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Research Project: Integrated Research to Improve On-Farm Animal Health in Salmonid Aquaculture

Location: Cool and Cold Water Aquaculture Research

Title: Draft genome sequence of the fish pathogen Flavobacterium columnare strain CSF-298-10

Author
item Evenhuis, Jason
item LA PATRA, SCOTT - Clear Springs Foods, Inc
item GRAF, JOERG - University Of Connecticut

Submitted to: Genome Announcements
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 2/16/2017
Publication Date: 4/13/2017
Publication URL: https://handle.nal.usda.gov/10113/5763099
Citation: Evenhuis, J., La Patra, S.E., Graf, J. 2017. Draft genome sequence of the fish pathogen Flavobacterium columnare strain CSF-298-10. Genome Announcements. 5(15):e00173.17. doi:10.1128/genomeA.00173-17.

Interpretive Summary: Columnaris disease in rainbow trout is caused by the pathogen Flavobacterium columnare. We report the sequencing and assembly of a draft genome for the Flavobacterium columnare strain CSF-298-10. This strain was isolated from a diseased rainbow trout and is currently being used as a reference strain for a breeding program at the USDA National Center for Cool and Cold Water Aquaculture. The CSF-298-10 strain has similar molecular characteristics to previously published genomovar I Flavobacterium columnare isolates. Determining the genome of the CSF-298-10 strain will improve our understanding of host versus pathogen interactions and aid in a directed breeding program to improve the resistance of rainbow trout toward Flavobacterium columnare. This work will also help identify virulence factors and potential targets for vaccine development, with the ultimate goal of reducing losses attributed to columnaris disease and curbing a farmers need for antibiotics.

Technical Abstract: We announce the genome assembly of Flavobacterium columnare strain CSF-298-10, a strain isolated from an outbreak of Columnaris disease at a commercial trout farm in Snake River Valley Idaho, USA. The complete genome consists of 13 contigs totaling 3,284,579 bp, average G+C content of 31.5% and 2933 predicted coding genes.