Infectious Hematopoietic Necrosis Virus (HNV) Database
Entry ID:
HNV_777
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Summary
Infectious hematopoietic necrosis virus (IHNV) is a pathogen infecting primarily salmonid hosts and is endemic to the Pacific Northwest. Numerous IHNV isolations and IHN outbreaks have occurred since the early 1900's. We have characterized the midG sequence, a 303 nucleotide region in the middle of the glycoprotein (G) gene, of over 900 IHNV isolates through its ... endemic range. Genetic sequencing and phylogenetic analysis divided the isolates into three genogroups; U, M, and L. Generally, the genetic relatedness of the IHNV isolates correlates spatially with the site of isolation. The genogroup, spatial locale, temporal reference, and additional host traits associated with the viruses have been used to discern IHNV traffic patterns both on a broad scale (e.g. watersheds) and in discreet areas (e.g. hatchery outbreaks). In an effort to organize and disseminate the genetic, physical, and biological (GP Bio.) information for all the analyzed IHNV isolates we have catalogued them into a user-friendly searchable database that will be web-enabled and geo-referenced. Purpose: Each virus isolates biological profile data is divided into five fields: general information, host information, geographic information, sequence results, and biological results. The user can search for selected isolates with the same criteria (i.e. sockeye with the identical midG sequence type) and then also sort the selected isolates with other parameters (i.e. year of isolation and geographic region, etc.) It is our intent that database become a repository for data on future IHNV isolates with their corresponding profiles that can be utilized by other researchers, fish managers, and diagnosticians to facilitate decisions regarding fish management (e.g. stock transfers, stock isolation, disease quarantines, etc.).
Geographic Coverage
Spatial coordinates
N: 75.0 |
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S: 16.0 |
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E: -110.0 |
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W: -174.0 |
Temporal Coverage
Start Date:
1970-01-01
Stop Date:
2000-01-01
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Location Keywords
Science Keywords
ISO Topic Category
Quality
One of the strengths of the database will be the search parameters offered. A user can search for a matching IHNV nucleotide sequence and request spatial outputs simultaneously. We employed a technician to review the database records by exporting all the fields into an Excel spreadsheet and comparing the exported data for any outliers. In addition, we ... utilized the FileMaker Pro search feature to query the database for known genetic sequences and biological attributes to determine if the data was entered correctly. If multiple samples were taken during a disease outbreak and the diagnostic analyses indicated that the virus samples had the identical genetic sequences, we concluded that only one virus strain was responsible for the particular outbreak. Consequently, only one record was entered for that site at that time.
Access Constraints
The data will be available to other researchers when the database is made available online. Some of the geographical locations (i.e. Where the virus was isolated) for political sensitive regions may be "fuzzy" for the web-enabled database.
Use Constraints
Although these data have been processed successfully on a computer system at the Northwest Alliance for Computational Science and Engineering, no warranty expressed or implied is made regarding the accuracy or utility of the data on any other system or for general or scientific purposes, nor shall the act of distribution constitute any such warranty. This disclaimer ... applies both to individual use of the data and aggregate use with other data. It is strongly recommended that these data are directly acquired from a Northwest Alliance for Computational Science and Engineering server, and not indirectly through other sources which may have changed the data in some way. It is also strongly recommended that careful attention be paid to the contents of the metadata file associated with these data. The Northwest Alliance for Computational Science and Engineering shall not be held liable for improper or incorrect use of the data described and/or contained herein.
Ancillary Keywords
Data Set Progress
Originating Center
Data Center
Personnel
TYLER
B.
STEVENS
Role:
DIF AUTHOR
Phone:
(301) 614-6898
Fax:
301-614-5268
Email:
Tyler.B.Stevens at nasa.gov
Contact Address:
NASA Goddard Space Flight Center
Global Change Master Directory
City:
Greenbelt
Province or State:
MD
Postal Code:
20771
Country:
USA
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Related URL
Link:
GET DATA
Description:
Sequencer software can edit and analyze raw nucleotide sequence data.
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Publications/References
Originator: Emmenegger, E.J., Meyers, T.R., Burton, T.O., and Kurath, G. Publication Date: 2000 Title: Genetic Diversity and Epidemiology of Infectious Hematopoietic Necrosis Virus in Alaska Series Name: Dis. Aquat. Org. Issue Identification: 40:163-176 Originator: Troyer, R.M., LaPatra, S.E., and Kurath, G. Publication Date: 2001 Title: Genetic ... Analyses Reveal Unusually High Diversity of Infectious Hematopoietic Necrosis Virus in Rainbow Trout Aquaculture. Series Name: J. Gen. Virol. Issue Identification: 81:2823-2832 Originator: Emmenegger, E.J., and Kurath, G. Publication Date: 2002 Title: Genetic chacterization of infectious Hematopoietic Necrosis Virus of Coastal Salmonid Stocks in Washington State Series Name: J. Aquat. Anim.Health Issue Identification: 14:25-34 Originator: Kurath, G., Garver,K.A., Troyer, R.M., Emmenegger, E. J., Einer-Jensen, K., and Anderson, E.D. Publication Date: 2003 Title: Phylogeography of infectious hematopoietic necrosis virus in North America. Series Name: J. Gen. Virol. Issue Identification: 84:803-814 Originator: Kurath, G, G., Garver, K.A. Batts, W.N, and Emmenegger, E. (2005) Publication Date: 2005 Title: Article in Health and Diseases of Aquatic Organisms: Bilateral Perspectives. Proceedings of the Second Bilateral Conference between Russia and the United States 21 - 28 September 2003 Sheperdstown, West Virginia Publication Place: East Lansing, Michigan Publisher: Michigan State University Originator: Cipriano, R.C., Shchelkunoiv, I.S., and Faisal, M., editors Publication Date: 2005 Title: Health and Diseases of Aquatic Organisms: Bilateral Perspectives. Proceedings of the Second Bilateral Conference between Russia and the United States 21 - 28 September 2003 Publication Place: East Lansing, Michigan Publisher: Michigan State University
Creation and Review Dates
DIF Creation Date:
2007-03-12
Last DIF Revision Date:
2007-08-16
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