterns into the program to create a database of IHNV genetic types throughout the Columbia River Basin
3. b. Search the database for related patterns to infer virus traffic and sources of disease outbreaks in the basin

Objective Schedules and Costs

Objective Start Date End Date Measurable Biological Objectives Milestone FY 2000 Cost %
1 10/01/99 10/01/00 Number of IHNV isolates assayed 60.0%
2 10/01/99 10/01/00 Number of additional IHNV isolates obtained and assayed 10.0%
3 10/01/99 10/01/00 Number of fingerprint patterns archived and traffic links identified 30.0%

Section 5. Estimated Budget Summary

Itemized Budget

Item Note FY 2000 Cost
Personnel One full-time GS9 technician $ 32,478
Fringe WFRC rate 25% $ 8,120
Supplies radioisotope and supplies $ 10,000
Operating fedex charges for collaborators $ 400
Capital one computer dedicated to the database $ 2,000
Travel one meeting and 1-2 field trips $ 1,500
Indirect WFRC rate 38% $ 20,709
Total Itemized Budget $ 75,207

Total estimated budget

Total FY 2000 project cost $ 75,207
Amount anticipated from previously committed BPA Funds $ 0
Total FY 2000 budget request $ 75,207
FY 2000 forecast from 1999 $ 0
% change from forecast 0.0%

Reason for change in estimated budget

Not applicable

Reason for change in scope

Not applicable

Cost Sharing

Organization Item or service provided Amount Cash or In-Kind
USGS-WFRC .3 FTE of PI $ 17,300 unknown
USGS-WFRC .3 FTE of GS11 technician $ 12,180 unknown
USGS-WFRC annual radiation license $ 5,500 unknown
USGS-WFRC molecular analyst software programs and scanner $ 12,000 unknown


Outyear Budget Totals

Not applicable  

Other Budget Explanation

Not applicable

Section 6. References

Reference Watershed?
Anderson ED, HM Engelking, EJ Emmenegger, and G Kurath. 1996. Genetic diversity of field isolates of infectious hematopoietic necrosis virus: Analysis by ribonuclease protection assay. Abstract, Western Fish Disease Workshop, Corvallis, Oregon. No
Anderson ED, HM Engelking, EJ Emmenegger, and G Kurath. Molecular epizootiology of an IHN virus outbreak in wild kokanee demonstrated transmission to nearby heatchery stocks. (In preparation) No
Anderson ED, G Traxler, and G Kurath. Genetic diversity of British Columbian IHN virus isolates include the IHN strain associated with epizootics in farmed Atlantic salmon. (In preparation) No
Busch RA. 1983. Viral disease considerations in the commercial trout industry in Idaho. pp.84-100 In JC Leong and TY Barila, eds. Workshop on viral diseases of salmonid fishes in the Columbia River Basin. Bonneville Power Administration, Special pub... No
Emmenegger EJ, ED Anderson, G Kurath. 1996. Rapid genetic analysis of IHNV strains by Rnase protection assay. Abstract, Western Fish Disease Workshop, Corvallis, Oregon. No
Emmenegger EJ, T Meyer, T Burton, and G Kurath. Genetic diversity of Alaskan IHN virus isolates. (In preparation). No
Hsu YL, HM Engelking, and JC Leong. 1986. Occurrence of different types of infectious hematopoietic necrosis virus in fish. App. Env. Micro. 52:1353-1361. No
Kawaoka T and RG Webster. 1988. Molecular mechanism of acquisition of virulence in influenza virus in nature. Microb. Pathogen. 5:311-318. No
Kurath G, MEC Rey, and JA Dodds. 1992. Analysis of genetic heterogeneity within the type strain of satellite tobacco mosaic virus reveals several variants and a strong bias for G to A substitution mutations. Virology 189:233-244. No
Kurath G, KH Higman, and HV Bjorklund. 1995. The NV genes of fish rhabdoviruses: development of RNase protection assays for rapid assessment of genetic variation. Vet. Res. 26:477-485. No
La Patra SE, KA Lauda, ahd GR Jones. 1994. Antigenic variants of infectious hematopoietic necrosis virus and implications for vaccine development. Dis. Aquat. Org. 20:119-126. No
La Patra SE, KA Lauda, and AW Morton. 1991. Antigenic and virulence comparison of eight isolates of infectious hematopoietic necrosis virus from the Hagerman Valley, Idaho, USA. Proceedings of the Second International Symposium on Viruses of Lower V... No
Morse SS. 1991. Emerging viruses: defining the rules for viral traffic. Perspect. Biol. Med. 34:387-409. No
Morse SS. 1994. The viruses of the future? Emerging viruses and evolution. pp.325-335 In The evolutionary biology of viruses. SS Morse Ed., Raven Press, New York No
Nichol ST, JE Rowe, and JR Winton. 1995. Molecular epizootiology and evolution of the glycoprotein and non-virion genes of infectious hematopoietic necrosis virus, a fish rhabdovirus. Virus Res. 38:159-173. No
Oshima KH, CK Arakawa, KH Higman, ML Landolt, ST Nichol, and JR Winton. 1995. The genetic diversity and epizootiology of infectious hematopoietic necrosis virus. Virus Res. 35:123-141. No
Ristow SS and JM Arnzen. 1989. Development of monoclonal antibodies that recognize a Type 2 specific and common epitope on the nucleoprotein of infectious hematopoietic necrosis virus. J. Aquat. Anim. Health 1:119-125. No
Ristow SS and J Arnzen de Avila. 1991. Monoclonal antibodies to the glycoprotein and nucleoprotein of infectious hematopoietic necrosis virus (IHNV) reveal differences among isolates of the virus by fluorescence, neutralization, and electrophoresis. ... No
Rucker RR, WJ Whipple, JR Parvin, and CA Evans. 1953. A contagious disease of salmon possibly of virus origin. U.S. Fish Wildlife Serv. Fish. Bull. 54:35-46. No
Sleat DE and P Palukaitis. 1990. Site-directed mutagenesis of a plant viral satellite RNA changes its phenotype from ameliorative to necrogenic. Proc. Natl. Acad. Sci. 87:2946-2950. No
Stewart BC, R Brunson, SE La Patra, P Reno, T Sheldrake, and JR Winton. 1994. Final report of the research priority subcommittee of the Pacific Northwest Fish Health Protection Committee. No
Troyer RM, SE La Patra, and G Kurath. RNase protection analyses confirm high genetic diversity of IHN virus isolates from the Snake River in Idaho and show multiple co-circulating virus lineages. (In preparation). No
Walker PJ, A Benmansour, CH Calisher, R Dietzgen, RX Fang, AO Jackson, G Kurath, JC Leong, S Nadin-Davies, RB Tesh, and N Tordo. Family Rhabdoviridae, In "The seventh report of the International Committee for Virus Taxonomy". Springer Verlag, In pres... No
Winter E, F Yamamoto, C Almoguera, and M Perucho. 1985. A method to detect and characterize point mutations in tanscribed genes: amplification and over expression of the mutant c-Ki-ras allele in human tumor cells. Proc. Natl. Acad. Sci. 82:7575-757... No
Winton JR. 1991. Recent advances in detection and control of infectious hematopoietic necrosis virus in aquaculture. Ann. Rev. Fish Dis. 83-93. No
Winton JR, CK Arakawa, CN Lannan, and JL Fryer. 1988. Neutralizing monoclonal antibodies recognize antigenic variants among isolates of infectious hematopoietic necrosis virus. Dis. Aquat. Org. 4:199-204. No
Wolf K.1988. Fish viruses and fish viral diseases. Cornell University Press, Ithaca, NY., pp.83-114. No

Section 7. Abstract


Ribonuclease protection analysis technology has been developed for differentiating field isolates of IHN virus by genetic fingerprinting. In two localized studies of IHNV field isolates from the Deschutes and upper Snake Rivers these fingerprints provided data that documented transmission of IHNV from wild fish to hatchery populations, and identified local and distant viral sources of disease outbreaks. The high resolution provided by this new technology indicated more complex and dynamic virus traffic patterns than were previously understood. This one year innovative research proposal involves a systemwide survey of genetic types of IHNV throughout the Columbia River Basin, using a collection of 81 IHNV isolates already compiled by collaboration with Columbia Basin fish health professionals. This collection represents 27 locations in 15 different sub-basins over 25 years, including virus isolated from wild and hatchery fish of different species and life stages, and ESA listed chinook. Fingerprint analysis by a computerized database can identify links indicating sources of disease outbreaks, frequency of virus introductions, and directions of virus traffic. This information will assist hatchery managers design strategies to eliminate sources of IHNV, and help resource managers avoid risks associated with movements of fish stocks and their pathogens. The ultimate goal of the research is to improve overall health of wild and hatchery salmonids by reducing the impact of IHNV disease in the Columbia Basin. Relative to the 1994 FWP, this proposal addresses the systemwide goal of creating a healthy Columbia Basin, and specific fish health measures 7.2A.6, 7.2D.4, 7.2D.6, and 7.2D.7.

Reviews and Recommendations

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

This project has not yet been reviewed

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